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Wang X, Li S, Wu D, Fan A, Yao X, Lyu M, Chen G, Yang Y. Soil microbes deal with the nitrogen deposition enhanced phosphorus limitation by shifting community structure in an old-growth subtropical forest. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 928:172530. [PMID: 38631644 DOI: 10.1016/j.scitotenv.2024.172530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2023] [Revised: 03/27/2024] [Accepted: 04/14/2024] [Indexed: 04/19/2024]
Abstract
Elevated atmospheric nitrogen (N) deposition potentially enhances the degree of phosphorus (P) limitation in tropical and subtropical forests. However, it remains elusive that how soil microorganisms deal with the N deposition-enhanced P limitation. We collected soils experienced 9 years of manipulative N input at various rates (0, 40, and 80 kg N ha-1 y-1) in an old-growth subtropical natural forest. We measured soil total and available carbon (C), N and P, microbial biomass C, N and P, enzyme activities involved in C, N and P acquisition, microbial community structure, as well as net N and P mineralization. Additionally, we calculated element use efficiency and evaluated microbial homeostasis index. Our findings revealed that N input increased microbial biomass C:P (MBC:P) and N:P (MBN:P) ratios. The homeostasis indexes of MBC:P and MBN:P were 0.68 and 0.75, respectively, indicating stoichiometric flexibility. Interestingly, MBC:P and MBN:P correlated significantly with the fungi:bacteria ratio (F:B), not with N and P use efficiencies, net N and P mineralization, and enzyme C:P (EEAC:P) and N:P (EEAN:P) ratios. Furthermore, EEAC:P and EEAN:P correlated positively with F:B but did not negatively correlate with the C:P and N:P ratios of available resources and microbial biomass. The effects of N deposition on MBC:P, MBN:P and EEAN:P became insignificant when including F:B as a covariate. These findings suggest that microbes flexibly adapted to the N deposition enhanced P limitation by changing microbial community structure, which not only alter microbial biomass C:N:P stoichiometry, but also the enzyme production strategy. In summary, our research advances our understanding of how soil microorganisms deal with the N deposition-enhanced soil P limitation in subtropical forests.
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Affiliation(s)
- Xiaohong Wang
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Shiyining Li
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Dongmei Wu
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Ailian Fan
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Xiaodong Yao
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Maokui Lyu
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
| | - Guangshui Chen
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China.
| | - Yusheng Yang
- Key Laboratory of Humid Subtropical Eco-geographical Process of Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou 350117, China; Fujian Sanming Forest Ecosystem National Observation and Research Station, Fujian Normal University, Fuzhou 350117, China; State Key Laboratory of Humid Subtropical Mountain Ecology, Ministry of Science and Technology and Fujian Province Funded, Fuzhou 350117, China
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Zhu QZ, Yin X, Taubner H, Wendt J, Friedrich MW, Elvert M, Hinrichs KU, Middelburg JJ. Secondary production and priming reshape the organic matter composition in marine sediments. SCIENCE ADVANCES 2024; 10:eadm8096. [PMID: 38758798 PMCID: PMC11100564 DOI: 10.1126/sciadv.adm8096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Accepted: 04/11/2024] [Indexed: 05/19/2024]
Abstract
Organic matter (OM) transformations in marine sediments play a crucial role in the global carbon cycle. However, secondary production and priming have been ignored in marine biogeochemistry. By incubating shelf sediments with various 13C-labeled algal substrates for 400 days, we show that ~65% of the lipids and ~20% of the proteins were mineralized by numerically minor heterotrophic bacteria as revealed by RNA stable isotope probing. Up to 11% of carbon from the algal lipids was transformed into the biomass of secondary producers as indicated by 13C incorporation in amino acids. This biomass turned over throughout the experiment, corresponding to dynamic microbial shifts. Algal lipid addition accelerated indigenous OM degradation by 2.5 to 6 times. This priming was driven by diverse heterotrophic bacteria and sulfur- and iron-cycling bacteria and, in turn, resulted in extra secondary production, which exceeded that stimulated by added substrates. These interactions between degradation, secondary production, and priming govern the eventual fate of OM in marine sediments.
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Affiliation(s)
- Qing-Zeng Zhu
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
| | - Xiuran Yin
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Microbial Ecophysiology Group, Faculty of Biology/Chemistry, University of Bremen, Bremen, Germany
- State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, China
| | - Heidi Taubner
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Faculty of Geosciences, University of Bremen, Bremen, Germany
| | - Jenny Wendt
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Faculty of Geosciences, University of Bremen, Bremen, Germany
| | - Michael W. Friedrich
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Microbial Ecophysiology Group, Faculty of Biology/Chemistry, University of Bremen, Bremen, Germany
| | - Marcus Elvert
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Faculty of Geosciences, University of Bremen, Bremen, Germany
| | - Kai-Uwe Hinrichs
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Faculty of Geosciences, University of Bremen, Bremen, Germany
| | - Jack J. Middelburg
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
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Zhao X, Tian P, Zhang W, Wang Q, Guo P, Wang Q. Nitrogen deposition caused higher increases in plant-derived organic carbon than microbial-derived organic carbon in forest soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 925:171752. [PMID: 38494032 DOI: 10.1016/j.scitotenv.2024.171752] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Revised: 02/19/2024] [Accepted: 03/14/2024] [Indexed: 03/19/2024]
Abstract
Plant- and microbial-derived organic carbon, two components of the soil organic carbon (SOC) pool in terrestrial ecosystems, are regulated by increased atmospheric nitrogen (N) deposition. However, the spatial patterns and driving factors of the responses of plant- and microbial-derived SOC to N deposition in forests are not clear, which hinders our understanding of SOC sequestration. In this study, we explored the spatial patterns of plant- and microbial-derived SOC, and their responses to N addition and elucidated their underlying mechanisms in forest soils receiving N addition at four sites with various soil and climate conditions. Plant- and microbial-derived SOC were quantified using lignin phenols and amino sugars, respectively. N addition increased the total microbial residues by 20.5% on average ranging from 9.4% to 34.0% in temperate forests but not in tropical forests, and the increase was mainly derived from fungal residues. Lignin phenols increased more in temperate forests (average of 63.8%) than in tropical forests (average of 15.7%) following N addition. The ratio of total amino sugars to lignin phenols was higher in temperate forests than in tropical forests and decreased with N addition in temperate forests. N addition mainly regulated soil microbial residues by affecting pH, SOC, exchangeable Ca2+, gram-negative bacteria biomass, and the C:N ratio, while it mainly had indirect effects on lignin phenols by altering SOC, soil C:N ratio, and gram-negative bacteria biomass. Overall, our findings suggested that N deposition caused a greater increase in plant-derived SOC than in microbial-derived SOC and that plant-derived SOC would have a more important role in sequestering SOC under increasing N deposition in forest ecosystems, particularly in temperate forests.
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Affiliation(s)
- Xuechao Zhao
- Anhui Province Key Laboratory of Forest Resources and Silviculture, Anhui Agricultural University, Hefei 230036, China; Huitong Experimental Station of Forest Ecology, CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Shenyang 110016, China
| | - Peng Tian
- Anhui Province Key Laboratory of Forest Resources and Silviculture, Anhui Agricultural University, Hefei 230036, China
| | - Wei Zhang
- South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
| | - Qinggui Wang
- School of Life Sciences, Qufu Normal University, Qufu 273165, China
| | - Peng Guo
- Department of Chemical and Environmental Engineering, Hebei College of Industry and Technology, Shijiazhuang 050091, China
| | - Qingkui Wang
- Anhui Province Key Laboratory of Forest Resources and Silviculture, Anhui Agricultural University, Hefei 230036, China; Huitong Experimental Station of Forest Ecology, CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Shenyang 110016, China.
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Li H, Wang Z, Feng B, Shi J, Liao M, He K, Tian H, Megharaj M, He W. Arsenic stress on soil microbial nutrient metabolism interpreted by microbial utilization of dissolved organic carbon. JOURNAL OF HAZARDOUS MATERIALS 2024; 470:134232. [PMID: 38593666 DOI: 10.1016/j.jhazmat.2024.134232] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2023] [Revised: 04/02/2024] [Accepted: 04/05/2024] [Indexed: 04/11/2024]
Abstract
In a 120-day microcosm incubation experiment, we investigated the impact of arsenic contamination on soil microbial nutrient metabolism, focusing on carbon cycling processes. Our study encompassed soil basal respiration, key enzyme activities (particularly, β-1,4-N-acetylglucosaminidase and phosphatases), microbial biomass, and community structure. Results revealed a substantial increase (1.21-2.81 times) in β-1,4-N-acetylglucosaminidase activities under arsenic stress, accompanied by a significant decrease (9.86%-45.20%) in phosphatase activities (sum of acid and alkaline phosphatases). Enzymatic stoichiometry analysis demonstrated the mitigation of microbial C and P requirements in response to arsenic stress. The addition of C-sources alleviated microbial C requirements but exacerbated P requirements, with the interference amplitude increasing with the complexity of the C-source. Network analysis unveiled altered microbial nutrient requirements and an increased resistance process of microbes under arsenic stress. Microbial carbon use efficiency (CUE) and basal respiration significantly increased (1.17-1.59 and 1.18-3.56 times, respectively) under heavy arsenic stress (500 mg kg-1). Arsenic stress influenced the relative abundances of microbial taxa, with Gemmatimonadota increasing (5.5-50.5%) and Bacteroidota/ Nitrospirota decreasing (31.4-47.9% and 31.2-63.7%). Application of C-sources enhanced microbial resistance to arsenic, promoting cohesion among microorganisms. These findings deepen our understanding of microbial nutrient dynamics in arsenic-contaminated areas, which is crucial for developing enzyme-based toxicity assessment systems for soil arsenic contamination.
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Affiliation(s)
- Huayong Li
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Ziquan Wang
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Bingcong Feng
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Jing Shi
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Maoyuan Liao
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Kangming He
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Haixia Tian
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China
| | - Mallavarapu Megharaj
- Global Centre for Environmental Remediation, College of Engineering, Science and Environment, University of Newcastle, Callaghan, NSW 2308, Australia
| | - Wenxiang He
- College of Natural Resources and Environment, Northwest A&F University, Key Laboratory of Plant Nutrition and Agro-environment in Northwest China, Ministry of Agriculture, Yangling 712100, Shaanxi, China.
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Liao J, Dou Y, Wang B, Gunina A, Yang Y, An S, Chang SX. Soil stoichiometric imbalances constrain microbial-driven C and N dynamics in grassland. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 924:171655. [PMID: 38492605 DOI: 10.1016/j.scitotenv.2024.171655] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Revised: 03/07/2024] [Accepted: 03/09/2024] [Indexed: 03/18/2024]
Abstract
Grassland restoration leads to excessive soils with carbon (C) and nitrogen (N) contents that are inadequate to fulfill the requirements of microorganisms. The differences in the stoichiometric ratios of these elements could limit the activity of microorganisms, which ultimately affects the microbial C, N use efficiencies (CUE, NUE) and the dynamics of soil C and N. The present study was aimed at quantifying the soil microbial nutrient limitation and exploring the mechanisms underlying microbial-induced C and N dynamics in chrono-sequence of restored grasslands. It was revealed that grassland restoration increased microbial C, N content, microbial C, N uptake, and microbial CUE and NUE, while the threshold elemental ratio (the C:N ratio) decreased, which is mainly due to the synergistic effect of the microbial biomass and enzymatic stoichiometry imbalance after grassland restoration. Finally, we present a framework for the nutrient limitation strategies that stoichiometric imbalances constrain microbial-driven C and N dynamics. These results are the direct evidence of causal relations between stoichiometric ratios, microbial responses, and soil C, N cycling.
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Affiliation(s)
- Jiaojiao Liao
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an 710061, China; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Ministry of Water Resources, CAS, Yangling 712100, China
| | - Yanxing Dou
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Ministry of Water Resources, CAS, Yangling 712100, China.
| | - Baorong Wang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Ministry of Water Resources, CAS, Yangling 712100, China
| | - Anna Gunina
- Department of Environmental Chemistry, University of Kassel, Witzenhausen, Germany
| | - Yang Yang
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an 710061, China; National Observation and Research Station of Earth Critical Zone on the Loess Plateau, Xi'an, Shaanxi 710061, China.
| | - Shaoshan An
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Ministry of Water Resources, CAS, Yangling 712100, China.
| | - Scott X Chang
- Department of Renewable Resources, University of Alberta, Edmonton T6G 2E3, Canada.
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Wu S, Fu W, Rillig MC, Chen B, Zhu YG, Huang L. Soil organic matter dynamics mediated by arbuscular mycorrhizal fungi - an updated conceptual framework. THE NEW PHYTOLOGIST 2024; 242:1417-1425. [PMID: 37529867 DOI: 10.1111/nph.19178] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 07/13/2023] [Indexed: 08/03/2023]
Abstract
Arbuscular mycorrhizal (AM) fungi play an important role in soil organic matter (SOM) formation and stabilization. Previous studies have emphasized organic compounds produced by AM fungi as persistent binding agents for aggregate formation and SOM storage. This concept overlooks the multiple biogeochemical processes mediated by AM fungal activities, which drive SOM generation, reprocessing, reorganization, and stabilization. Here, we propose an updated conceptual framework to facilitate a mechanistic understanding of the role of AM fungi in SOM dynamics. In this framework, four pathways for AM fungi-mediated SOM dynamics are included: 'Generating', AM fungal exudates and biomass serve as key sources of SOM chemodiversity; 'Reprocessing', hyphosphere microorganisms drive SOM decomposition and resynthesis; 'Reorganizing', AM fungi mediate soil physical changes and influence SOM transport, redistribution, transformation, and storage; and 'Stabilizing', AM fungi drive mineral weathering and organo-mineral interactions for SOM stabilization. Moreover, we discuss the AM fungal role in SOM dynamics at different scales, especially when translating results from small scales to complex larger scales. We believe that working with this conceptual framework can allow a better understanding of AM fungal role in SOM dynamics, therefore facilitating the development of mycorrhiza-based technologies toward soil health and global change mitigation.
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Affiliation(s)
- Songlin Wu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- Centre for Mined Land Rehabilitation, Sustainable Minerals Institute, The University of Queensland, Brisbane, Qld, 4072, Australia
| | - Wei Fu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Matthias C Rillig
- Institute of Biology, Freie Universität Berlin, Berlin, 14195, Germany
| | - Baodong Chen
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yong-Guan Zhu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Longbin Huang
- Centre for Mined Land Rehabilitation, Sustainable Minerals Institute, The University of Queensland, Brisbane, Qld, 4072, Australia
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Dang C, Morrissey EM. The size and diversity of microbes determine carbon use efficiency in soil. Environ Microbiol 2024; 26:e16633. [PMID: 38733078 DOI: 10.1111/1462-2920.16633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 04/24/2024] [Indexed: 05/13/2024]
Abstract
Soil is home to a multitude of microorganisms from all three domains of life. These organisms and their interactions are crucial in driving the cycling of soil carbon. One key indicator of this process is Microbial Carbon Use Efficiency (CUE), which shows how microbes influence soil carbon storage through their biomass production. Although CUE varies among different microorganisms, there have been few studies that directly examine how biotic factors influence CUE. One such factor could be body size, which can impact microbial growth rates and interactions in soil, thereby influencing CUE. Despite this, evidence demonstrating a direct causal connection between microbial biodiversity and CUE is still scarce. To address these knowledge gaps, we conducted an experiment where we manipulated microbial body size and biodiversity through size-selective filtering. Our findings show that manipulating the structure of the microbial community can reduce CUE by approximately 65%. When we restricted the maximum body size of the microbial community, we observed a reduction in bacterial diversity and functional potential, which in turn lowered the community's CUE. Interestingly, when we included large body size micro-eukarya in the soil, it shifted the soil carbon cycling, increasing CUE by approximately 50% and the soil carbon to nitrogen ratio by about 25%. Our metrics of microbial diversity and community structure were able to explain 36%-50% of the variation in CUE. This highlights the importance of microbial traits, community structure and trophic interactions in mediating soil carbon cycling.
