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Liu F, Yang J, Zhang Y, Yang S, Zhang Y, Chen Y, Shao Y, Gao D, Yuan Z, Zhang Y. Mulches assist degraded soil recovery via stimulating biogeochemical cycling: metagenomic analysis. Appl Microbiol Biotechnol 2024; 108:20. [PMID: 38159114 DOI: 10.1007/s00253-023-12824-6] [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: 02/24/2023] [Revised: 11/07/2023] [Accepted: 11/21/2023] [Indexed: 01/03/2024]
Abstract
Soil degradation of urban greening has caused soil fertility loss and soil organic carbon depletion. Organic mulches are made from natural origin materials, and represent a cost-effective and environment-friendly remediation method for urban greening. To reveal the effects of organic mulch on soil physicochemical characteristics and fertility, we selected a site that was covered with organic mulch for 6 years and a nearby lawn-covered site. The results showed that soil organic matter, total nitrogen, and available phosphorus levels were improved, especially at a depth of 0-20 cm. The activities of cellulase, invertase, and dehydrogenase in soil covered with organic mulch were 17.46%, 78.98%, and 283.19% higher than those under lawn, respectively. The marker genes of fermentation, aerobic respiration, methanogenesis, and methane oxidation were also enriched in the soil under organic mulch. Nitrogen cycling was generally repressed by the organic mulch, but the assimilatory nitrate and nitrite reduction processes were enhanced. The activity of alkaline phosphatase was 12.63% higher in the mulch-covered soil, and functional genes involved in phosphorus cycling were also enriched. This study presents a comprehensive investigation of the influence of organic mulch on soil microbes and provides a deeper insight into the recovery strategy for soil degradation following urban greening. KEY POINTS: • Long-term cover with organic mulches assists soil recovery from degradation • Soil physical and chemical properties were changed by organic mulches • Organic mulches enhanced genes involved in microbially mediated C and P cycling • Soil organic matter was derived from decomposition of organic mulch and carbon fixation • N cycling was repressed by mulches, except for assimilatory NO2- and NO3- reductions.
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Affiliation(s)
- Fengqin Liu
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Jiale Yang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yu Zhang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Shuilian Yang
- College of Resources and Environmental Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yifan Zhang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yun Chen
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yizhen Shao
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Dawen Gao
- College of Environment and Energy Engineering, Engineering and Architecture, Beijing University of Civil, Beijing, 100044, China
| | - Zhiliang Yuan
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China.
| | - Yupeng Zhang
- College of Resources and Environmental Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China.
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2
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Lennon JT, Abramoff RZ, Allison SD, Burckhardt RM, DeAngelis KM, Dunne JP, Frey SD, Friedlingstein P, Hawkes CV, Hungate BA, Khurana S, Kivlin SN, Levine NM, Manzoni S, Martiny AC, Martiny JBH, Nguyen NK, Rawat M, Talmy D, Todd-Brown K, Vogt M, Wieder WR, Zakem EJ. Priorities, opportunities, and challenges for integrating microorganisms into Earth system models for climate change prediction. mBio 2024; 15:e0045524. [PMID: 38526088 PMCID: PMC11078004 DOI: 10.1128/mbio.00455-24] [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] [Indexed: 03/26/2024] Open
Abstract
Climate change jeopardizes human health, global biodiversity, and sustainability of the biosphere. To make reliable predictions about climate change, scientists use Earth system models (ESMs) that integrate physical, chemical, and biological processes occurring on land, the oceans, and the atmosphere. Although critical for catalyzing coupled biogeochemical processes, microorganisms have traditionally been left out of ESMs. Here, we generate a "top 10" list of priorities, opportunities, and challenges for the explicit integration of microorganisms into ESMs. We discuss the need for coarse-graining microbial information into functionally relevant categories, as well as the capacity for microorganisms to rapidly evolve in response to climate-change drivers. Microbiologists are uniquely positioned to collect novel and valuable information necessary for next-generation ESMs, but this requires data harmonization and transdisciplinary collaboration to effectively guide adaptation strategies and mitigation policy.