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Affiliation(s)
- Chansotheary Dang
- Division of Plant and Soil Sciences, West Virginia University, Morgantown, West Virginia, USA
| | - Ember M Morrissey
- Division of Plant and Soil Sciences, West Virginia University, Morgantown, West Virginia, USA
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Zhang G, Bai J, Zhai Y, Jia J, Zhao Q, Wang W, Hu X. Microbial diversity and functions in saline soils: A review from a biogeochemical perspective. J Adv Res 2024; 59:129-140. [PMID: 37392974 PMCID: PMC11081963 DOI: 10.1016/j.jare.2023.06.015] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2023] [Revised: 06/24/2023] [Accepted: 06/27/2023] [Indexed: 07/03/2023] Open
Abstract
BACKGROUND Soil salinization threatens food security and ecosystem health, and is one of the important drivers to the degradation of many ecosystems around the world. Soil microorganisms have extremely high diversity and participate in a variety of key ecological processes. They are important guarantees for soil health and sustainable ecosystem development. However, our understanding of the diversity and function of soil microorganisms under the change of increased soil salinization is fragmented. AIM OF REVIEW Here, we summarize the changes in soil microbial diversity and function under the influence of soil salinization in diverse natural ecosystems. We particularly focus on the diversity of soil bacteria and fungi under salt stress and the changes in their emerging functions (such as their mediated biogeochemical processes). This study also discusses how to use the soil microbiome in saline soils to deal with soil salinization for supporting sustainable ecosystems, and puts forward the knowledge gaps and the research directions that need to be strengthened in the future. KEY SCIENTIFIC CONCEPTS OF REVIEW Due to the rapid development of molecular-based biotechnology (especially high-throughput sequencing technology), the diversity and community composition and functional genes of soil microorganisms have been extensively characterized in different habitats. Clarifying the responding pattern of microbial-mediated nutrient cycling under salt stress and developing and utilizing microorganisms to weaken the adverse effects of salt stress on plants and soil, which are of guiding significance for agricultural production and ecosystem management in saline lands.
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Affiliation(s)
- Guangliang Zhang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, PR China; Advanced Institute of Natural Sciences, Beijing Normal University, Zhuhai 519087, PR China
| | - Junhong Bai
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, PR China.
| | - Yujia Zhai
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, PR China
| | - Jia Jia
- Henan Key Laboratory of Ecological Environment Protection and Restoration of Yellow River Basin, Yellow River Institute of Hydraulic Research, Zhengzhou 45003, PR China
| | - Qingqing Zhao
- Shandong Provincial Key Laboratory of Applied Microbiology, Ecology Institute, Qilu University of Technology (Shandong Academy of Sciences), Ji'nan 250103, PR China
| | - Wei Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, PR China
| | - Xingyun Hu
- Fujian Provincial Key Laboratory for Subtropical Resources and Environment, Fujian Normal University, Fuzhou 350007, PR China
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Hashemi S, Laitinen R, Nikoloski Z. Models and molecular mechanisms for trade-offs in the context of metabolism. Mol Ecol 2024; 33:e16879. [PMID: 36773330 DOI: 10.1111/mec.16879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2022] [Revised: 01/19/2023] [Accepted: 02/07/2023] [Indexed: 02/13/2023]
Abstract
Accumulating evidence for trade-offs involving metabolic traits has demonstrated their importance in the evolution of organisms. Metabolic models with different levels of complexity have already been considered when investigating mechanisms that explain various metabolic trade-offs. Here we provide a systematic review of modelling approaches that have been used to study and explain trade-offs between: (i) the kinetic properties of individual enzymes, (ii) rates of metabolic reactions, (iii) the rate and yield of metabolic pathways and networks, (iv) different metabolic objectives in single organisms and in metabolic communities, and (v) metabolic concentrations. In providing insights into the mechanisms underlying these five types of metabolic trade-offs obtained from constraint-based metabolic modelling, we emphasize the relationship of metabolic trade-offs to the classical black box Y-model that provides a conceptual explanation for resource acquisition-allocation trade-offs. In addition, we identify several pressing concerns and offer a perspective for future research in the identification and manipulation of metabolic trade-offs by relying on the toolbox provided by constraint-based metabolic modelling for single organisms and microbial communities.
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Affiliation(s)
- Seirana Hashemi
- Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
- Systems Biology and Mathematical Modelling, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Roosa Laitinen
- Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Zoran Nikoloski
- Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
- Systems Biology and Mathematical Modelling, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
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Xu Q, Li L, Guo J, Guo H, Liu M, Guo S, Kuzyakov Y, Ling N, Shen Q. Active microbial population dynamics and life strategies drive the enhanced carbon use efficiency in high-organic matter soils. mBio 2024; 15:e0017724. [PMID: 38376207 PMCID: PMC10936188 DOI: 10.1128/mbio.00177-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2024] [Accepted: 01/30/2024] [Indexed: 02/21/2024] Open
Abstract
Microbial carbon use efficiency (CUE) is a critical parameter that controls carbon storage in soil, but many uncertainties remain concerning adaptations of microbial communities to long-term fertilization that impact CUE. Based on H218O quantitative stable isotope probing coupled with metagenomic sequencing, we disentangled the roles of active microbial population dynamics and life strategies for CUE in soils after a long-term (35 years) mineral or organic fertilization. We found that the soils rich in organic matter supported high microbial CUE, indicating a more efficient microbial biomass formation and a greater carbon sequestration potential. Organic fertilizers supported active microbial communities characterized by high diversity and a relative increase in net growth rate, as well as an anabolic-biased carbon cycling, which likely explains the observed enhanced CUE. Overall, these results highlight the role of population dynamics and life strategies in understanding and predicting microbial CUE and sequestration in soil.IMPORTANCEMicrobial CUE is a major determinant of global soil organic carbon storage. Understanding the microbial processes underlying CUE can help to maintain soil sustainable productivity and mitigate climate change. Our findings indicated that active microbial communities, adapted to long-term organic fertilization, exhibited a relative increase in net growth rate and a preference for anabolic carbon cycling when compared to those subjected to chemical fertilization. These shifts in population dynamics and life strategies led the active microbes to allocate more carbon to biomass production rather than cellular respiration. Consequently, the more fertile soils may harbor a greater microbially mediated carbon sequestration potential. This finding is of great importance for manipulating microorganisms to increase soil C sequestration.
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Affiliation(s)
- Qicheng Xu
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
- Centre for Grassland Microbiome, State Key Laboratory of Grassland Agro-ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, China
| | - Ling Li
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Junjie Guo
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Hanyue Guo
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Manqiang Liu
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
- Centre for Grassland Microbiome, State Key Laboratory of Grassland Agro-ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, China
| | - Shiwei Guo
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, University of Gottingen, Göttingen, Germany
- Department of Agricultural Soil Science, University of Gottingen, Göttingen, Germany
- Peoples Friendship University of Russia (RUDN University), Moscow, Russia
| | - Ning Ling
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
- Centre for Grassland Microbiome, State Key Laboratory of Grassland Agro-ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, China
| | - Qirong Shen
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
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11
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Ma L, Zhou G, Zhang J, Jia Z, Zou H, Chen L, Zhang C, Ma D, Han C, Duan Y. Long-term conservation tillage enhances microbial carbon use efficiency by altering multitrophic interactions in soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 915:170018. [PMID: 38224879 DOI: 10.1016/j.scitotenv.2024.170018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2023] [Revised: 12/03/2023] [Accepted: 01/06/2024] [Indexed: 01/17/2024]
Abstract
Microbial carbon (C) use efficiency (CUE) plays a key role in soil C storage. The predation of protists on bacteria and fungi has potential impacts on the global C cycle. However, under conservation tillage conditions, the effects of multitrophic interactions on soil microbial CUE are still unclear. Here, we investigate the multitrophic network (especially the keystone ecological cluster) and its regulation of soil microbial CUE and soil organic C (SOC) under different long-term (15-year) tillage practices. We found that conservation tillage (CT) significantly enhanced microbial CUE, turnover, and SOC (P < 0.05) compared to traditional tillage (control, CK). At the same time, tillage practice and soil depth had significant effects on the structure of fungal and protistan communities. Furthermore, the soil biodiversity of the keystone cluster was positively correlated with the microbial physiological traits (CUE, microbial growth rate (MGR), microbial respiration rate (Rs), microbial turnover) and SOC (P < 0.05). Protistan richness played the strongest role in directly shaping the keystone cluster. Compared with CK, CT generally enhanced the correlation between microbial communities and microbial physiological characteristics and SOC. Overall, our results illustrate that the top-down control (the organisms at higher trophic levels affect the organisms at lower trophic levels) of protists in the soil micro-food web plays an important role in improving microbial CUE under conservation tillage. Our findings provide a theoretical basis for promoting the application of protists in targeted microbial engineering and contribute to the promotion of conservation agriculture and the improvement of soil C sequestration potential.
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Affiliation(s)
- Ling Ma
- College of Land and Environment, Shenyang Agricultural University, National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, Key Laboratory of Arable Land Conservation in Northeast China, Ministry of Agriculture and Rural Affairs, Shenyang 110866, China
| | - Guixiang Zhou
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Jiabao Zhang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China.
| | - Zhongjun Jia
- Chinese Academy of Sciences, Northeast Institute of Geography and Agroecology, Changchun 130102, China
| | - Hongtao Zou
- College of Land and Environment, Shenyang Agricultural University, National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, Key Laboratory of Arable Land Conservation in Northeast China, Ministry of Agriculture and Rural Affairs, Shenyang 110866, China
| | - Lin Chen
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Congzhi Zhang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Donghao Ma
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Changdong Han
- College of Land and Environment, Shenyang Agricultural University, National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, Key Laboratory of Arable Land Conservation in Northeast China, Ministry of Agriculture and Rural Affairs, Shenyang 110866, China
| | - Yan Duan
- Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230031, China
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12
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Cui H, He C, Zheng W, Jiang Z, Yang J. Effects of nitrogen addition on rhizosphere priming: The role of stoichiometric imbalance. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 914:169731. [PMID: 38163589 DOI: 10.1016/j.scitotenv.2023.169731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 12/24/2023] [Accepted: 12/26/2023] [Indexed: 01/03/2024]
Abstract
Nitrogen (N) input has a significant impact on the availability of carbon (C), nitrogen (N), and phosphorus (P) in the rhizosphere, leading to an imbalanced stoichiometry in microbial demands. This imbalance can result in energy or nutrient limitations, which, in turn, affect C dynamics during plant growth. However, the precise influence of N addition on the C:N:P imbalance ratio and its subsequent effects on rhizosphere priming effects (RPEs) remain unclear. To address this gap, we conducted a 75-day microcosm experiment, varying N addition rates (0, 150, 300 kg N ha-1), to examine how microbes regulate RPE by adapting to stoichiometry and maintaining homeostasis in response to N addition, using the 13C natural method. Our result showed that N input induced a stoichiometric imbalance in C:N:P, leading to P or C limitation for microbes during plant growth. Microbes responded by adjusting enzymatic stoichiometry and functional taxa to preserve homeostasis, thereby modifying the threshold element ratios (TERs) to cope with the C:N:P imbalance. Microbes adapted to the stoichiometric imbalance by reducing TER, which was attributed to a reduction in carbon use efficiency. Consequently, we observed higher RPE under P limitation, whereas the opposite trend was observed under C or N limitation. These results offer novel insights into the microbial regulation of RPE variation under different soil nutrient conditions and contribute to a better understanding of soil C dynamics.
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Affiliation(s)
- Hao Cui
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Chao He
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Weiwei Zheng
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Zhenhui Jiang
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, Zhejiang, China.
| | - Jingping Yang
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China.
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13
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Tao X, Yang Z, Feng J, Jian S, Yang Y, Bates CT, Wang G, Guo X, Ning D, Kempher ML, Liu XJA, Ouyang Y, Han S, Wu L, Zeng Y, Kuang J, Zhang Y, Zhou X, Shi Z, Qin W, Wang J, Firestone MK, Tiedje JM, Zhou J. Experimental warming accelerates positive soil priming in a temperate grassland ecosystem. Nat Commun 2024; 15:1178. [PMID: 38331994 PMCID: PMC10853207 DOI: 10.1038/s41467-024-45277-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Accepted: 01/19/2024] [Indexed: 02/10/2024] Open
Abstract
Unravelling biosphere feedback mechanisms is crucial for predicting the impacts of global warming. Soil priming, an effect of fresh plant-derived carbon (C) on native soil organic carbon (SOC) decomposition, is a key feedback mechanism that could release large amounts of soil C into the atmosphere. However, the impacts of climate warming on soil priming remain elusive. Here, we show that experimental warming accelerates soil priming by 12.7% in a temperate grassland. Warming alters bacterial communities, with 38% of unique active phylotypes detected under warming. The functional genes essential for soil C decomposition are also stimulated, which could be linked to priming effects. We incorporate lab-derived information into an ecosystem model showing that model parameter uncertainty can be reduced by 32-37%. Model simulations from 2010 to 2016 indicate an increase in soil C decomposition under warming, with a 9.1% rise in priming-induced CO2 emissions. If our findings can be generalized to other ecosystems over an extended period of time, soil priming could play an important role in terrestrial C cycle feedbacks and climate change.
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Affiliation(s)
- Xuanyu Tao
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Zhifeng Yang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Jiajie Feng
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Siyang Jian
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China.
| | - Colin T Bates
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Gangsheng Wang
- Institute for Water-Carbon Cycles and Carbon Neutrality, and State Key Laboratory of Water Resources Engineering and Management, Wuhan University, 430072, Wuhan, China
| | - Xue Guo
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China
| | - Daliang Ning
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Megan L Kempher
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Xiao Jun A Liu
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yang Ouyang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Shun Han
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Linwei Wu
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yufei Zeng
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China
| | - Jialiang Kuang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Ya Zhang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Xishu Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Zheng Shi
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Wei Qin
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Jianjun Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academic of Sciences, 210008, Nanjing, China
| | - Mary K Firestone
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, California, CA, 94720, USA
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - James M Tiedje
- Center for Microbial Ecology, Michigan State University, East Lansing, MI, 48824, USA
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA.
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA.
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, 73019, USA.
- School of Computer Sciences, University of Oklahoma, Norman, OK, 73019, USA.
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14
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Flamholz AI, Goyal A, Fischer WW, Newman DK, Phillips R. The proteome is a terminal electron acceptor. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.01.31.578293. [PMID: 38352589 PMCID: PMC10862836 DOI: 10.1101/2024.01.31.578293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/25/2024]
Abstract
Microbial metabolism is impressively flexible, enabling growth even when available nutrients differ greatly from biomass in redox state. E. coli, for example, rearranges its physiology to grow on reduced and oxidized carbon sources through several forms of fermentation and respiration. To understand the limits on and evolutionary consequences of metabolic flexibility, we developed a mathematical model coupling redox chemistry with principles of cellular resource allocation. Our integrated model clarifies key phenomena, including demonstrating that autotrophs grow slower than heterotrophs because of constraints imposed by intracellular production of reduced carbon. Our model further indicates that growth is improved by adapting the redox state of biomass to nutrients, revealing an unexpected mode of evolution where proteins accumulate mutations benefiting organismal redox balance.
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Affiliation(s)
- Avi I. Flamholz
- Division of Biology and Biological Engineering, California Institute of Technology; Pasadena, CA 91125
| | - Akshit Goyal
- Physics of Living Systems, Department of Physics, Massachusetts Institute of Technology; Cambridge, MA 02139
- International Centre for Theoretical Sciences, Tata Institute of Fundamental Research; Bengaluru 560089
| | - Woodward W. Fischer
- Division of Geological & Planetary Sciences, California Institute of Technology; Pasadena, CA 91125
| | - Dianne K. Newman
- Division of Biology and Biological Engineering, California Institute of Technology; Pasadena, CA 91125
- Division of Geological & Planetary Sciences, California Institute of Technology; Pasadena, CA 91125
| | - Rob Phillips
- Division of Biology and Biological Engineering, California Institute of Technology; Pasadena, CA 91125
- Department of Physics, California Institute of Technology; Pasadena, CA 91125, USA
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15
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Tian J, Dungait JAJ, Hou R, Deng Y, Hartley IP, Yang Y, Kuzyakov Y, Zhang F, Cotrufo MF, Zhou J. Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nat Commun 2024; 15:377. [PMID: 38191568 PMCID: PMC10774409 DOI: 10.1038/s41467-023-44647-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Accepted: 12/20/2023] [Indexed: 01/10/2024] Open
Abstract
Increasing soil organic carbon (SOC) in croplands by switching from conventional to conservation management may be hampered by stimulated microbial decomposition under warming. Here, we test the interactive effects of agricultural management and warming on SOC persistence and underlying microbial mechanisms in a decade-long controlled experiment on a wheat-maize cropping system. Warming increased SOC content and accelerated fungal community temporal turnover under conservation agriculture (no tillage, chopped crop residue), but not under conventional agriculture (annual tillage, crop residue removed). Microbial carbon use efficiency (CUE) and growth increased linearly over time, with stronger positive warming effects after 5 years under conservation agriculture. According to structural equation models, these increases arose from greater carbon inputs from the crops, which indirectly controlled microbial CUE via changes in fungal communities. As a result, fungal necromass increased from 28 to 53%, emerging as the strongest predictor of SOC content. Collectively, our results demonstrate how management and climatic factors can interact to alter microbial community composition, physiology and functions and, in turn, SOC formation and accrual in croplands.
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Affiliation(s)
- Jing Tian
- State Key Laboratory of Nutrient Use and Management, College of Resources and Environmental Sciences, China Agricultural University, 100193, Beijing, PR China.
| | - Jennifer A J Dungait
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Rennes Drive, Exeter, EX4 4RJ, UK
- Carbon Management Centre, SRUC-Scotland's Rural College, Edinburgh, EH9 3JG, UK
| | - Ruixing Hou
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences (CAS), 100101, Beijing, PR China
| | - Ye Deng
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085, Beijing, PR China
| | - Iain P Hartley
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Rennes Drive, Exeter, EX4 4RJ, UK
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, PR China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, 37077, Göttingen, Germany
| | - Fusuo Zhang
- State Key Laboratory of Nutrient Use and Management, College of Resources and Environmental Sciences, China Agricultural University, 100193, Beijing, PR China.
| | - M Francesca Cotrufo
- Department of Soil and Crop Science, Colorado State University, Fort Collins, CO, USA.
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA.
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA.
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, USA.
- School of Computer Science, University of Oklahoma, Norman, OK, USA.
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
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16
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Yuan M, Na M, Hicks LC, Rousk J. Limiting resources for soil microbial growth in climate change simulation treatments in the subarctic. Ecology 2024; 105:e4210. [PMID: 37989722 DOI: 10.1002/ecy.4210] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 09/06/2023] [Accepted: 10/04/2023] [Indexed: 11/23/2023]
Abstract
The microbial use of resources to sustain life and reproduce influences for example, decomposition and plant nutrient provisioning. The study of "limiting factors" has shed light on the interaction between plants and their environment. Here, we investigated whether carbon (C), nitrogen (N), or phosphorus (P) was limiting for soil microorganisms in a subarctic tundra heath, and how changes in resource availability associated with climate change affected this. We studied samples in which changes in resource availability due to climate warming were simulated by the addition of birch litter and/or inorganic N. To these soils, we supplied factorial C (as glucose), N (as NH4 NO3 ), and P (as KH2 PO4 /K2 HPO4 ) additions ("limiting factor assays," LFA), to determine the limiting factors. The combination of C and P induced large growth responses in all soils and, combined with a systematic tendency for growth increases by C, this suggested that total microbial growth was primarily limited by C and secondarily by P. The C limitation was alleviated by the field litter treatment and strengthened by N fertilization. The microbial growth response to the LFA-C and LFA-P addition was strongest in the field-treatment that combined litter and N addition. We also found that bacteria were closer to P limitation than fungi. Our results suggest that, under a climate change scenario, increased C availability resulting from Arctic greening, treeline advance, and shrubification will reduce the microbial C limitation, while increased N availability resulting from warming will intensify the microbial C limitation. Our results also suggest that the synchronous increase of both C and N availability might lead to a progressive P limitation of microbial growth, primarily driven by bacteria being closer to P limitation. These shifts in microbial resource limitation might lead to a microbial targeting of the limiting element from organic matter, and also trigger competition for nutrients between plants and microorganisms, thus modulating the productivity of the ecosystem.
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Affiliation(s)
- Mingyue Yuan
- Section of Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
| | - Meng Na
- Section of Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
- School of Forestry, Northeast Forestry University, Harbin, China
| | - Lettice C Hicks
- Section of Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
| | - Johannes Rousk
- Section of Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
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17
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He C, Harindintwali JD, Cui H, Cui Y, Chen P, Mo C, Zhu Q, Zheng W, Alessi DS, Wang F, Jiang Z, Yang J. Deciphering the dual role of bacterial communities in stabilizing rhizosphere priming effect under intra-annual change of growing seasons. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 903:166777. [PMID: 37660826 DOI: 10.1016/j.scitotenv.2023.166777] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 08/31/2023] [Accepted: 08/31/2023] [Indexed: 09/05/2023]
Abstract
The rhizosphere priming effect (RPE) is a widely observed phenomenon affecting carbon (C) turnover in plant-soil systems. While multiple cropping and seasonal changes can have significant impacts on RPE, the mechanisms driving these processes are complex and not yet fully understood. Here, we planted maize in paddy soil during two growing seasons having substantial temperature differences [May-August (warm season, 26.6 °C) and September-November (cool season, 23.1 °C)] within the same calendar year in southern China to examine how seasonal changes affect RPEs and soil C. We identified sources of C emissions by quantifying the natural abundance of 13C and determined microbial metabolic limitations or efficiency and functional genes related to C cycling using an enzyme-based biogeochemical equilibrium model and high-throughput quantitative PCR-based chip technology, respectively. Results showed that microbial metabolism was mainly limited by phosphorus in the warm season, but by C in the cool season, resulting in positive RPEs in both growing seasons, but no significant differences (9.02 vs. 6.27 mg C kg-1 soil day-1). The RPE intensity remained stable as temperature increased (warm season compared to a cool season), which can be largely explained by the simultaneous increase in the abundance of functional genes related to both C degradation and fixation. Our study highlights the simultaneous response and adaptation of microbial communities to seasonal changes and hence contributes to an understanding and prediction of microbially mediated soil C turnover under multiple cropping systems.
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Affiliation(s)
- Chao He
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Jean Damascene Harindintwali
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hao Cui
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Yongxing Cui
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
| | - Pengfei Chen
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Chaoyang Mo
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Qingyang Zhu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Weiwei Zheng
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Daniel S Alessi
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, Alberta T6G 2E3, Canada
| | - Fang Wang
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhenhui Jiang
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China.
| | - Jingping Yang
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, Zhejiang, China.
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18
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Cheng M, Song J, Li W, Zhao Y, Zhang G, Chen Y, Gao H. Potentilla parvifolia strongly influenced soil microbial community and environmental effect along an altitudinal gradient in central Qilian Mountains in western China. Ecol Evol 2023; 13:e10685. [PMID: 38020704 PMCID: PMC10645544 DOI: 10.1002/ece3.10685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 10/11/2023] [Accepted: 10/16/2023] [Indexed: 12/01/2023] Open
Abstract
The Qilian Mountains (QLMs) form an important ecological security barrier in western China and a priority area for biodiversity conservation. Potentilla parvifolia is a widespread species in the mid-high altitudes of the QLMs and has continuously migrated to higher altitudes in recent years. Understanding the effects of P. parvifolia on microbial community characteristics is important for exploring future changes in soil biogeochemical processes in the QLMs. This study found that P. parvifolia has profound effects on the community structure and ecological functions of soil microorganisms. The stability and complexity of the root zone microbial co-occurrence network were significantly higher than those of bare soils. There was a distinct altitudinal gradient in the effect of P. parvifolia on soil microbial community characteristics. At an elevation of 3204 m, P. parvifolia promoted the accumulation of carbon, nitrogen, and phosphorus and increased sucrase activity and soil C/N while significantly improving the community richness index of fungi (p < .05) compared with that of bacteria and the relative abundance of Ascomycota. The alpha diversity of fungi in the root zone soil of P. parvifolia was also significantly increased at 3550 m altitude. Furthermore, the community similarity distance matrix of fungi showed an evident separation at 3204 m. However, at an altitude of 3750 m, P. parvifolia mainly affected the bacterial community. Potentilla parvifolia increased the bacterial community richness. This is in agreement with the findings based on the functional prediction that P. parvifolia favors the growth and enrichment of denitrifying communities at 3550 and 3750 m. The results provide a scientific basis for predicting the evolutionary trends of the effects of P. parvifolia on soil microbial communities and functions and have important implications for ecological governance in the QLMs.
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Affiliation(s)
- Miaomiao Cheng
- College of Life Sciences and Engineering, Hexi University, Key Laboratory of the Hexi Corridor Resources Utilization of GansuZhangyeChina
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Jinge Song
- School of StomatologyLanzhou UniversityLanzhouChina
| | - Weikun Li
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Yiming Zhao
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Gaosen Zhang
- Key Laboratory of Extreme Environmental Microbial Resources and EngineeringLanzhouChina
| | - Yong Chen
- School of Life SciencesLanzhou UniversityLanzhouChina
| | - Haining Gao
- College of Life Sciences and Engineering, Hexi University, Key Laboratory of the Hexi Corridor Resources Utilization of GansuZhangyeChina
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19
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Wang C, Kuzyakov Y. Energy use efficiency of soil microorganisms: Driven by carbon recycling and reduction. GLOBAL CHANGE BIOLOGY 2023; 29:6170-6187. [PMID: 37646316 DOI: 10.1111/gcb.16925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Revised: 08/02/2023] [Accepted: 08/11/2023] [Indexed: 09/01/2023]
Abstract
Carbon use efficiency (CUE) is being intensively applied to quantify carbon (C) cycling processes from microbial cell to global scales. Energy use efficiency (EUE) is at least as important as the CUE because (i) microorganisms use organic C mainly as an energy source and not as elemental C per se, and (ii) microbial growth and maintenance are limited by energy, but not by C as a structural element. We conceptualize and review the importance of EUE by soil microorganisms and focus on (i) the energy content in organic compounds depending on the nominal oxidation state of carbon (NOSC), (ii) approaches to assess EUE, (iii) similarities and differences between CUE and EUE, and (iv) discuss mechanisms responsible for lower EUE compared to CUE. The energy content per C atom (enthalpy of combustion, the total energy stored in a compound) in organic compounds is very closely (R2 = 0.98) positively related to NOSC and increases by 108 kJ mol-1 C per one NOSC unit. For the first time we assessed the NOSC of microbial biomass in soil (-0.52) and calculated the corresponding energy content of -510 kJ mol-1 C. We linked CUE and EUE considering the NOSC of microbial biomass and element compositions of substrates utilized by microorganisms. The mean microbial EUE (0.32-0.35) is 18% lower than CUE (0.41) using glucose as a substrate. This definitely indicates that microbial growth is limited by energy relative to C. Based on the comparison of a broad range of processes of C and energy utilization for cell growth and maintenance, as well as database of experimental CUE from various compounds, we clearly explained five mechanisms and main factors why EUE is lower than CUE. The two main mechanisms behind lower EUE versus CUE are: (i) microbial recycling: C can be microbially recycled, whereas energy is always utilized only once, and (ii) chemical reduction of organic and inorganic compounds: Energy is used for reduction, which is ongoing without C utilization.
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Affiliation(s)
- Chaoqun Wang
- Biogeochemistry of Agroecosystems, University of Goettingen, Goettingen, Germany
- Faculty of Land and Food Systems, University of British Columbia, Vancouver, Canada
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Goettingen, Goettingen, Germany
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Raza T, Qadir MF, Khan KS, Eash NS, Yousuf M, Chatterjee S, Manzoor R, Rehman SU, Oetting JN. Unrevealing the potential of microbes in decomposition of organic matter and release of carbon in the ecosystem. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 344:118529. [PMID: 37418912 DOI: 10.1016/j.jenvman.2023.118529] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Revised: 06/13/2023] [Accepted: 06/25/2023] [Indexed: 07/09/2023]
Abstract
Organic matter decomposition is a biochemical process with consequences affecting climate change and ecosystem productivity. Once decomposition begins, C is lost as CO2 or sequestered into more recalcitrant carbon difficult to further degradation. As microbial respiration releases carbon dioxide into the atmosphere, microbes act as gatekeepers in the whole process. Microbial activities were found to be the second largest CO2 emission source in the environment after human activities (industrialization), and research investigations suggest that this may have affected climate change over the past few decades. It is crucial to note that microbes are major contributors in the whole C cycle (decomposition, transformation, and stabilization). Therefore, imbalances in the C cycle might be causing changes in the entire carbon content of the ecosystem. The significance of microbes, especially soil bacteria in the terrestrial carbon cycle requires more attention. This review focuses on the factors that affect microorganism behavior during the breakdown of organic materials. The key factors affecting the microbial degradation processes are the quality of the input material, nitrogen, temperature, and moisture content. In this review, we suggest that to address global climate change and its effects on agricultural systems and vice versa, there is a need to double-up on efforts and conduct new research studies to further evaluate the potential of microbial communities to reduce their contribution to terrestrial carbon emission.