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Affiliation(s)
- J. T. Lennon
- Department of Biology, Indiana University, Bloomington, Indiana, USA
| | - R. Z. Abramoff
- Lawrence Berkeley National Laboratory, Berkeley, California, USA
- Ronin Institute, Montclair, New Jersey, USA
| | - S. D. Allison
- Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, USA
- Department of Earth System Science, University of California Irvine, Irvine, California, USA
| | | | - K. M. DeAngelis
- Department of Microbiology, University of Massachusetts, Amherst, Massachusetts, USA
| | - J. P. Dunne
- NOAA/OAR Geophysical Fluid Dynamics Laboratory, Princeton, New Jersey, USA
| | - S. D. Frey
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, New Hampshire, USA
| | - P. Friedlingstein
- College of Engineering, Mathematics, and Physical Sciences, University of Exeter, Exeter, United Kingdom
| | - C. V. Hawkes
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| | - B. A. Hungate
- Department of Biological Sciences, Center for Ecosystem Science, Northern Arizona University, Flagstaff, Arizona, USA
| | - S. Khurana
- Department of Physical Geography, Bolin Centre for Climate Research, Stockholm University, Stockholm, Sweden
| | - S. N. Kivlin
- Department of Ecology and Evolutionary Biology, University of Tennessee, Knoxville, Tennessee, USA
| | - N. M. Levine
- Department of Biological Sciences, University of Southern California, Los Angeles, California, USA
| | - S. Manzoni
- Department of Physical Geography, Bolin Centre for Climate Research, Stockholm University, Stockholm, Sweden
| | - A. C. Martiny
- Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, USA
| | - J. B. H. Martiny
- Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, USA
| | - N. K. Nguyen
- American Society for Microbiology, Washington, DC, USA
| | - M. Rawat
- National Science Foundation, Washington, DC, USA
| | - D. Talmy
- Department of Microbiology, University of Tennessee, Knoxville, Tennessee, USA
| | - K. Todd-Brown
- Department of Environmental Engineering Sciences, University of Florida, Gainesville, Florida, USA
| | - M. Vogt
- Institute for Biogeochemistry and Pollutant Dynamics, ETH Zürich, Zürich, Switzerland
| | - W. R. Wieder
- National Center for Atmospheric Research, Boulder, Colorado, USA
- Institute of Arctic and Alpine Research, University of Colorado, Boulder, Colorado, USA
| | - E. J. Zakem
- Department of Global Ecology, Carnegie Institution for Science, Stanford, California, USA
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3
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Zhou X, Liang B, Zhang T, Xiong Q, Ma X, Chen L. Co-inoculation of fungi and desert cyanobacteria facilitates biological soil crust formation and soil fertility. Front Microbiol 2024; 15:1377732. [PMID: 38650889 PMCID: PMC11033444 DOI: 10.3389/fmicb.2024.1377732] [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: 01/28/2024] [Accepted: 03/27/2024] [Indexed: 04/25/2024] Open
Abstract
The inoculation of cyanobacteria for enriching soil nutrients and forming biological soil crusts (BSCs) is considered an effective means to restore degraded soil. However, there are limited studies on the application of co-inoculation of fungi and cyanobacteria for degraded soil remediation. In this study, a high exopolysaccharide-secreting fungi Zh2 was isolated from lichen BSCs in Hobq Desert, and co-inoculated with a cyanobacterial strain identified as Phormidium tenue in different proportions to form BSCs on sand during a 35 days incubation period. Results revealed significant differences in crust biomass and soil properties among crusts with different cyanobacterial/fungal inoculation ratios. Microbial biomass, soil nutrient content and enzyme activities in crusts co-inoculated with cyanobacteria and fungi were higher than those inoculated with cyanobacteria and fungi alone. The inoculation of cyanobacteria contributed to the fulvic-like accumulation, and the inoculated fungi significantly increased the humic-like content and soil humification. Redundancy analysis showed that the inoculation of cyanobacteria was positively correlated with the activities of urease and phosphatase, and the content of fulvic-like. Meanwhile, the inoculation of fungi was positively correlated with the contents of total carbon, total nitrogen and humic-like, the activities of catalase and sucrase. Cyanobacteria and fungi play distinct roles in improving soil fertility and accumulating dissolved organic matter. This study provides new insights into the effects of cyanobacteria and fungi inoculations on the formation and development of cyanobacterial-fungus complex crusts, offering a novel method for accelerating induced crust formation on the surface of sand.