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Affiliation(s)
- Taqi Raza
- The Biosystems Engineering & Soil Science, University of Tennessee, Knoxville, USA.
| | - Muhammad Farhan Qadir
- Institute of Soil and Environmental Sciences, University of Agriculture Faisalabad 38040, Pakistan
| | - Khuram Shehzad Khan
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, China Agricultural University, Beijing 100193, China
| | - Neal S Eash
- The Biosystems Engineering & Soil Science, University of Tennessee, Knoxville, USA
| | - Muhammad Yousuf
- Institute of Soil and Environmental Sciences, University of Agriculture Faisalabad 38040, Pakistan
| | - Sumanta Chatterjee
- USDA ARS, Hydrology and Remote Sensing Laboratory, 10300 Baltimore Avenue, Beltsville, MD 20705, USA; ICAR-National Rice Research Institute, Cuttack 753006, India
| | - Rabia Manzoor
- Land Resources Research Institute, National Agricultural Research Centre, Islamabad, Pakistan
| | - Sana Ur Rehman
- National Research Center of Intercropping, The Islamia University of Bahawalpur, Pakistan
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21
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He P, Zhang Y, Shen Q, Ling N, Nan Z. Microbial carbon use efficiency in different ecosystems: A meta-analysis based on a biogeochemical equilibrium model. GLOBAL CHANGE BIOLOGY 2023; 29:4758-4774. [PMID: 37431700 DOI: 10.1111/gcb.16861] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 02/20/2023] [Accepted: 05/30/2023] [Indexed: 07/12/2023]
Abstract
Soil microbial carbon use efficiency (CUE) is a crucial parameter that can be used to evaluate the partitioning of soil carbon (C) between microbial growth and respiration. However, general patterns of microbial CUE among terrestrial ecosystems (e.g., farmland, grassland, and forest) remain controversial. To address this knowledge gap, data from 41 study sites (n = 197 soil samples) including 58 farmlands, 95 forests, and 44 grasslands were collected and analyzed to estimate microbial CUEs using a biogeochemical equilibrium model. We also evaluated the metabolic limitations of microbial growth using an enzyme vector model and the drivers of CUE across different ecosystems. The CUEs obtained from soils of farmland, forest, and grassland ecosystems were significantly different with means of 0.39, 0.33, and 0.42, respectively, illustrating that grassland soils exhibited higher microbial C sequestration potentials (p < .05). Microbial metabolic limitations were also distinct in these ecosystems, and carbon limitation was dominant exhibiting strong negative effects on CUE. Exoenzyme stoichiometry played a greater role in impacting CUE values than soil elemental stoichiometry within each ecosystem. Specifically, soil exoenzymatic ratios of C:phosphorus (P) acquisition activities (EEAC:P ) and the exoenzymatic ratio of C:nitrogen (N) acquisition activities (EEAC:N ) imparted strong negative effects on soil microbial CUE in grassland and forest ecosystems, respectively. But in farmland soils, EEAC:P exhibited greater positive effects, showing that resource constraints could regulate microbial resource allocation with discriminating patterns across terrestrial ecosystems. Furthermore, mean annual temperature (MAT) rather than mean annual precipitation (MAP) was a critical climate factor affecting CUE, and soil pH as a major factor remained positive to drive the changes in microbial CUE within ecosystems. This research illustrates a conceptual framework of microbial CUEs in terrestrial ecosystems and provides the theoretical evidence to improve soil microbial C sequestration capacity in response to global change.
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Affiliation(s)
- Peng He
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Centre for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Yuntao Zhang
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-Based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Qirong Shen
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-Based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Ning Ling
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Centre for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-Based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, China
| | - Zhibiao Nan
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Centre for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
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22
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Cui Y, Peng S, Delgado-Baquerizo M, Rillig MC, Terrer C, Zhu B, Jing X, Chen J, Li J, Feng J, He Y, Fang L, Moorhead DL, Sinsabaugh RL, Peñuelas J. Microbial communities in terrestrial surface soils are not widely limited by carbon. GLOBAL CHANGE BIOLOGY 2023; 29:4412-4429. [PMID: 37277945 DOI: 10.1111/gcb.16765] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Revised: 04/03/2023] [Accepted: 04/04/2023] [Indexed: 06/07/2023]
Abstract
Microbial communities in soils are generally considered to be limited by carbon (C), which could be a crucial control for basic soil functions and responses of microbial heterotrophic metabolism to climate change. However, global soil microbial C limitation (MCL) has rarely been estimated and is poorly understood. Here, we predicted MCL, defined as limited availability of substrate C relative to nitrogen and/or phosphorus to meet microbial metabolic requirements, based on the thresholds of extracellular enzyme activity across 847 sites (2476 observations) representing global natural ecosystems. Results showed that only about 22% of global sites in terrestrial surface soils show relative C limitation in microbial community. This finding challenges the conventional hypothesis of ubiquitous C limitation for soil microbial metabolism. The limited geographic extent of C limitation in our study was mainly attributed to plant litter, rather than soil organic matter that has been processed by microbes, serving as the dominant C source for microbial acquisition. We also identified a significant latitudinal pattern of predicted MCL with larger C limitation at mid- to high latitudes, whereas this limitation was generally absent in the tropics. Moreover, MCL significantly constrained the rates of soil heterotrophic respiration, suggesting a potentially larger relative increase in respiration at mid- to high latitudes than low latitudes, if climate change increases primary productivity that alleviates MCL at higher latitudes. Our study provides the first global estimates of MCL, advancing our understanding of terrestrial C cycling and microbial metabolic feedback under global climate change.
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Affiliation(s)
- Yongxing Cui
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Shushi Peng
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Manuel Delgado-Baquerizo
- Laboratorio de Biodiversidad y Funcionamiento Ecosistémico, Instituto de Recursos Naturales y Agrobiología de Sevilla (IRNAS), CSIC, Sevilla, Spain
- Unidad Asociada CSIC-UPO (BioFun). Universidad Pablo de Olavide, Sevilla, Spain
| | | | - César Terrer
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Boston, Massachusetts, USA
| | - Biao Zhu
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory for Earth Surface Processes of the Ministry of Education, Peking University, Beijing, China
| | - Xin Jing
- State Key Laboratory of Grassland Agro-Ecosystems, and College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, Gansu, China
| | - Ji Chen
- Department of Agroecology, Aarhus University, Tjele, Denmark
| | - Jinquan Li
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai, China
| | - Jiao Feng
- College of Resources and Environment, Huazhong Agricultural University, Wuhan, China
| | - Yue He
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Linchuan Fang
- School of Resource and Environmental Engineering, Wuhan University of Technology, Wuhan, China
| | - Daryl L Moorhead
- Department of Environmental Sciences, University of Toledo, Toledo, Ohio, USA
| | - Robert L Sinsabaugh
- Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA
| | - Josep Peñuelas
- CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Catalonia, Spain
- CREAF, Cerdanyola del Vallès, Catalonia, Spain
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23
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Hu J, Du M, Chen J, Tie L, Zhou S, Buckeridge KM, Cornelissen JHC, Huang C, Kuzyakov Y. Microbial necromass under global change and implications for soil organic matter. GLOBAL CHANGE BIOLOGY 2023; 29:3503-3515. [PMID: 36934319 DOI: 10.1111/gcb.16676] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2022] [Accepted: 02/21/2023] [Indexed: 05/16/2023]
Abstract
Microbial necromass is an important source and component of soil organic matter (SOM), especially within the most stable pools. Global change factors such as anthropogenic nitrogen (N), phosphorus (P), and potassium (K) inputs, climate warming, elevated atmospheric carbon dioxide (eCO2 ), and periodic precipitation reduction (drought) strongly affect soil microorganisms and consequently, influence microbial necromass formation. The impacts of these global change factors on microbial necromass are poorly understood despite their critical role in the cycling and sequestration of soil carbon (C) and nutrients. Here, we conducted a meta-analysis to reveal general patterns of the effects of nutrient addition, warming, eCO2 , and drought on amino sugars (biomarkers of microbial necromass) in soils under croplands, forests, and grasslands. Nitrogen addition combined with P and K increased the content of fungal (+21%), bacterial (+22%), and total amino sugars (+9%), consequently leading to increased SOM formation. Nitrogen addition alone increased solely bacterial necromass (+10%) because the decrease of N limitation stimulated bacterial more than fungal growth. Warming increased bacterial necromass, because bacteria have competitive advantages at high temperatures compared to fungi. Other global change factors (P and NP addition, eCO2 , and drought) had minor effects on microbial necromass because of: (i) compensation of the impacts by opposite processes, and (ii) the short duration of experiments compared to the slow microbial necromass turnover. Future studies should focus on: (i) the stronger response of bacterial necromass to N addition and warming compared to that of fungi, and (ii) the increased microbial necromass contribution to SOM accumulation and stability under NPK fertilization, and thereby for negative feedback to climate warming.
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Affiliation(s)
- Junxi Hu
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- Amsterdam Institute for Life and Environment (A-LIFE), Systems Ecology Section, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
| | - Meilin Du
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Jun Chen
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Liehua Tie
- Institute for Forest Resources and Environment Research Center of Guizhou Province, Guizhou University, Guiyang, China
| | - Shixing Zhou
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | | | - J Hans C Cornelissen
- Amsterdam Institute for Life and Environment (A-LIFE), Systems Ecology Section, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
| | - Congde Huang
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Goettingen, Göttingen, Germany
- Peoples Friendship University of Russia (RUDN University), Moscow, Russia
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24
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Shi G, Luan L, Zhu G, Zeng Z, Zheng J, Shi Y, Sun B, Jiang Y. Interaction between nematodes and bacteria enhances soil carbon sequestration under organic material amendments. Front Microbiol 2023; 14:1155088. [PMID: 37250034 PMCID: PMC10213412 DOI: 10.3389/fmicb.2023.1155088] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Accepted: 04/19/2023] [Indexed: 05/31/2023] Open
Abstract
The process of carbon (C) sequestration plays an important role in soil fertility and productivity, yet most studies have focused on the individual role of the bacterial community. However, an in-depth mechanistic understanding of how soil nematodes interact with the bacterial community to regulate soil C accumulation is still lacking. We conducted a 10-year field experiment to explore the nematode and bacterial communities and determine the influence of nematode-bacteria interactions on C mineralization, microbial metabolic quotient (qCO2), and carbon use efficiency (CUE) under the organic material amendments, including chemical fertilizers with straw (NS), chemical fertilizers with straw and pig manure (NSM), and chemical fertilizer with straw biochar (NB). Here, our results showed the abundance of bacterial and nematode communities was significantly higher under NS, NSM, and NB treatments than under chemical fertilizers (N) treatment, with the highest abundance under the NSM treatment. The enrichment index and functional dispersion index were significantly higher under NSM treatment than under N, NS, and NB treatments, while the channel index followed the opposite pattern. Structural equation modeling indicated that the potential predation pressure induced by nematodes may improve bacterial abundance, with positive cascading effects on C sequestration. Collectively, our study highlights the functional importance of nematode-microorganism interactions in mediating C dynamics under organic material amendments.
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Affiliation(s)
- Guangping Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Lu Luan
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- Ecological Experimental Station of Red Soil, Chinese Academy of Sciences, Yingtan, China
| | - Guofan Zhu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Zhaoyang Zeng
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jie Zheng
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- Ecological Experimental Station of Red Soil, Chinese Academy of Sciences, Yingtan, China
| | - Yue Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- College of Land Resources and Environment, Jiangxi Agricultural University, Nanchang, China
| | - Bo Sun
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Yuji Jiang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- Ecological Experimental Station of Red Soil, Chinese Academy of Sciences, Yingtan, China
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25
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Cruz-Paredes C, Tájmel D, Rousk J. Variation in Temperature Dependences across Europe Reveals the Climate Sensitivity of Soil Microbial Decomposers. Appl Environ Microbiol 2023; 89:e0209022. [PMID: 37162342 DOI: 10.1128/aem.02090-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/11/2023] Open
Abstract
Temperature is a major determinant of biological process rates, and microorganisms are key regulators of ecosystem carbon (C) dynamics. Temperature controls microbial rates of decomposition, and thus warming can stimulate C loss, creating positive feedback to climate change. If trait distributions that define temperature relationships of microbial communities can adapt to altered temperatures, they could modulate the strength of this feedback, but if this occurs remains unclear. In this study, we sampled soils from a latitudinal climate gradient across Europe. We established the temperature relationships of microbial growth and respiration rates and used these to investigate if and with what strength the community trait distributions for temperature were adapted to their local environment. Additionally, we sequenced bacterial and fungal amplicons to link the variance in community composition to changes in temperature traits. We found that microbial temperature trait distributions varied systematically with climate, suggesting that an increase in mean annual temperature (MAT) of 1°C will result in warm-shifted microbial temperature trait distributions equivalent to an increase in temperature minimum (Tmin) of 0.20°C for bacterial growth, 0.07°C for fungal growth, and 0.10°C for respiration. The temperature traits for bacterial growth were thus more responsive to warming than those for respiration and fungal growth. The microbial community composition also varied with temperature, enabling the interlinkage of taxonomic information with microbial temperature traits. Our work shows that the adaptation of microbial temperature trait distributions to a warming climate will affect the C-climate feedback, emphasizing the need to represent this to capture the microbial feedback to climate change. IMPORTANCE One of the largest uncertainties of global warming is if the microbial decomposer feedback will strengthen or weaken soil C-climate feedback. Despite decades of research effort, the strength of this feedback to warming remains unknown. We here present evidence that microbial temperature relationships vary systematically with environmental temperatures along a climate gradient and use this information to forecast how microbial temperature traits will create feedback between the soil C cycle and climate warming. We show that the current use of a universal temperature sensitivity is insufficient to represent the microbial feedback to climate change and provide new estimates to replace this flawed assumption in Earth system models. We also demonstrate that temperature relationships for rates of microbial growth and respiration are differentially affected by warming, with stronger responses to warming for microbial growth (soil C formation) than for respiration (C loss from soil to atmosphere), which will affect the atmosphere-land C balance.
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Affiliation(s)
| | - Dániel Tájmel
- Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
| | - Johannes Rousk
- Microbial Ecology, Department of Biology, Lund University, Lund, Sweden
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26
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Li S, Cui Y, Xia Z, Zhang X, Zhou C, An S, Zhu M, Gao Y, Yu W, Ma Q. Microbial nutrient limitations limit carbon sequestration but promote nitrogen and phosphorus cycling: A case study in an agroecosystem with long-term straw return. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 870:161865. [PMID: 36716869 DOI: 10.1016/j.scitotenv.2023.161865] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 01/19/2023] [Accepted: 01/23/2023] [Indexed: 06/18/2023]
Abstract
Soil fertility can be increased by returning crop residues to fields due to the cooperative regulation of microbial metabolism of carbon (C) and nutrients. However, the dose-effect of straw on the soil C and nutrient retention and its underlying coupled microbial metabolic processes of C and nutrients remain poorly understood. Here, we conducted a comprehensive study on soil nutrients and stoichiometry, crop nutrient uptake and production, microbial metabolic characteristics and functional attributes using a long-term straw input field experiment. We estimated the microbial metabolic limitations and efficiency of C and nitrogen (N) use (CUE and NUE) via an enzyme-based vector-TER model, biogeochemical-equilibrium model and mass balance equation, respectively. In addition, the absolute abundances of 20 functional genes involved in the N- and P-cycles were quantified by quantitative PCR-based chip technology. As expected, straw input significantly increased C and N stocks, C: nutrients, crop nutrient uptake and growth. However, the C sequestration efficiency decreased by approximately 6.1 %, and the N2O emission rate increased by 0.5-1.0 times with the increase in straw input rate. Interestingly, the microbial metabolism was more limited by P when straw input was <8 t ha-1 but was reversed when straw input was 12 t ha-1. The enhanced nutrient limitation reduced both the CUE and the NUE of microbes and then upregulated genes associated with the hydrolysis of C, the mineralization of N and P, and denitrification, which consequently influenced C and N losses as well as crop growth. This study highlights that soil C and nutrient cycling are strongly regulated by microbial metabolic limitation, suggesting that adding the appropriate limiting nutrients to reduce nutrient imbalances caused by straw input is conducive to maximizing the ecological benefits of straw return.