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Affiliation(s)
- Xiangjun Zhou
- Huangshi Key Laboratory of Prevention and Control of Soil Pollution, College of Urban and Environmental Sciences, Hubei Normal University, Huangshi, China
- Hubei Key Laboratory of Biomass-Resources Chemistry and Environmental Biotechnology, School of Resource and Environmental Sciences, Wuhan University, Wuhan, China
| | - Bin Liang
- Huangshi Key Laboratory of Prevention and Control of Soil Pollution, College of Urban and Environmental Sciences, Hubei Normal University, Huangshi, China
| | - Tian Zhang
- Huangshi Key Laboratory of Prevention and Control of Soil Pollution, College of Urban and Environmental Sciences, Hubei Normal University, Huangshi, China
| | - Qiao Xiong
- Huangshi Key Laboratory of Prevention and Control of Soil Pollution, College of Urban and Environmental Sciences, Hubei Normal University, Huangshi, China
| | - Xiao Ma
- Huangshi Key Laboratory of Prevention and Control of Soil Pollution, College of Urban and Environmental Sciences, Hubei Normal University, Huangshi, China
| | - Lanzhou Chen
- Hubei Key Laboratory of Biomass-Resources Chemistry and Environmental Biotechnology, School of Resource and Environmental Sciences, Wuhan University, Wuhan, China
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4
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Yang J, Ding D, Zhang X, Gu H. A comparative analysis of soil physicochemical properties and microbial community structure among four shelterbelt species in the northeast China plain. Microbiol Spectr 2024; 12:e0368323. [PMID: 38376351 PMCID: PMC10986494 DOI: 10.1128/spectrum.03683-23] [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: 10/18/2023] [Accepted: 01/23/2024] [Indexed: 02/21/2024] Open
Abstract
Conducting studies that focus on the alterations occurring in the soil microbiome within protection forests in the northeast plain is of utmost importance in evaluating the ecological rehabilitation of agricultural lands in the Mollisols region. Nevertheless, the presence of geographic factors contributes to substantial disparities in the microbiomes, and thus, addressing this aspect of influence becomes pivotal in ensuring the credibility of the collected data. Consequently, the objective is to compare the variations in soil physicochemical properties and microbial community structure within the understory of diverse shelterbelt species. In this study, we analyzed the understory soils of Juglans mandshurica (Jm), Fraxinus mandschurica (Fm), Acer mono (Am), and Betula platyphylla (Bp) from the same locality. We employed high-throughput sequencing technology and soil physicochemical data to investigate the impact of these different tree species on soil microbial communities, chemical properties, and enzyme activities in Mollisols areas. Significant variations in soil nutrients and enzyme activities were observed among tree species, with soil organic matter content ranging from 49.1 to 67.7 g/kg and cellulase content ranging from 5.3 to 524.0 μg/d/g. The impact of tree species on microbial diversities was found to be more pronounced in the bacterial community (Adnoism: R = 0.605) compared to the fungal community (Adnoism: R = 0.433). The linear discriminant analysis effect size (LEfSe) analysis revealed a total of 5 (Jm), 3 (Bp), and 6 (Am) bacterial biomarkers, as well as 2 (Jm), 6 (Fm), 4 (Bp), and 1 (Am) fungal biomarker at the genus level (LDA3). The presence of various tree species was observed to significantly alter the relative abundance of specific microbial community structures, specifically in Gammaproteobacteria, Ascomycota, and Basidiomycota. Furthermore, environmental factors, such as pH, total potassium, and available phosphorus were important factors influencing changes in bacterial communities. We propose that Fm be utilized as the primary tree species for establishing farmland protection forests in the northeastern region, owing to its superior impact on enhancing soil quality. IMPORTANCE The focal point of this study lies in the implementation of a controlled experiment conducted under field conditions. In this experiment, we deliberately selected four shelterbelts within the same field, characterized by identical planting density, and planting year. This deliberate selection effectively mitigated the potential impact of extraneous factors on the three microbiomes, thereby enhancing the reliability and validity of our findings.