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Affiliation(s)
- Shuailin Li
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; Key Laboratory of Terrestrial Ecosystem Carbon Neutrality, Liaoning Province, China.
| | - Yongxing Cui
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
| | - Zhuqing Xia
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Xinhui Zhang
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Changrui Zhou
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Siyu An
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Mengmeng Zhu
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Yun Gao
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Wantai Yu
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; Key Laboratory of Terrestrial Ecosystem Carbon Neutrality, Liaoning Province, China
| | - Qiang Ma
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; Key Laboratory of Terrestrial Ecosystem Carbon Neutrality, Liaoning Province, China.
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Li Q, Shi J, Li G, Hu J, Ma R. Extracellular enzyme stoichiometry and microbial resource limitation following various grassland reestablishment in abandoned cropland. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 870:161746. [PMID: 36693570 DOI: 10.1016/j.scitotenv.2023.161746] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Revised: 01/16/2023] [Accepted: 01/17/2023] [Indexed: 06/17/2023]
Abstract
Grassland restoration in abandoned cropland had great impact on soil enzyme stoichiometry and microbial resource limitation, hence altering carbon (C) sequestration progress in soil depending on soil depth and grassland restoration strategy. It is crucial to understand the microbial resource limitation under various restoration strategies, which could have key implication for optimizing management to improve C sequestration in abandoned cropland. The objective of this study was to examine the changes and key regulators of soil enzyme stoichiometry and microbial resource limitation in different soil depths under different management strategies to restore grassland, namely a) cropland as continuous cropping (CR); b) naturally restored grassland (NR); c) grass-based grassland (GG); d) legume-based grassland (LG); e) grass-legume mixed grassland (MG); and f) grass-based grassland with N fertilization (GF). Results showed that converting cropland into grassland increased absolute soil enzyme activities potential for microbial C, nitrogen (N) and phosphorus (P) acquisition by 5-110 %, 25-132 % and 17-215 %, respectively depending on soil depth and grassland restoration strategy. These enzyme activities increased more in surface soil than subsoil with the conversion of cropland into grassland, especially under LG and GF. The strategies to restore grassland, especially LG and GF, significantly decreased enzymatic C:P and N:P ratios. Microbial C limitation was reduced associated with re-establishment of grassland, exacerbating the P limitation depending on grassland restoration strategies, especially under LG and GF. The shift of relative microbial resource limitation from C to P reduced the microbial C use efficiency, reducing the ecosystem C sequestration potential during the restoration of grassland. It appears that increased biomass input and soil C:P ratio are the key drivers to shift microbial resource limitation from C to P during the restoration of grassland. Thus, a moderate harvest of above-ground biomass with a supplement of P may be necessary for improving the C sequestration potential during the restoration of grasslands, especially in the grass-legume mix or grass-based grassland with N fertilization.
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Affiliation(s)
- Qiang Li
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; Jilin Provincial Key Laboratory of Grassland Farming, Changchun 130102, China; Key Laboratory of Mollisols Agroecology, Chinese Academy of Sciences, Changchun 130102, China.
| | - Jibo Shi
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; Jilin Provincial Key Laboratory of Grassland Farming, Changchun 130102, China
| | - Guangdi Li
- New South Wales Department of Primary Industries, Wagga Wagga, NSW 2650, Australia
| | - Juan Hu
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; Jilin Provincial Key Laboratory of Grassland Farming, Changchun 130102, China; Key Laboratory of Mollisols Agroecology, Chinese Academy of Sciences, Changchun 130102, China.
| | - Ruonan Ma
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; University of Chinese Academy of Sciences, Beijing 100049, China
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Stone BWG, Dijkstra P, Finley BK, Fitzpatrick R, Foley MM, Hayer M, Hofmockel KS, Koch BJ, Li J, Liu XJA, Martinez A, Mau RL, Marks J, Monsaint-Queeney V, Morrissey EM, Propster J, Pett-Ridge J, Purcell AM, Schwartz E, Hungate BA. Life history strategies among soil bacteria-dichotomy for few, continuum for many. THE ISME JOURNAL 2023; 17:611-619. [PMID: 36732614 PMCID: PMC10030646 DOI: 10.1038/s41396-022-01354-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 12/19/2022] [Accepted: 12/21/2022] [Indexed: 02/04/2023]
Abstract
Study of life history strategies may help predict the performance of microorganisms in nature by organizing the complexity of microbial communities into groups of organisms with similar strategies. Here, we tested the extent that one common application of life history theory, the copiotroph-oligotroph framework, could predict the relative population growth rate of bacterial taxa in soils from four different ecosystems. We measured the change of in situ relative growth rate to added glucose and ammonium using both 18O-H2O and 13C quantitative stable isotope probing to test whether bacterial taxa sorted into copiotrophic and oligotrophic groups. We saw considerable overlap in nutrient responses across most bacteria regardless of phyla, with many taxa growing slowly and few taxa that grew quickly. To define plausible life history boundaries based on in situ relative growth rates, we applied Gaussian mixture models to organisms' joint 18O-13C signatures and found that across experimental replicates, few taxa could consistently be assigned as copiotrophs, despite their potential for fast growth. When life history classifications were assigned based on average relative growth rate at varying taxonomic levels, finer resolutions (e.g., genus level) were significantly more effective in capturing changes in nutrient response than broad taxonomic resolution (e.g., phylum level). Our results demonstrate the difficulty in generalizing bacterial life history strategies to broad lineages, and even to single organisms across a range of soils and experimental conditions. We conclude that there is a continued need for the direct measurement of microbial communities in soil to advance ecologically realistic frameworks.
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Affiliation(s)
- Bram W G Stone
- Earth and Biological Sciences Directorate, Pacific Northwest National Lab, Richland, WA, USA.
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA.
| | - Paul Dijkstra
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Brianna K Finley
- Department of Ecology and Evolutionary Biology, University of California, Irvine, CA, USA
| | - Raina Fitzpatrick
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
| | - Megan M Foley
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Michaela Hayer
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
| | - Kirsten S Hofmockel
- Earth and Biological Sciences Directorate, Pacific Northwest National Lab, Richland, WA, USA
- Department of Agronomy, Iowa State University, Ames, IA, USA
| | - Benjamin J Koch
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Junhui Li
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- APC Microbiome Ireland and School of Microbiology, University College Cork, Cork, Ireland
| | - Xiao Jun A Liu
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA
| | - Ayla Martinez
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
| | - Rebecca L Mau
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
| | - Jane Marks
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | | | - Ember M Morrissey
- Division of Plant and Soil Sciences, West Virginia University, Morgantown, WV, USA
| | - Jeffrey Propster
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
| | - Jennifer Pett-Ridge
- Physical and Life Sciences Directorate, Lawrence Livermore National Lab, Livermore, CA, USA
- Life and Environmental Sciences Department, University of California Merced, Merced, CA, USA
| | - Alicia M Purcell
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Texas Tech University, Lubbock, TX, USA
| | - Egbert Schwartz
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Bruce A Hungate
- Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA
- Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
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Ma S, Zhu W, Wang W, Li X, Sheng Z. Microbial assemblies with distinct trophic strategies drive changes in soil microbial carbon use efficiency along vegetation primary succession in a glacier retreat area of the southeastern Tibetan Plateau. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 867:161587. [PMID: 36638988 DOI: 10.1016/j.scitotenv.2023.161587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 01/08/2023] [Accepted: 01/09/2023] [Indexed: 06/17/2023]
Abstract
Soil microbial carbon use efficiency (CUE) is a vital physiological parameter in assessing carbon turnover. Yet, how the microbial assemblies with distinct trophic strategies regulate the soil microbial CUE remains elusive. Based on the oligotrophic-copiotrophic framework, we explored the role of microbial taxa with different trophic strategies in mediating microbial CUE (determined by a 13C-labeled approach) along the vegetation primary succession in Hailuogou glacier retreat area of the southeastern Tibetan Plateau. Results showed that soil microbial CUE ranged from 0.54 to 0.72 (averaging 0.62 ± 0.01 across all samples) and increased staggeringly along the vegetation succession. Microbial assemblies with distinct trophic strategies were crucial regulators of soil microbial CUE. Specifically, microbial CUE increased with microbial oligotroph: copiotroph ratios, oligotroph-dominated stage had a higher microbial CUE than copiotroph-dominated ones. The prevalence of oligotrophic members would be the underlying microbial mechanism for the high microbial CUE. Given that oligotrophs predominate in more recalcitrant carbon soils and their higher microbial CUE, we speculate that oligotrophs are likely to potentially enhance carbon sequestration in soils. In addition, the responses of the microbial CUE to fungal oligotroph: copiotroph ratios were higher than bacterial ones. Fungal taxa may play a dominant role in shaping microbial CUE relative to bacterial members. Overall, our results constructed close associations between microbial trophic strategies and CUE and provide direct evidence regarding how microbial trophic strategies regulate microbial CUE. This study is a significant step forward for elucidating the physiological mechanisms regulating microbial CUE and has significant implications for understanding microbial-mediated carbon cycling processes.
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Affiliation(s)
- Shenglan Ma
- Key Laboratory of Mountain Surface Processes and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu 610041, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Wanze Zhu
- Key Laboratory of Mountain Surface Processes and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu 610041, PR China.
| | - Wenwu Wang
- Key Laboratory of Mountain Surface Processes and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu 610041, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Xia Li
- Key Laboratory of Mountain Surface Processes and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu 610041, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Zheliang Sheng
- Key Laboratory of Mountain Surface Processes and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu 610041, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
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30
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Roy S, Naidu DGT, Bagchi S. Functional substitutability of native herbivores by livestock for soil carbon stock is mediated by microbial decomposers. GLOBAL CHANGE BIOLOGY 2023; 29:2141-2155. [PMID: 36732877 DOI: 10.1111/gcb.16600] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Revised: 01/08/2023] [Accepted: 01/10/2023] [Indexed: 05/28/2023]
Abstract
Grazing by large mammalian herbivores impacts climate as it can favor the size and stability of a large carbon (C) pool in the soils of grazing ecosystems. As native herbivores in the world's grasslands, steppes, and savannas are progressively being displaced by livestock, it is important to ask whether livestock can emulate the functional roles of their native counterparts. While livestock and native herbivores can have remarkable similarity in their traits, they can differ greatly in their impacts on vegetation composition which can affect soil-C. It is uncertain how these similarities and differences impact soil-C via their influence on microbial decomposers. We test competing alternative hypotheses with a replicated, long-term, landscape-level, grazing-exclusion experiment to ask whether livestock in the Trans-Himalayan ecosystem of northern India can match decadal-scale (2005-2016) soil-C stocks under native herbivores. We evaluate multiple lines of evidence from 17 variables that influence soil-C (quantity and quality of C-input from plants, microbial biomass and metabolism, microbial community composition, eDNA, veterinary antibiotics in soil), and assess their inter-relationships. Livestock and native herbivores differed in their effects on several soil microbial processes. Microbial carbon use efficiency (CUE) was 19% lower in soils under livestock. Compared to native herbivores, areas used by livestock contained 1.5 kg C m-2 less soil-C. Structural equation models showed that alongside the effects arising from plants, livestock alter soil microbial communities which is detrimental for CUE, and ultimately also for soil-C. Supporting evidence pointed toward a link between veterinary antibiotics used on livestock, microbial communities, and soil-C. Overcoming the challenges of sequestering antibiotics to minimize their potential impacts on climate, alongside microbial rewilding under livestock, may reconcile the conflicting demands from food-security and ecosystem services. Conservation of native herbivores and alternative management of livestock is crucial for soil-C stewardship to envision and achieve natural climate solutions.
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Affiliation(s)
- Shamik Roy
- Centre for Ecological Sciences, Indian Institute of Science, Bangalore, India
| | - Dilip G T Naidu
- Centre for Ecological Sciences, Indian Institute of Science, Bangalore, India
- Divecha Centre for Climate Change, Indian Institute of Science, Bangalore, India
| | - Sumanta Bagchi
- Centre for Ecological Sciences, Indian Institute of Science, Bangalore, India
- Divecha Centre for Climate Change, Indian Institute of Science, Bangalore, India
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31
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Murúa JM, Gaxiola A. Variability in terrestrial litter decomposition can be explained by nutrient allocation strategies among soil decomposer communities. Funct Ecol 2023. [DOI: 10.1111/1365-2435.14321] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/03/2023]
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32
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McDaniel MD, Bird JA, Pett-Ridge J, Marin-Spiotta E, Schmidt TM, Grandy AS. Diversifying and perennializing plants in agroecosystems alters retention of new C and N from crop residues. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2023; 33:e2784. [PMID: 36478617 DOI: 10.1002/eap.2784] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Revised: 09/18/2022] [Accepted: 09/27/2022] [Indexed: 06/17/2023]
Abstract
Managing soils to retain new plant inputs is key to moving toward a sustainable and regenerative agriculture. Management practices, like diversifying and perennializing agroecosystems, may affect the decomposer organisms that regulate how new residue is converted to persistent soil organic matter. Here we tested whether 12 years of diversifying/perennializing plants in agroecosystems through extended rotations or grassland restoration would decrease losses of new plant residue inputs and, thus, increase retention of carbon (C) and nitrogen (N) in soil. We tracked dual-labeled (13 C and 15 N), isotopically enriched wheat (Triticum aestivum) residue in situ for 2 years as it decomposed in three agroecosystems: maize-soybean (CS) rotation, maize-soybean-wheat plus red clover and cereal rye cover crops (CSW2), and spring fallow management with regeneration of natural grassland species (seven to 10 species; SF). We measured losses of wheat residue (Cwheat and Nwheat ) in leached soil solution and greenhouse gas fluxes, as well as how much was recovered in microbial biomass and bulk soil at 5-cm increments down to 20 cm. CSW2 and SF both had unique, significant effects on residue decomposition and retention dynamics that were clear only when using nuanced metrics that able to tease apart subtle differences. For example, SF retained a greater portion of Cwheat in 0-5 cm surface soils (155%, p = 0.035) and narrowed the Cwheat to Nwheat ratio (p < 0.030) compared to CS. CSW2 increased an index of carbon-retention efficiency, Cwheat retained in the mesocosm divided by total measured, from 0.18 to 0.27 (49%, p = 0.001), compared to CS. Overall, we found that diversifying and extending the duration of living plants in agroecosystems can lead to greater retention of new residue inputs in subtle ways that require further investigation to fully understand.
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Affiliation(s)
- Marshall D McDaniel
- Department of Agronomy, Iowa State University, Ames, Iowa, USA
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, New Hampshire, USA
| | - Jeffrey A Bird
- School of Earth & Environmental Sciences, Queens College, CUNY & The CUNY Graduate Center, New York, New York, USA
| | - Jennifer Pett-Ridge
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California, USA
- Life & Environmental Sciences Department, University of California, Merced, California, USA
| | - Erika Marin-Spiotta
- Department of Geography, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Tom M Schmidt
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan, USA
| | - A Stuart Grandy
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, New Hampshire, USA
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33
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Liu S, Xu G, Chen H, Zhang M, Cao X, Chen M, Chen J, Feng Q, Shi Z. Contrasting responses of soil microbial biomass and extracellular enzyme activity along an elevation gradient on the eastern Qinghai-Tibetan Plateau. Front Microbiol 2023; 14:974316. [PMID: 36744094 PMCID: PMC9889656 DOI: 10.3389/fmicb.2023.974316] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 01/02/2023] [Indexed: 01/19/2023] Open
Abstract
Soil microbial community composition and extracellular enzyme activity are two main drivers of biogeochemical cycling. Knowledge about their elevational patterns is of great importance for predicting ecosystem functioning in response to climate change. Nevertheless, there is no consensus on how soil microbial community composition and extracellular enzyme activity vary with elevation, and little is known about their elevational variations on the eastern Qinghai-Tibetan Plateau, a region sensitive to global change. We therefore investigated the soil microbial community composition using phospholipid fatty acids (PLFAs) analysis, and enzyme activities at 2,820 m (coniferous and broadleaved mixed forest), 3,160 m (dark coniferous forest), 3,420 m (alpine dwarf forest), and 4,280 m (alpine shrubland) above sea level. Our results showed that soil microbial community composition and extracellular enzyme activities changed significantly along the elevational gradient. Biomass of total microbes, bacteria, and arbuscular mycorrhizal fungi at the highest elevation were the significantly lowest among the four elevations. In contrast, extracellular enzyme activities involved in carbon (C)-, nitrogen (N)-, and phosphorus (P)- acquiring exhibited the maximum values at the highest elevation. Total nutrients and available nutrients, especially P availability jointly explained the elevational pattern of soil microbial community, while the elevational variation of extracellular enzyme activities was dependent on total nutrients. Microbial metabolism was mainly C- and P-limited with an increasing C limitation but a decreasing P limitation along the elevational gradient, which was related significantly to mean annual temperature and total P. These results indicated a vital role of soil P in driving the elevational patterns of soil microbial community and metabolism. Overall, the study highlighted the contrasting responses of soil microbial biomass and extracellular enzyme activities to elevation, possibly suggesting the differences in adaption strategy between population growth and resource acquisition responding to elevation. The results provide essential information for understanding and predicting the response of belowground community and function to climate change on the eastern Qinghai-Tibetan Plateau.
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Affiliation(s)
- Shun Liu
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Gexi Xu
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Huanhuan Chen
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Miaomiao Zhang
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Xiangwen Cao
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Miao Chen
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Jian Chen
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China
| | - Qiuhong Feng
- Ecological Restoration and Conservation on Forest and Wetland Key Laboratory of Sichuan Province, Sichuan Wolong Forest Ecosystem Research Station, Sichuan Academy of Forestry, Chengdu, China
| | - Zuomin Shi
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing, China,Miyaluo Research Station of Alpine Forest Ecosystem, Lixian County, China,Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China,Institute for Sustainable Plant Protection, National Research Council of Italy, Turino, Italy,*Correspondence: Zuomin Shi, ✉
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34
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Li J, Chen L, Zhang J, Zhang C, Ma D, Zhou G, Ning Q. Organic amendments with high proportion of heterocyclic compounds promote soil microbiome shift and microbial use efficiency of straw-C. Front Microbiol 2023; 14:1087709. [PMID: 36744086 PMCID: PMC9889835 DOI: 10.3389/fmicb.2023.1087709] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Accepted: 01/03/2023] [Indexed: 01/19/2023] Open
Abstract
Soil microbial use efficiency of straw carbon (C), which is the proportion of straw-C microbes assimilate into new biosynthetic material relative to C lost out of the system as CO2, is critical in increasing soil organic C (SOC) content, and hence maintaining soil fertility and productivity. However, the effect of chemical structures of the organic amendments (OAs) on the microbial use efficiency of straw-C remains unclear. The effect of the chemical structure of the OAs on microbial use efficiency of straw-C was elucidated by a combination of 13C-straw labeling with high-throughput sequencing and pyrolysis-GC/MS. We found a strong positive correlation between the microbial use efficiency of straw-C and the proportion of heterocyclic compounds (Hete_C). The microbial use efficiency of straw-C was highest in soil supplemented with Hete_C-dominant OAs, which significantly shifted microbial community structure toward fungal dominance. Specifically, fungal-to-bacterial ratio, fungal richness, and the relative abundance of Ascomycota were higher in soil with a higher proportion of Hete_C-dominant OAs. Together, our study suggests that OAs with high proportion of Hete_C promote the microbial use efficiency of straw-C by increasing the dominance of fungi in the soil microbial community in agroecosystems.
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Affiliation(s)
- Jingwang Li
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China,University of Chinese Academy of Sciences, Beijing, China
| | - Lin Chen
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Jiabao Zhang
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China,University of Chinese Academy of Sciences, Beijing, China,*Correspondence: Jiabao Zhang,
| | - Congzhi Zhang
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Donghao Ma
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Guixiang Zhou
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Qi Ning
- Fengqiu Experimental Station of National Ecosystem Research Network of China, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
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35
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Lv C, Wang C, Cai A, Zhou Z. Global magnitude of rhizosphere effects on soil microbial communities and carbon cycling in natural terrestrial ecosystems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 856:158961. [PMID: 36155049 DOI: 10.1016/j.scitotenv.2022.158961] [Citation(s) in RCA: 13] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 08/31/2022] [Accepted: 09/19/2022] [Indexed: 06/16/2023]
Abstract
The rhizosphere is one of the most dynamic interfaces on the Earth. Understanding the magnitudes of rhizosphere effects (RE, difference in bio-physicochemical properties between rhizosphere and bulk soils) on soil microbial communities and their moderators is important for studying on below-ground carbon (C) cycling. A comprehensive meta-analysis was conducted to quantify the REs on soil microbial biomass, community structure, respiration, and C-degrading enzymes. We found that REs on soil C and nutrients, total microbial biomass, the abundance of specific microbial groups, fungi to bacteria ratio, respiration, and C-degrading enzymes were positive, but the magnitudes were varied with biomes, plant functional types, and mycorrhizal types. REs on microbial biomass, respiration, and C-degrading enzymes increased with the increase of mean annual temperature and mean annual precipitation, but decreased with the increase of soil clay, C, nitrogen (N), and phosphorus (P) contents. The REs on microbial biomass and respiration also increased as the REs on soil C:N:P increased. Compared with bulk soil, per unit rhizosphere soil C supported more microbial biomass, per unit of which respired more C, leading to faster C decomposition in rhizosphere. Our findings indicate that the increase in microbial biomass, co-metabolism induced by labile and energy-rich organic C of root exudates, and overflow respiration induced by stoichiometric imbalance together contribute to the enhanced C decomposition in rhizosphere. The global pattern of REs on soil microbial communities is critical to revealing the plant-microbe-soil interactions in terrestrial ecosystems.
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Affiliation(s)
- Chunhua Lv
- Center for Ecological Research, Key Laboratory of Sustainable Forest Ecosystem Management, Ministry of Education, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China
| | - Chuankuan Wang
- Center for Ecological Research, Key Laboratory of Sustainable Forest Ecosystem Management, Ministry of Education, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China
| | - Andong Cai
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 10081, China
| | - Zhenghu Zhou
- Center for Ecological Research, Key Laboratory of Sustainable Forest Ecosystem Management, Ministry of Education, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China.
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36
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Yang Y, Chen Y, Li Z, Zhang Y, Lu L. Microbial community and soil enzyme activities driving microbial metabolic efficiency patterns in riparian soils of the Three Gorges Reservoir. Front Microbiol 2023; 14:1108025. [PMID: 37180230 PMCID: PMC10171112 DOI: 10.3389/fmicb.2023.1108025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Accepted: 04/03/2023] [Indexed: 05/16/2023] Open
Abstract
Riparian zones represent important transitional areas between aquatic and terrestrial ecosystems. Microbial metabolic efficiency and soil enzyme activities are important indicators of carbon cycling in the riparian zones. However, how soil properties and microbial communities regulate the microbial metabolic efficiency in these critical zones remains unclear. Thus, microbial taxa, enzyme activities, and metabolic efficiency were conducted in the riparian zones of the Three Gorges Reservoir (TGR). Microbial carbon use efficiency and microbial biomass carbon had a significant increasing trend along the TGR (from upstream to downstream); indicating higher carbon stock in the downstream, microbial metabolic quotient (qCO2) showed the opposite trend. Microbial community and co-occurrence network analysis revealed that although bacterial and fungal communities showed significant differences in composition, this phenomenon was not found in the number of major modules. Soil enzyme activities were significant predictors of microbial metabolic efficiency along the different riparian zones of the TGR and were significantly influenced by microbial α-diversity. The bacterial taxa Desulfobacterota, Nitrospirota and the fungal taxa Calcarisporiellomycota, Rozellomycota showed a significant positive correlation with qCO2. The shifts in key microbial taxa unclassified_k_Fungi in the fungi module #3 are highlighted as essential factors regulating the microbial metabolic efficiency. Structural equation modeling results also revealed that soil enzyme activities had a highly significant negative effect on microbial metabolism efficiency (bacteria, path coefficient = -0.63; fungi, path coefficient = -0.67).This work has an important impact on the prediction of carbon cycling in aquatic-terrestrial ecotones. Graphical abstract.
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Affiliation(s)
- Yining Yang
- Key Laboratory of Hydraulic and Waterway Engineering of the Ministry of Education, Chongqing Jiaotong University, Chongqing, China
| | - Yao Chen
- Key Laboratory of Hydraulic and Waterway Engineering of the Ministry of Education, Chongqing Jiaotong University, Chongqing, China
| | - Zhe Li
- CAS Key Laboratory of Reservoir Water Environment, Chongqing Institute of Green and Intelligent Technology, Chinese Academy of Sciences, Chongqing, China
| | - Yuanyuan Zhang
- CAS Key Laboratory of Reservoir Water Environment, Chongqing Institute of Green and Intelligent Technology, Chinese Academy of Sciences, Chongqing, China
| | - Lunhui Lu
- CAS Key Laboratory of Reservoir Water Environment, Chongqing Institute of Green and Intelligent Technology, Chinese Academy of Sciences, Chongqing, China
- *Correspondence: Lunhui Lu,
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Zhu W, Lu X, Hong C, Hong L, Zhu F, Zhang S, Yao Y. Contributions of carbon source, crop cultivation, and chemical property on microbial community assemblage in soil subjected to reductive disinfestation. Front Microbiol 2023; 14:1146207. [PMID: 37032903 PMCID: PMC10081160 DOI: 10.3389/fmicb.2023.1146207] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Accepted: 03/09/2023] [Indexed: 04/11/2023] Open
Abstract
In agricultural practice, reductive soil disinfestation (RSD) is an effective method for eliminating soil-borne pathogens that depends heavily on carbon source. However, knowledge regarding the assembly of soil microbial communities in RDS-treated soils amended with different carbon sources after continuous crop cultivation is still not well-characterized. RSD treatments were performed on greenhouse soil with six different carbon sources (ethanol, glucose, alfalfa, wheat bran, rice bran, and sugarcane residue), which have different C:N ratios (Org C/N) and easily oxidized carbon contents (Org EOC). After RSD, two consecutive seasons of pepper pot experiments were conducted. Then, the effects of carbon source property, crop cultivation, and soil chemical property on soil microbial community reestablishment, pathogen reproduction, and crop performance were investigated in the RSD-cropping system. Variation partition analysis indicated that carbon source property, crop cultivation, and soil chemical property explained 66.2 and 39.0% of bacterial and fungal community variation, respectively. Specifically, Mantel tests showed that Org C/N, crop cultivation, soil available phosphorus and potassium were the most important factors shaping bacterial community composition, while Org C/N, Org EOC, and crop cultivation were the most important factors shaping fungal community composition. After two planting seasons, the number of cultivable Fusarium was positively correlated with Org EOC, and negatively correlated with soil total organic carbon, Fungal Chao1, and Fungal PC1. Crop yield of complex-carbon soils (Al, Wh, Ri and Su) was negatively affected by Org C/N after the first season, and it was highest in Al, and lower in Et and Su after the second season. Overall, Org EOC and Org C/N of carbon source were vitally important for soil microbe reestablishment, Fusarium reproduction and crop performance. Our findings further broaden the important role of carbon source in the RSD-cropping system, and provide a theoretical basis for organic carbon selection in RSD practice.
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Affiliation(s)
- Weijing Zhu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Xiaolin Lu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Chunlai Hong
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Leidong Hong
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Fengxiang Zhu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Shuo Zhang
- Ningbo Agricultural and Rural Green Development Center, Ningbo, China
| | - Yanlai Yao
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
- *Correspondence: Yanlai Yao,
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Liu Z, Xu G, Tian D, Lin Q, Ma S, Xing A, Xu L, Shen H, Ji C, Zheng C, Wang X, Fang J. Does Forest Soil Fungal Community Respond to Short-Term Simulated Nitrogen Deposition in Different Forests in Eastern China? J Fungi (Basel) 2022; 9:jof9010053. [PMID: 36675875 PMCID: PMC9864950 DOI: 10.3390/jof9010053] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 12/14/2022] [Accepted: 12/23/2022] [Indexed: 12/31/2022] Open
Abstract
Nitrogen (N) deposition has changed plants and soil microbes remarkably, which deeply alters the structures and functions of terrestrial ecosystems. However, how forest fungal diversity, community compositions, and their potential functions respond to N deposition is still lacking in exploration at a large scale. In this study, we conducted a short-term (4-5 years) experiment of artificial N addition to simulated N deposition in five typical forest ecosystems across eastern China, which includes tropical montane rainforest, subtropical evergreen broadleaved forest, temperate deciduous broadleaved forest, temperate broadleaved and conifer mixed forest, and boreal forest along a latitudinal gradient from tropical to cold temperature zones. Fungal compositions were identified using high-throughput sequencing at the topsoil layer. The results showed that fungal diversity and fungal community compositions among forests varied apparently for both unfertilized and fertilized soils. Generally, soil fungal diversity, communities, and their potential functions responded sluggishly to short-term N addition, whereas the fungal Shannon index was increased in the tropical forest. In addition, environmental heterogeneity explained most of the variation among fungal communities along the latitudinal gradient. Specifically, soil C: N ratio and soil water content were the most important factors driving fungal diversity, whereas mean annual temperature and microbial nutrient limitation mainly shaped fungal community structure and functional compositions. Topsoil fungal communities in eastern forest ecosystems in China were more sensitive to environmental heterogeneity rather than short-term N addition. Our study further emphasized the importance of simultaneously evaluating soil fungal communities in different forest types in response to atmospheric N deposition.