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Affiliation(s)
- Jia Yang
- School of Forestry, Northeast Forestry University, Harbin, China
| | - Dang Ding
- School of Forestry, Northeast Forestry University, Harbin, China
| | - Xiuru Zhang
- School of Forestry, Northeast Forestry University, Harbin, China
| | - Huiyan Gu
- School of Forestry, Northeast Forestry University, Harbin, China
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5
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Qu R, Chen S, Wang K, Liu Q, Yang B, Yue M, Peng C. Potential future changes in soil carbon dynamics in the Ziwuling Forest, China under different climate change scenarios. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:169008. [PMID: 38040362 DOI: 10.1016/j.scitotenv.2023.169008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2023] [Revised: 11/20/2023] [Accepted: 11/28/2023] [Indexed: 12/03/2023]
Abstract
Soil carbon (C) cycling processes in terrestrial ecosystems are significantly influenced by global changes, and soil microorganisms play a crucial role in soil organic carbon (SOC) and its feedbacks to climate change. To investigate the potential future changes in soil C dynamics under different scenarios in the Ziwuling Forest region, China, we conducted a soil observation and sampling experiment from April 2021 to July 2022. By utilizing a microbial ecological model (MEND), we aimed to predict the future dynamics of soil C under different scenarios in the area. Our results demonstrate that under the RCP2.6 (Representative Concentration Pathway) scenario, SOC showed a rapid increase, SOC under the RCP2.6 scenario will be significantly higher than those under the RCP4.5 scenario and RCP8.5 scenario in the topsoil and whole soil. Furthermore, the positive correlation between total litter carbon (LC) and SOC under the RCP2.6 scenario highlights the potential role of total litter carbon in driving SOC dynamics. Our study also revealed that the low greenhouse gas (GHG) emission scenario favors the accumulation of SOC in the study area, while the high GHG emission scenario leads to greater soil carbon loss. Overall, these results underscore the importance of considering the impact of climate change, especially global warming, on soil ecosystems in the future. Protecting the soil ecosystem of the Loess Plateau is critical for maintaining soil carbon sinks, preventing soil erosion, and improving and regulating the surrounding environmental climate.
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Affiliation(s)
- Ruosong Qu
- Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Northwest University, Xi'an 710069, China; Northwest Electric Power Design Institute Co., Ltd. of China Power Engineering Consulting Group, China
| | - Shiyi Chen
- Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Northwest University, Xi'an 710069, China; College of Life Science, Northwest University, Xi'an 710069, China
| | - Kefeng Wang
- Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Northwest University, Xi'an 710069, China; College of Life Science, Northwest University, Xi'an 710069, China.
| | - Qiuyu Liu
- School of Public Policy and Administration, Xi'an Jiaotong University, Xi'an 710049, China
| | - Bin Yang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Ming Yue
- Xi'an Botanical Garden of Shaanxi Province, China; College of Life Science, Northwest University, Xi'an 710069, China
| | - Changhui Peng
- Department of Biology Sciences, Institute of Environment Sciences, University of Quebec at Montreal, C.P. 8888, Succ. Centre-Ville, Montreal H3C 3P8, Canada
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6
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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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7
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Li Y, Shi X, Qin P, Zeng M, Fu M, Chen Y, Qin Z, Wu Y, Liang J, Chen S, Yu F. Effects of polyethylene microplastics and heavy metals on soil-plant microbial dynamics. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 341:123000. [PMID: 38000728 DOI: 10.1016/j.envpol.2023.123000] [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: 10/02/2023] [Revised: 11/16/2023] [Accepted: 11/17/2023] [Indexed: 11/26/2023]
Abstract
Polyethylene (PE) microplastics are emerging pollutants that pose a significant threat to the environment and human health. However, little is known about the effects of PEs on soil‒plant interactions, especially in heavy metal (HM)-contaminated soil. In this study, the effects of PE on rhizosphere soil enzyme activities, microbial interactions and nutrient cycling processes were analyzed from ecological network and functional gene perspectives for the first time. The results indicated that PE-MP addition significantly reduced the biomass of Bidens pilosa L. In addition, the partial increase in carbon, nitrogen, and phosphorus enzyme activities suggested that the effects of PE as a carbon source on microbial functions in HM-contaminated soil should not be ignored. The average path length of bacterial network nodes was found to be higher than that of fungal network nodes, demonstrating that the bacterial ecological network in PE-MP and HM cocontaminated environments has good buffering capacity against changes in external environmental conditions. Furthermore, structural equation modeling demonstrated that particle size and dosage affect soil nutrient cycling processes and that cycling processes are acutely aware of changes in any factor, such as soil moisture, soil pH and soil nitrogen nutrients. Hence, PE-MP addition in HM-contaminated soil has the potential to alter soil ecological functions and nutrient cycles.
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Affiliation(s)
- Yi Li
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China; Guangxi Key Laboratory of Environmental Processes and Remediation in Ecologically Fragile Regions, Guangxi Normal University, Guilin, China
| | - Xinwei Shi
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Peiqing Qin
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Meng Zeng
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Mingyue Fu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Yuyuan Chen
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Zhongkai Qin
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Yamei Wu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Jialiang Liang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Shuairen Chen
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China
| | - Fangming Yu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China; College of Environment and Resources, Guangxi Normal University, Guilin, China; Guangxi Key Laboratory of Environmental Processes and Remediation in Ecologically Fragile Regions, Guangxi Normal University, Guilin, China.
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8
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Cordero I, Leizeaga A, Hicks LC, Rousk J, Bardgett RD. High intensity perturbations induce an abrupt shift in soil microbial state. THE ISME JOURNAL 2023; 17:2190-2199. [PMID: 37814127 PMCID: PMC10690886 DOI: 10.1038/s41396-023-01512-y] [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: 02/27/2023] [Revised: 08/29/2023] [Accepted: 09/04/2023] [Indexed: 10/11/2023]
Abstract
Soil microbial communities play a pivotal role in regulating ecosystem functioning. But they are increasingly being shaped by human-induced environmental change, including intense "pulse" perturbations, such as droughts, which are predicted to increase in frequency and intensity with climate change. While it is known that soil microbial communities are sensitive to such perturbations and that effects can be long-lasting, it remains untested whether there is a threshold in the intensity and frequency of perturbations that can trigger abrupt and persistent transitions in the taxonomic and functional characteristics of soil microbial communities. Here we demonstrate experimentally that intense pulses of drought equivalent to a 30-year drought event (<15% WHC) induce a major shift in the soil microbial community characterised by significantly altered bacterial and fungal community structures of reduced complexity and functionality. Moreover, the characteristics of this transformed microbial community persisted after returning soil to its previous moisture status. As a result, we found that drought had a strong legacy effect on bacterial community function, inducing an enhanced growth rate following subsequent drought. Abrupt transitions are widely documented in aquatic and terrestrial plant communities in response to human-induced perturbations. Our findings demonstrate that such transitions also occur in soil microbial communities in response to high intensity pulse perturbations, with potentially deleterious consequences for soil health.
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Affiliation(s)
- Irene Cordero
- Department of Earth and Environmental Sciences, The University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK.
- Department of Community Ecology, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zuercherstrasse 111, 8903, Birmensdorf, Switzerland.