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Affiliation(s)
- Zhenyue Liu
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Gexi Xu
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Di Tian
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, Beijing Forestry University, Beijing 100083, China
- Correspondence: (D.T.); (X.W.)
| | - Quanhong Lin
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Suhui Ma
- Key Laboratory for Earth Surface Processes of the Ministry of Education, Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
| | - Aijun Xing
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Longchao Xu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Haihua Shen
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Chengjun Ji
- Key Laboratory for Earth Surface Processes of the Ministry of Education, Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
| | - Chengyang Zheng
- Key Laboratory for Earth Surface Processes of the Ministry of Education, Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
| | - Xiangping Wang
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, Beijing Forestry University, Beijing 100083, China
- Correspondence: (D.T.); (X.W.)
| | - Jingyun Fang
- Key Laboratory for Earth Surface Processes of the Ministry of Education, Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China
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Wang Z, Liu X, Zhou W, Sinclair F, Shi L, Xu J, Gui H. Land use intensification in a dry-hot valley reduced the constraints of water content on soil microbial diversity and multifunctionality but increased CO 2 production. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 852:158397. [PMID: 36055510 DOI: 10.1016/j.scitotenv.2022.158397] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Revised: 08/21/2022] [Accepted: 08/25/2022] [Indexed: 06/15/2023]
Abstract
Conversion of abandoned land (mainly savanna) into cropland generally occurs in fragile ecosystems such as dry-hot valleys (DHVs) in southwest China, with the intent of increasing land productivity and conducting ecological restoration. However, the effects of conversion on soil microbial communities and carbon turnover of savanna ecosystems remain unclear, since savannas could be a vital but overlooked carbon sink. To illustrate the ecological consequences of land-use change (LUC) for savanna ecosystems, a 1-year field experiment was conducted in DHVs of southwest China. The soil properties, microbial respiration, and metagenomics from two different land-use types (grassland and mango plantation) were examined to reveal the effects of regional LUC on soil C turnover and microbial traits. Conversion from degraded grassland into cropland increased the contribution of soil microclimate to the microbial community composition, reduced the constraints of soil water content (SWC), and further decreased nutrient availability. LUC reshaped the composition and structure of soil bacterial communities. Specifically, soil dominant microbes that belonged to Actinobacteria and Proteobacteria were significantly enriched by conversion, while rare microbes that belonged to a wider range of phyla were generally depleted, leading to an overall decrease in community diversity. In addition, LUC-induced changes in soil characteristics and microbial communities further decreased soil multifunctionality as well as the carbon use efficiency of microbes. Intensified microbial respiration and a significant increase in the soil CO2 efflux were observed following LUC, which could drive changes in soil microbial community composition and functions (such as growth and regeneration). In summary, through simultaneously reducing constraints on SWC and decreasing nutrient availability, conversion from degraded grassland to cropland in a DHV decreased soil microbial diversity and multifunctionality, and increased microbial respiration and soil CO2 efflux. Our study provides new insights for understanding the role and mechanisms of LUC in soil carbon turnover in ecologically fragile areas such as DHVs.
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Affiliation(s)
- Zhenghong Wang
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; Institute of Plant and Food Science, Department of Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen 518055, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiang Liu
- State Key Laboratory of Grassland Agro-Ecosystems, Institute of Innovation Ecology, Lanzhou University, Lanzhou 730000, China
| | - Wenjun Zhou
- University of Chinese Academy of Sciences, Beijing 100049, China; CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla, Yunnan 666303, China
| | - Fergus Sinclair
- World Agroforestry Centre (ICRAF), United Nations Avenue, Gigiri, P.O. Box 30677-00100, Nairobi, Kenya
| | - Lingling Shi
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China
| | - Jianchu Xu
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Heng Gui
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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40
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Iven H, Walker TWN, Anthony M. Biotic Interactions in Soil are Underestimated Drivers of Microbial Carbon Use Efficiency. Curr Microbiol 2022; 80:13. [PMID: 36459292 PMCID: PMC9718865 DOI: 10.1007/s00284-022-02979-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Accepted: 04/05/2022] [Indexed: 12/05/2022]
Abstract
Microbial carbon use efficiency (CUE)-the balance between microbial growth and respiration-strongly impacts microbial mediated soil carbon storage and is sensitive to many well-studied abiotic environmental factors. However, surprisingly, little work has examined how biotic interactions in soil may impact CUE. Here, we review the theoretical and empirical lines of evidence exploring how biotic interactions affect CUE through the lens of life history strategies. Fundamentally, the CUE of a microbial population is constrained by population density and carrying capacity, which, when reached, causes species to grow more quickly and less efficiently. When microbes engage in interspecific competition, they accelerate growth rates to acquire limited resources and release secondary chemicals toxic to competitors. Such processes are not anabolic and thus constrain CUE. In turn, antagonists may activate one of a number of stress responses that also do not involve biomass production, potentially further reducing CUE. In contrast, facilitation can increase CUE by expanding species realized niches, mitigating environmental stress and reducing production costs of extracellular enzymes. Microbial interactions at higher trophic levels also influence CUE. For instance, predation on microbes can positively or negatively impact CUE by changing microbial density and the outcomes of interspecific competition. Finally, we discuss how plants select for more or less efficient microbes under different contexts. In short, this review demonstrates the potential for biotic interactions to be a strong regulator of microbial CUE and additionally provides a blueprint for future research to address key knowledge gaps of ecological and applied importance for carbon sequestration.
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Affiliation(s)
- Hélène Iven
- Department of Environmental Systems Science, Institute of Agricultural Sciences, ETH Zurich, 8006, Zurich, Switzerland.
| | - Tom W N Walker
- Institute of Biology, University of Neuchâtel, 2000, Neuchâtel, Switzerland
- Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, 8006, Zurich, Switzerland
| | - Mark Anthony
- Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, 8006, Zurich, Switzerland
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Wang X, Cui Y, Chen L, Tang K, Wang D, Zhang Z, Yu J, Fang L. Microbial metabolic limitation and carbon use feedback in lead contaminated agricultural soils. CHEMOSPHERE 2022; 308:136311. [PMID: 36067810 DOI: 10.1016/j.chemosphere.2022.136311] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2022] [Revised: 08/06/2022] [Accepted: 08/30/2022] [Indexed: 06/15/2023]
Abstract
Potentially toxic elements (PTEs) pollution causes a great threat to microbial metabolism, which plays a vital role in studying soil nutrient cycling and predicting carbon (C) storage in agroecosystems. However, the responses of microbial metabolism characteristic to heavy metal contamination and the mechanisms through which microbial metabolism mediate nutrient cycling and C dynamics in contaminated soil remain elusive. Here, we performed an incubation experiment over 80 days to investigate the variations in microbial metabolic limitation under various Pb levels (0, 100, 500, 800, 1500, 2000, and 3000 mg Pb kg-1 dry soil) in cropland soil using extracellular enzymatic stoichiometry, and to reveal the impact of Pb stress on soil C storage by associating with microbial metabolic quotients (qCO2) and C use efficiency (CUE). The results showed microbial relative C limitation and phosphorus (P) limitation were observed in Pb-contaminated soils. Pb addition enhanced the microbial relative C limitation by approximately 7.3%, while decreasing the P limitation by approximately 12.3%. Furthermore, Pb addition led to higher qCO2 (from 8.75 to 108 μg C kg-1 MBC-1 d-1) duo to the increase of microbial relative C limitation, suggesting that the more CO2 was released of per unit of microbial biomass C. The increase of microbial relative C limitation reduced CUE (from 0.35 to 0.10) because of the change in microbial metabolism from growth to respiration maintenance under Pb stress. Consequently, the CUE and qCO2 together determined the loss of soil C. Our study reveals that microbial relative C limitation is the dominant driver of soil C loss and provides important knowledge of microbial metabolic limitation regulating soil C turnover in PTEs-contaminated agricultural soils.
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Affiliation(s)
- Xiangxiang Wang
- Wuhan University of Technology, School of Resources and Environmental Engineering, Wuhan, Hubei, 430070, China; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Yongxing Cui
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
| | - Li Chen
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Kun Tang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Dawei Wang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Zhigang Zhang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Jialuo Yu
- Institute of Geographic Sciences and Natural Resources Research CAS, Beijing 100049, China
| | - Linchuan Fang
- Wuhan University of Technology, School of Resources and Environmental Engineering, Wuhan, Hubei, 430070, China; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi, 712100, China; CAS Center for Excellence in Quaternary Science and Global Change, Xi'an, 710061, China.
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Wu W, Dijkstra P, Hungate BA, Shi L, Dippold MA. In situ diversity of metabolism and carbon use efficiency among soil bacteria. SCIENCE ADVANCES 2022; 8:eabq3958. [PMID: 36332015 PMCID: PMC9635821 DOI: 10.1126/sciadv.abq3958] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Accepted: 09/16/2022] [Indexed: 06/16/2023]
Abstract
The central carbon (C) metabolic network harvests energy to power the cell and feed biosynthesis for growth. In pure cultures, bacteria use some but not all of the network's major pathways, such as glycolysis and pentose phosphate and Entner-Doudoroff pathways. However, how these pathways are used in microorganisms in intact soil communities is unknown. Here, we analyzed the incorporation of 13C from glucose isotopomers into phospholipid fatty acids. We showed that groups of Gram-positive and Gram-negative bacteria in an intact agricultural soil used different pathways to metabolize glucose. They also differed in C use efficiency (CUE), the efficiency with which a substrate is used for biosynthesis. Our results provide experimental evidence for diversity among microbes in the organization of their central carbon metabolic network and CUE under in situ conditions. These results have important implications for our understanding of how community composition affects soil C cycling and organic matter formation.
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Affiliation(s)
- Weichao Wu
- Biogeochemistry of Agroecosystem, University of Goettingen, Goettingen, Germany
- Department of Environmental Science, Stockholm University, Stockholm, Sweden
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Science, Shanghai Ocean University, Shanghai, China
| | - Paul Dijkstra
- Center for Ecosystem Science and Society and Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Bruce A. Hungate
- Center for Ecosystem Science and Society and Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
| | - Lingling Shi
- Key Laboratory of Economics Plants and Biotechnology, Institute of Botany, Chinese Academy of Sciences, Kunming, China
- World Agroforestry Centre, China and East-Asia Office, Kunming, China
- Geo-Biosphere Interactions, Department of Geosciences, University of Tuebingen, Tuebingen, Germany
| | - Michaela A. Dippold
- Biogeochemistry of Agroecosystem, University of Goettingen, Goettingen, Germany
- Geo-Biosphere Interactions, Department of Geosciences, University of Tuebingen, Tuebingen, Germany
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Serrani D, Ajmone-Marsan F, Corti G, Cocco S, Cardelli V, Adamo P. Heavy metal load and effects on biochemical properties in urban soils of a medium-sized city, Ancona, Italy. ENVIRONMENTAL GEOCHEMISTRY AND HEALTH 2022; 44:3425-3449. [PMID: 34617246 PMCID: PMC9522685 DOI: 10.1007/s10653-021-01105-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Accepted: 09/17/2021] [Indexed: 06/13/2023]
Abstract
Urban soils are often mixed with extraneous materials and show a high spatial variability that determine great differences from their agricultural or natural counterparts. The soils of 18 localities of a medium-sized city (Ancona, Italy) were analysed for their main physicochemical and biological properties, and for chromium (Cr), copper (Cu), cobalt (Co), lead (Pb), nickel (Ni), zinc (Zn), and mercury (Hg) total content, distribution among particle-size fractions, and extractability. Because of the absence of thresholds defining a hot spot for heavy metal pollution in urban soils, we defined a "threshold of attention" (ToA) for each heavy metal aiming to bring out hot spot soils where it is more impellent to intervene to mitigate or avoid potential environmental concerns. In several city locations, the soil displayed sub-alkaline pH, large contents of clay-size particles, and higher TOC, total N, and available P with respect to the surrounding rural areas, joined with high contents of total heavy metals, but low availability. The C biomass, basal respiration, qCO2, and enzyme activities were compared to that detected in the near rural soils, and results suggested that heavy metals content has not substantially compromised the soil ecological services. We conclude that ToA can be considered as a valuable tool to highlight soil hot spots especially for cities with a long material history and, for a proper risk assessment in urban soils, we suggest considering the content of available heavy metals (rather than the total content) and soil functions.
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Affiliation(s)
- Dominique Serrani
- Department of Agriculture, Food and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche 10, 60131, Ancona, Italy.
| | - Franco Ajmone-Marsan
- Department of Agriculture, Forest and Food Sciences, University of Turin, Largo Paolo Braccini 2, 10095, Grugliasco, Italy
| | - Giuseppe Corti
- Department of Agriculture, Food and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche 10, 60131, Ancona, Italy
| | - Stefania Cocco
- Department of Agriculture, Food and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche 10, 60131, Ancona, Italy
| | - Valeria Cardelli
- Department of Agriculture, Food and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche 10, 60131, Ancona, Italy
| | - Paola Adamo
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055, Portici, Italy
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Biodegradation of poly(butylene succinate) in soil laboratory incubations assessed by stable carbon isotope labelling. Nat Commun 2022; 13:5691. [PMID: 36171185 PMCID: PMC9519748 DOI: 10.1038/s41467-022-33064-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2021] [Accepted: 08/30/2022] [Indexed: 11/20/2022] Open
Abstract
Using biodegradable instead of conventional plastics in agricultural applications promises to help overcome plastic pollution of agricultural soils. However, analytical limitations impede our understanding of plastic biodegradation in soils. Utilizing stable carbon isotope (13C-)labelled poly(butylene succinate) (PBS), a synthetic polyester, we herein present an analytical approach to continuously quantify PBS mineralization to 13CO2 during soil incubations and, thereafter, to determine non-mineralized PBS-derived 13C remaining in the soil. We demonstrate extensive PBS mineralization (65 % of added 13C) and a closed mass balance on PBS−13C over 425 days of incubation. Extraction of residual PBS from soils combined with kinetic modeling of the biodegradation data and results from monomer (i.e., butanediol and succinate) mineralization experiments suggest that PBS hydrolytic breakdown controlled the overall PBS biodegradation rate. Beyond PBS biodegradation in soil, the presented methodology is broadly applicable to investigate biodegradation of other biodegradable polymers in various receiving environments. This study applies stable carbon isotope labelling to study polymer biodegradation in soils. This labelling enables accurate and precise tracking of polymer carbon during biodegradation and, thereby, provides a holistic picture of this process.