| | - Ainara Leizeaga
- Department of Earth and Environmental Sciences, The University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK
- Department of Biology, Lund University, Lund, Sweden
| | | | | | - Richard D Bardgett
- Department of Earth and Environmental Sciences, The University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK
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9
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Qi S, Wang G, Li W, Zhou S. Exploring the competitive dynamic enzyme allocation scheme through enzyme cost minimization. ISME COMMUNICATIONS 2023; 3:121. [PMID: 37985704 PMCID: PMC10662282 DOI: 10.1038/s43705-023-00331-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 11/07/2023] [Accepted: 11/09/2023] [Indexed: 11/22/2023]
Abstract
Enzyme allocation (or synthesis) is a crucial microbial trait that mediates soil biogeochemical cycles and their responses to climate change. However, few microbial ecological models address this trait, particularly concerning multiple enzyme functional groups that regulate complex biogeochemical processes. Here, we aim to fill this gap by developing a COmpetitive Dynamic Enzyme ALlocation (CODEAL) scheme for six enzyme groups that act as indicators of inorganic nitrogen (N) transformations in the Microbial-ENzyme Decomposition (MEND) model. This allocation scheme employs time-variant allocation coefficients for each enzyme group, fostering mutual competition among the multiple groups. We show that the principle of enzyme cost minimization is achieved by using the substrate's saturation level as the factor for enzyme allocation, resulting in an enzyme-efficient pathway with minimal enzyme cost per unit metabolic flux. It suggests that the relative substrate availability affects the trade-off between enzyme production and metabolic flux. Our research has the potential to give insights into the nuanced dynamics of the N cycle and inspire the evolving landscape of enzyme-mediated biogeochemical processes in microbial ecological modeling, which is gaining increasing attention.
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Affiliation(s)
- Shanshan Qi
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, 430072, China
- Institute for Water-Carbon Cycles and Carbon Neutrality, School of Water Resources and Hydropower Engineering, Wuhan University, Wuhan, 430072, China
| | - Gangsheng Wang
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, 430072, China.
- Institute for Water-Carbon Cycles and Carbon Neutrality, School of Water Resources and Hydropower Engineering, Wuhan University, Wuhan, 430072, China.
| | - Wanyu Li
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, 430072, China
- Institute for Water-Carbon Cycles and Carbon Neutrality, School of Water Resources and Hydropower Engineering, Wuhan University, Wuhan, 430072, China
| | - Shuhao Zhou
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, 430072, China
- Institute for Water-Carbon Cycles and Carbon Neutrality, School of Water Resources and Hydropower Engineering, Wuhan University, Wuhan, 430072, China
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10
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Pan B, Wang W, Liu B, Cai K, Tian J, Cai Y. Significant difference in the efficacies of silicon application regimes on cadmium species and environmental risks in rice rhizosphere. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 327:121521. [PMID: 36997144 DOI: 10.1016/j.envpol.2023.121521] [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: 12/15/2022] [Revised: 03/19/2023] [Accepted: 03/26/2023] [Indexed: 06/19/2023]
Abstract
Silicon (Si) is commonly applied as base-fertilizer or foliar-topdressing to palliate the uptake-translocation-accumulation of cadmium (Cd) in rice through Si-Cd antagonism. However, little is known about the fate of Cd in rice rhizosphere soil and its eco-environmental effects under different Si treatments. Here, systematic works had been carried out to elucidate the Cd species, soil properties, and environmental risks in rice rhizosphere driven by different Si soil-fertilization regimes including CK (without Si-addition), TSi (added before transplanting stage), JSi (added at jointing stage), and TJSi (split into two equal parts, added half before transplanting and another half at jointing stage). Results showed that TJSi outperformed the rest of fertilization regimes. The solid-phase-Cd concentrations treated with TSi, TJSi and JSi were increased by 4.18%, 5.73% and 3.41%, respectively, when compared to CK. The labile Cd (F1+F2) proportion of TJSi was reduced by 16.30%, 9.30% and 6.78%, respectively, when compared to CK, TSi, and JSi. Simultaneously, the liquid-phase-Cd concentration was appreciably suppressed by TJSi throughout the rice lifecycle, while TSi mainly abated Cd dissociation during the vegetative period, and JSi attenuated it during the grain-filling stage. The mobility factor of Cd treated with TJSi was the lowest, which was significantly lower than that of TSi (9.30%) and JSi (6.78%), respectively. Similarly, the oral exposure risk of TJSi was reduced by 4.43% and 32.53%; and the food-chain exposure risk of TJSi was decreased by 13.03% and 42.78%. Additionally, TJSi was the most effective in promoting enzyme activities and nutrient content in rhizosphere soil. Overall, TJSi is more positive and sustainable than TSi and JSi in reconstructing Cd-contaminated rhizosphere environments and abating the environmental risks of Cd. Agronomic practices in Cd-contaminated paddy soils can be informed by applying Si-fertilizer separately before transplanting and at jointing stage to achieve soil welfare and food security.