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45
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Luo L, Guo M, Wang E, Yin C, Wang Y, He H, Zhao C. Effects of mycorrhiza and hyphae on the response of soil microbial community to warming in eastern Tibetan Plateau. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 837:155498. [PMID: 35523342 DOI: 10.1016/j.scitotenv.2022.155498] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Revised: 04/20/2022] [Accepted: 04/20/2022] [Indexed: 06/14/2023]
Abstract
The effects of mycorrhiza and its external hyphae on the response of soil microbes to global warming remain unclear. This study investigates the role of mycorrhiza and its hyphae in regulating soil microbial community under warming by examining the microbial biomass and composition in the ingrowth cores of arbuscular mycorrhiza (AM) plant, Fargesia nitida, and ectomycorrhiza (ECM) plant, Picea asperata, with/without mycorrhiza/hyphae and experimental warming. The results showed that warming significantly increased the biomass of all soil microbes (by 19.89%-137.48%) and altered the microbial composition in both plant plots without mycorrhiza/hyphae. However, this effect was weakened in the presence of mycorrhiza or hyphae. In F. nitida plots, warming did not significantly affect biomass and composition of most soil microbial groups when mycorrhiza or hyphae were present. In P. asperata plots, warming significantly increased the total and ECM fungi (ECMF) biomass in the presence of hyphae (p < 0.05) and the total, Gn, and AM fungi (AMF) biomass in the presence of mycorrhiza (p < 0.05). Meanwhile, the response of enzyme activities to warming was also altered with mycorrhiza or hyphae. Additionally, soil microbial community composition was mainly influenced by soil available phosphorus (avaP), while enzyme activities depended on soil avaP, dissolved organic carbon (DOC), and nitrate concentrations. Our results indicate that mycorrhiza and its hyphae are essential in regulating the response of microbes to warming.
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Affiliation(s)
- Lin Luo
- State Environmental Protection Key Laboratory of Synergetic Control and Joint Remediation for Soil & Water Pollution, College of Ecology and Environment, Chengdu University of Technology, Chengdu 610059, PR China; CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, P.O. Box 416, Chengdu 610041, PR China; University of Chinese Academy of Sciences, No. 19A Yuquan Road, Beijing 100049, PR China
| | - Min Guo
- College of Life Science, Sichuan Normal University, Chengdu, China
| | - Entao Wang
- Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Mexico 11340, Mexico
| | - Chunying Yin
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, P.O. Box 416, Chengdu 610041, PR China
| | - Yanjie Wang
- College of Life Science, Sichuan Normal University, Chengdu, China
| | - Heliang He
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, P.O. Box 416, Chengdu 610041, PR China; University of Chinese Academy of Sciences, No. 19A Yuquan Road, Beijing 100049, PR China; College of Agriculture, Forestry and Food Engineering, Yibin University, Yibin 644007, China
| | - Chunzhang Zhao
- State Environmental Protection Key Laboratory of Synergetic Control and Joint Remediation for Soil & Water Pollution, College of Ecology and Environment, Chengdu University of Technology, Chengdu 610059, PR China.
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Hu J, Huang C, Zhou S, Kuzyakov Y. Nitrogen addition to soil affects microbial carbon use efficiency: Meta-analysis of similarities and differences in 13 C and 18 O approaches. GLOBAL CHANGE BIOLOGY 2022; 28:4977-4988. [PMID: 35617026 DOI: 10.1111/gcb.16226] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Accepted: 05/03/2022] [Indexed: 06/15/2023]
Abstract
The carbon use efficiency (CUE) of soil microorganisms is a critical parameter for the first step of organic carbon (C) transformation by and incorporation into microbial biomass and shapes C cycling in terrestrial ecosystems. As C and nitrogen (N) cycles interact closely and N availability affects microbial metabolism, N addition to soil may shift the microbial CUE. We conducted a meta-analysis (100 data pairs) to generalize information about the microbial CUE response to N addition in soil based on the two most common CUE estimation approaches: (i) 13 C-labelled substrate addition (13 C-substrate) and (ii) 18 O-labelled water addition (18 O-H2 O). The mean microbial CUE in soils across all biomes and approaches was 0.37. The effects of N addition on CUE, however, were depended on the approach: CUE decreased by 12% if measured by the 13 C-substrate approach, while CUE increased by 11% if measured by the 18 O-H2 O approach. These differences in the microbial CUE response depending on the estimation approach are explained by the divergent reactions of microbial growth to N addition: N addition decreases the 13 C incorporation into microbial biomass (this parameter is in the numerator by CUE calculation based on the 13 C-substrate approach). In contrast, N addition slightly increases (although statistically insignificant) the microbial growth rate (in the numerator of the CUE calculation when assessed by the 18 O-H2 O approach), significantly raising the CUE. We explained these N addition effects based on CUE regulation mechanisms at the metabolic, cell, community, and ecosystem levels. Consequently, the differences in the microbial responses (microbial growth, respiration, C incorporation, community composition, and dormant or active states) between the 13 C-substrate and 18 O-H2 O approaches need to be considered. Thus, these two CUE estimation approaches should be compared to understand microbially mediated C and nutrient dynamics under increasing anthropogenic N input and other global change effects.
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Affiliation(s)
- Junxi Hu
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Congde Huang
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Shixing Zhou
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River, College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Goettingen, Göttingen, Germany
- Peoples Friendship University of Russia (RUDN University), Moscow, Russia
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Feng X, Qin S, Zhang D, Chen P, Hu J, Wang G, Liu Y, Wei B, Li Q, Yang Y, Chen L. Nitrogen input enhances microbial carbon use efficiency by altering plant-microbe-mineral interactions. GLOBAL CHANGE BIOLOGY 2022; 28:4845-4860. [PMID: 35650709 DOI: 10.1111/gcb.16229] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Revised: 02/10/2022] [Accepted: 04/05/2022] [Indexed: 06/15/2023]
Abstract
Microbial growth and respiration are at the core of the soil carbon (C) cycle, as these microbial physiological performances ultimately determine the fate of soil C. Microbial C use efficiency (CUE), a critical metric to characterize the partitioning of C between microbial growth and respiration, thus controls the sign and magnitude of soil C-climate feedback. Despite its importance, the response of CUE to nitrogen (N) input and the relevant regulatory mechanisms remain poorly understood, leading to large uncertainties in predicting soil C dynamics under continuous N input. By combining a multi-level field N addition experiment with a substrate-independent 18 O-H2 O labelling approach as well as high-throughput sequencing and mineral analysis, here we elucidated how N-induced changes in plant-microbial-mineral interactions drove the responses of microbial CUE to N input. We found that microbial CUE increased significantly as a consequence of enhanced microbial growth after 6-year N addition. In contrast to the prevailing view, the elevated microbial growth and CUE were not mainly driven by the reduced stoichiometric imbalance, but strongly associated with the increased soil C accessibility from weakened mineral protection. Such attenuated organo-mineral association was further linked to the N-induced changes in the plant community and the increased oxalic acid in the soil. These findings provide empirical evidence for the tight linkage between mineral-associated C dynamics and microbial physiology, highlighting the need to disentangle the complex plant-microbe-mineral interactions to improve soil C prediction under anthropogenic N input.
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Affiliation(s)
- Xuehui Feng
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shuqi Qin
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Dianye Zhang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Pengdong Chen
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, China
| | - Jie Hu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Guanqin Wang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yang Liu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Bin Wei
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Qinlu Li
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yuanhe Yang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Leiyi Chen
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
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Fang W, Lin M, Shi J, Liang Z, Tu X, He Z, Qiu R, Wang S. Organic carbon and eukaryotic predation synergistically change resistance and resilience of aquatic microbial communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 830:154386. [PMID: 35331758 DOI: 10.1016/j.scitotenv.2022.154386] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Revised: 03/03/2022] [Accepted: 03/04/2022] [Indexed: 06/14/2023]
Abstract
With rapid global urbanization, anthropogenic activities alter aquatic biota in urban rivers through inputs of dissolved organic carbon (DOC) and nutrients. Microorganisms-mediated global element cycles provide functions in maintaining microbial ecology stability. The DOC (bottom-up control) and microbial predation (top-down control) may synergistically drive the competition and evolution of aquatic microbial communities, as well as their resistance and resilience, for which experimental evidences remain scarce. In this study, laboratory sediment-water column experiments were employed to mimic the organic carbon-driven water blackening and odorization process in urban rivers and to elucidate the impact of DOC on microbial ecology stability. Results showed that low (25-75 mg/L) and high DOC (100-150 mg/L) changed the aquatic microbial community assemblies in different patterns: (1) the low DOC enriched K-selection microorganisms (e.g., C39, Tolumonas and CR08G) with low biomass and low resilience, as well as high resistance to perturbations in changing microbial community assemblies; (2) the high DOC was associated with r-selection microorganisms (e.g., PSB-M-3 and Clostridium) with high biomass and improved resilience, together with low resistance detrimental to microbial ecology stability. Overall, this study provided new insight into the impact of DOC on aquatic microbial community stability, which may help guide sustainable urban river management.
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Affiliation(s)
- Wenwen Fang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China; Zhongshan Municipal Ecology and Environment Bureau, Zhongshan, Guangdong 528403, China
| | - Muxing Lin
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China
| | - Jiangjian Shi
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China
| | - Zhiwei Liang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China
| | - Xiang Tu
- State Environmental Protection Key Laboratory of Source Water Protection, Chinese Research Academy of Environmental Sciences, 100012 Beijing, China
| | - Zhili He
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China
| | - Rongliang Qiu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China; Guangdong Laboratory for Lingnan Modern Agriculture, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China
| | - Shanquan Wang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510275 China.
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Babur E, Dindaroğlu T, Riaz M, Uslu OS. Seasonal Variations in Litter Layers' Characteristics Control Microbial Respiration and Microbial Carbon Utilization Under Mature Pine, Cedar, and Beech Forest Stands in the Eastern Mediterranean Karstic Ecosystems. MICROBIAL ECOLOGY 2022; 84:153-167. [PMID: 34432102 DOI: 10.1007/s00248-021-01842-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2021] [Accepted: 08/09/2021] [Indexed: 05/25/2023]
Abstract
The forest floor is hotspot of several functions integral to the stability of forest ecosystems. However, seasonal variations in litter decomposition rate contribute to biochemical and structural heterogeneity in the forest floor carbon (C) and nutrient cycling. We investigated the influence of seasonal variations in litter layers' micro-climate (temperature and moisture content) and chemical characteristics such as pH, electrical conductivity (EC), total organic C (TOC), total nitrogen (TN), and C/N ratio on microbial respiration, biomass, and C use efficiency under mature (> 80 years stage age) pine, beech, and cedar forests in eastern Mediterranean Karstic ecosystems. In contrast to significantly higher microbial respiration in fall, winter, and spring under pine, beech, and cedar forests, the significantly lowest microbial biomass C (MBC) and microbial biomass N (MBN) were observed in winter under each forest. Microbial C use efficiency, measured as the metabolic quotient (qCO2 = CO2/MBC), varied strongly between forest stands and seasons but was generally higher in winter. The significant positive correlations between litter layer and microbial biomass C/N ratios, under beech and cedar forests, suggested strong CN stoichiometric coupling and microbial adaptation to substrate resource stoichiometry. qCO2 correlated significantly negatively with litter layers' temperature, positively with moisture content and EC. However, qCO2 had significant negative relationships with pH in pine and beech forests but significant positive under cedar forest. qCO2 showed significant positive relationships with C/N ratios under all forests but much stronger in beech and cedar forests suggesting higher C respired per unit MBC with an increase in C/N ratio. Despite variations between forest species, the highest MBC/TOC and MBN/TN ratios in fall indicated greater C and N incorporation into microbial biomass. Changes in MBC/MBN ratios under pine (9.62-10.6), beech (8.63-15.6), and cedar (7.32-16.2) forests indicated the shift in microbial communities as fungi have a higher C/N ratio than bacteria. Stepwise regression analysis further revealed that microbial respiration and biomass were controlled differently by litter layer characteristics in each forest. This study suggested that qCO2 independently or with other microbial indices can show litter layers' controls on organic matter turnover in Karst ecosystems and, taking into account the strong seasonal variations, can enhance the predictive potential of decomposition models.
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Affiliation(s)
- Emre Babur
- Soil and Ecology Department, Faculty of Forestry, Kahramanmaras Sutcu Imam University, Kahramanmaraş, Turkey
| | - Turgay Dindaroğlu
- Soil and Ecology Department, Faculty of Forestry, Kahramanmaras Sutcu Imam University, Kahramanmaraş, Turkey
| | - Muhammad Riaz
- Department of Environmental Sciences and Engineering, Government College University, Faisalabad, Pakistan.
| | - Omer Suha Uslu
- Department of Field Crops, Faculty of Agriculture, Kahramanmaraş Sütçü İmam University, Kahramanmaraş, Turkey
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50
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Cyle KT, Klein AR, Aristilde L, Martínez CE. Dynamic utilization of low-molecular-weight organic substrates across a microbial growth rate gradient. J Appl Microbiol 2022; 133:1479-1495. [PMID: 35665577 DOI: 10.1111/jam.15652] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 05/05/2022] [Accepted: 05/31/2022] [Indexed: 11/28/2022]
Abstract
AIM Low-molecular-weight organic substances (LMWOSs) are at the nexus between microorganisms, plant roots, detritus, and the soil mineral matrix. Nominal oxidation state of carbon (NOSC) has been suggested a potential parameter for modeling microbial uptake rates of LMWOSs and the efficiency of carbon incorporation into new biomass. METHODS AND RESULTS In this study, we assessed the role of compound class and oxidation state on uptake kinetics and substrate-specific carbon use efficiency (SUE) during the growth of three model soil microorganisms, a fungal isolate (Penicillium spinulosum) and two bacterial isolates (Paraburkholderia solitsugae, and Ralstonia pickettii). Isolates were chosen that spanned a growth rate gradient (0.046-0.316 h-1 ) in media containing 34 common LMWOSs at realistically low initial concentrations (25 μM each). Clustered, co-utilization of LMWOSs occurred for all three organisms. Potential trends (p < 0.05) for early utilization of more oxidized substrates were present for the two bacterial isolates (P. solitsugae and R. pickettii), but high variability (R2 < 0.15) and a small effect of NOSC indicate these relationships are not useful for prediction. The SUEs of selected substrates ranged from 0.16-0.99 and there was no observed relationship between NOSC and SUE. CONCLUSION Our results do not provide compelling population-level support for NOSC as a predictive tool for either uptake kinetics or the efficiency of use of LMWOS in soil solution. SIGNIFICANCE AND IMPACT OF THE STUDY Metabolic strategies of organisms are likely more important than chemical identity in determining LMWOS cycling in soils. Previous community-level observations may be biased towards fast-responding bacterial community members.
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Affiliation(s)
- K Taylor Cyle
- Soil and Crop Sciences, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, 14853, USA
| | - Annaleise R Klein
- Department of Biological and Environmental Engineering, Cornell University, Riley-Robb Hall, Ithaca, NY 14853.,Australian Synchrotron, Australian Nuclear Science and Technology Organisation, Clayton, VIC 3168, Australia
| | - Ludmilla Aristilde
- Department of Biological and Environmental Engineering, Cornell University, Riley-Robb Hall, Ithaca, NY 14853.,Department of Civil and Environmental Engineering, McCormick School of Engineering and Applied Science, Northwestern University, Evanston, IL, 60208, USA
| | - Carmen Enid Martínez
- Soil and Crop Sciences, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, 14853, USA
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