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Affiliation(s)
- Bogui Pan
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture, Guangzhou, 510642, China; Key Laboratory of Tropical Agricultural Environment in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510642, China.
| | - Wei Wang
- College of Agriculture, South China Agricultural University, Guangzhou, 510642, China
| | - Bingquan Liu
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture, Guangzhou, 510642, China; Key Laboratory of Tropical Agricultural Environment in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510642, China
| | - Kunzheng Cai
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture, Guangzhou, 510642, China; Key Laboratory of Tropical Agricultural Environment in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510642, China
| | - Jihui Tian
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture, Guangzhou, 510642, China; Key Laboratory of Tropical Agricultural Environment in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510642, China
| | - Yixia Cai
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture, Guangzhou, 510642, China; Key Laboratory of Tropical Agricultural Environment in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510642, China.
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11
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Chen J, Zhang Y, Kuzyakov Y, Wang D, Olesen JE. Challenges in upscaling laboratory studies to ecosystems in soil microbiology research. GLOBAL CHANGE BIOLOGY 2023; 29:569-574. [PMID: 36443278 PMCID: PMC10100248 DOI: 10.1111/gcb.16537] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Revised: 11/10/2022] [Accepted: 11/18/2022] [Indexed: 06/01/2023]
Abstract
Soil microbiology has entered into the big data era, but the challenges in bridging laboratory-, field-, and model-based studies of ecosystem functions still remain. Indeed, the limitation of factors in laboratory experiments disregards interactions of a broad range of in situ environmental drivers leading to frequent contradictions between laboratory- and field-based studies, which may consequently mislead model development and projections. Upscaling soil microbiology research from laboratory to ecosystems represents one of the grand challenges facing environmental scientists, but with great potential to inform policymakers toward climate-smart and resource-efficient ecosystems. The upscaling is not only a scale problem, but also requires disentangling functional relationships and processes on each level. We point to three potential reasons for the gaps between laboratory- and field-based studies (i.e., spatiotemporal dynamics, sampling disturbances, and plant-soil-microbial feedbacks), and three key issues of caution when bridging observations and model predictions (i.e., across-scale effect, complex-process coupling, and multi-factor regulation). Field-based studies only cover a limited range of environmental variation that must be supplemented by laboratory and mesocosm manipulative studies when revealing the underlying mechanisms. The knowledge gaps in upscaling soil microbiology from laboratory to ecosystems should motivate interdisciplinary collaboration across experimental, observational, theoretic, and modeling research.
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Affiliation(s)
- Ji Chen
- State Key Laboratory of Loess and Quaternary GeologyInstitute of Earth Environment, Chinese Academy of SciencesXi'anChina
- Department of AgroecologyAarhus UniversityTjeleDenmark
- iCLIMATE Interdisciplinary Centre for Climate ChangeAarhus UniversityRoskildeDenmark
| | - Yong Zhang
- Key Laboratory of Soil Ecology and Health in Universities of Yunnan Province, School of Ecology and Environmental Sciences, Yunnan UniversityKunmingChina
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate EcosystemsUniversity of GöttingenGöttingenGermany
| | - Dong Wang
- International Joint Research Laboratory of Global Change EcologySchool of Life Sciences, Henan UniversityKaifengChina
| | - Jørgen Eivind Olesen
- Department of AgroecologyAarhus UniversityTjeleDenmark
- iCLIMATE Interdisciplinary Centre for Climate ChangeAarhus UniversityRoskildeDenmark
- Aarhus University Centre for Circular Bioeconomy, Aarhus UniversityTjeleDenmark
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12
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Tan X, He J, Nie Y, Ni X, Ye Q, Ma L, Megharaj M, He W, Shen W. Climate and edaphic factors drive soil enzyme activity dynamics and tolerance to Cd toxicity after rewetting of dry soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 855:158926. [PMID: 36152848 DOI: 10.1016/j.scitotenv.2022.158926] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 09/16/2022] [Accepted: 09/18/2022] [Indexed: 06/16/2023]
Abstract
The intense drying-rewetting cycle due to climate change can affect soil microbial community composition and function, resulting in long-term consequences for belowground carbon and nutrient dynamics. However, how climatic and edaphic factors influence the responses of enzymes to rewetting and their responses to additional perturbation (e.g., heavy metal pollution) after the drying-rewetting history are not well understood. In this study, we collected 18 surface soils from farmlands across various climate zones in China. We chose dehydrogenase (DHA) and alkaline phosphomonoesterase (ALP) as representative intracellular and extracellular enzymes, respectively, and investigated their tolerance to additional perturbation by adding metal ions (i.e., Cd2+) upon rewetting. In all soils, rewetting increased DHA activities but did not affect ALP activities compared to air-dried soils. Rewetting increased the tolerances of DHA and ALP to Cd stress, suggesting that the drying-rewetting history may reduce the susceptibility of soil enzymes to additional disturbance. The results demonstrate that differentiating enzymes based on their location in the soil will improve our ability to assess the stress response of microbial communities to drastic fluctuations in soil moisture, thereby better predicting the legacy of climate change on microbial function in soils contaminated with heavy metals.
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Affiliation(s)
- Xiangping Tan
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Jinhong He
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Yanxia Nie
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Xiuling Ni
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Qing Ye
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China; College of Life Sciences, Gannan Normal University, Ganzhou, China
| | - Lei Ma
- Key Laboratory of Geospatial Technology for Middle and Lower Yellow River Regions (Henan University), Ministry of Education, Kaifeng, China
| | - Mallavarapu Megharaj
- Global Centre for Environmental Remediation, Faculty of Science, University of Newcastle, Callaghan, Australia
| | - Wenxiang He
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi, China.
| | - Weijun Shen
- College of Forestry, Guangxi University, Nanning, China
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13
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Zhao F, He L, Bond-Lamberty B, Janssens IA, Wang J, Pang G, Wu Y, Xu X. Latitudinal shifts of soil microbial biomass seasonality. PNAS NEXUS 2022; 1:pgac254. [PMID: 36712352 PMCID: PMC9802431 DOI: 10.1093/pnasnexus/pgac254] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Revised: 08/26/2022] [Accepted: 11/01/2022] [Indexed: 11/06/2022]
Abstract
Soil microbes ultimately drive the mineralization of soil organic carbon and thus ecosystem functions. We compiled a dataset of the seasonality of microbial biomass carbon (MBC) and developed a semi-mechanistic model to map monthly MBC across the globe. MBC exhibits an equatorially symmetric seasonality between the Northern and Southern Hemispheres. In the Northern Hemisphere, MBC peaks in autumn and is minimal in spring at low latitudes (<25°N), peaks in the spring and is minimal in autumn at mid-latitudes (25°N to 50°N), while peaks in autumn and is minimal in spring at high latitudes (>50°N). This latitudinal shift of MBC seasonality is attributed to an interaction of soil temperature, soil moisture, and substrate availability. The MBC seasonality is inconsistent with patterns of heterotrophic respiration, indicating that MBC as a proxy for microbial activity is inappropriate at this resolution. This study highlights the need to explicitly represent microbial physiology in microbial models. The interactive controls of environments and substrate on microbial seasonality provide insights for better representing microbial mechanisms in simulating ecosystem functions at the seasonal scale.
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Affiliation(s)
| | - Liyuan He
- To whom correspondence should be addressed:
| | - Ben Bond-Lamberty
- Pacific Northwest National Laboratory, Joint Global Change Research Institute at the University of Maryland–College Park, College Park, MD 20740, USA
| | - Ivan A Janssens
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium
| | - Jieying Wang
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, Northwest University, Xi'an 710127, China
| | - Guowei Pang
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, Northwest University, Xi'an 710127, China
| | - Yuwei Wu
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, Northwest University, Xi'an 710127, China
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