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Labouyrie M, Ballabio C, Romero F, Panagos P, Jones A, Tedersoo L, van der Heijden MGA, Orgiazzi A. Interaction effects of pH and land cover on soil microbial diversity are climate-dependent. Environ Microbiol 2024; 26:e16572. [PMID: 38195068 DOI: 10.1111/1462-2920.16572] [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: 09/15/2023] [Accepted: 12/13/2023] [Indexed: 01/11/2024]
Abstract
Factors regulating the diversity and composition of soil microbial communities include soil properties, land cover and climate. How these factors interact at large scale remains poorly investigated. Here, we used an extensive dataset including 715 locations from 24 European countries to investigate the interactive effects of climatic region, land cover and pH on soil bacteria and fungi. We found that differences in microbial diversity and community composition between land cover types depended on the climatic region. In Atlantic, Boreal and Continental regions, microbial richness was higher in croplands and grasslands than woodlands while richness in Mediterranean areas did not vary significantly among land cover types. These differences were further related to soil pH, as a driver of bacterial and fungal richness in most climatic regions, but the interaction of pH with land cover depended on the region. Microbial community composition differed the most between croplands and woodlands in all regions, mainly due to differences in pH. In the Mediterranean region, bacterial communities in woodlands and grasslands were the most similar, whereas in other regions, grassland and cropland-associated bacteria showed more similarity. Overall, we showed that key factors interact in shaping soil microbial communities in a climate-dependent way at large scale.
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Affiliation(s)
- Maëva Labouyrie
- Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland
- European Commission, Joint Research Centre (JRC), Ispra, Italy
- Plant-Soil-Interactions, Research Division Agroecology and Environment, Agroscope, Zurich, Switzerland
| | | | - Ferran Romero
- Plant-Soil-Interactions, Research Division Agroecology and Environment, Agroscope, Zurich, Switzerland
| | - Panos Panagos
- European Commission, Joint Research Centre (JRC), Ispra, Italy
| | - Arwyn Jones
- European Commission, Joint Research Centre (JRC), Ispra, Italy
| | - Leho Tedersoo
- Mycology and Microbiology Center, University of Tartu, Tartu, Estonia
| | - Marcel G A van der Heijden
- Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland
- Plant-Soil-Interactions, Research Division Agroecology and Environment, Agroscope, Zurich, Switzerland
| | - Alberto Orgiazzi
- European Commission, Joint Research Centre (JRC), Ispra, Italy
- European Dynamics, Brussels, Belgium
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2
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Li A, Li A, Luo C, Liu B. Assessing heavy metal contamination in Amomum villosum Lour. fruits from plantations in Southern China: Soil-fungi-plant interactions. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 269:115789. [PMID: 38091669 DOI: 10.1016/j.ecoenv.2023.115789] [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: 03/24/2023] [Revised: 11/14/2023] [Accepted: 12/03/2023] [Indexed: 01/12/2024]
Abstract
Amomum villosum Lour. fruit is a common healthy food widely cultivated in southern China. Heavy metal contamination of farmland soils has becomes a serious environmental concern in China. Heavy metals in soil can be introduced into the food chain and pose health risks to humans. However, microbial communities may play beneficial roles in plants grown in metal-polluted soils. This study aimed to assess the potential health risks of heavy metals in soils and A. villosum fruits from different production areas and to explore the soil-microbe-plant regulation pattern for heavy metals in A. villosum fruits. Soil and A. villosum fruit samples were collected from nine planting fields in four provinces of southern China. The results showed that soils from seven areas were polluted with heavy metals to different degrees. Cr and Mn were the most serious contaminating elements. However, the accumulation of heavy metals in A. villosum fruit was negligible with no expected human health risks. Partial least squares path analysis of structural equation modeling showed that the accumulation of heavy metals in A. villosum fruits was influenced by multiple factors. More importantly, the PLS-SEM revealed that the heavy metal content in A. villosum fruits was indirectly affected by soil heavy metals through the regulation of the microbial community. Furthermore, some fungal phyla (e.g., Ascomycota and Chytridiomycota) and genera (e.g., Mucor) were related to the heavy metal content in the soil and in A. villosum fruits. The results of this study verified that soil fungal community play an important role in the accumulation of heavy metals in A. villosum fruits. Using fungi provides a potential biological strategy for reducing the health risk posed by heavy metals in food.
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Affiliation(s)
- Arong Li
- Guangdong Provincial Hospital of Chinese Medicine, Guangzhou 510006, China; State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Shanghai 201203, China
| | - Aqian Li
- School of Psychology, South China Normal University, 510631 Guangzhou, China
| | - Cheng Luo
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Shanghai 201203, China
| | - Bo Liu
- Guangdong Provincial Hospital of Chinese Medicine, Guangzhou 510006, China; Guangzhou Key Laboratory of Chirality Research on Active Components of Traditional Chinese Medicine, Guangzhou 510006, China; State Key Laboratory of Dampness Syndrome of Chinese Medicine, Guangzhou 510006, China.
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Tian L, An M, Wu M, Liu F, Zhang Y. Habitat ecological characteristics and soil fungal community structure of Paphiopedilum subgenus Brachypetalum Hallier (Orchidaceae) plants in Southwest China. PLANT SIGNALING & BEHAVIOR 2023; 18:2227365. [PMID: 37377110 DOI: 10.1080/15592324.2023.2227365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2023] [Revised: 04/28/2023] [Accepted: 05/02/2023] [Indexed: 06/29/2023]
Abstract
Species of the subgenus Brachypetalum are the most primitive, most ornamental and most threatened group in the Orchid. This study revealed the ecological characteristics, soil nutrient characteristics and soil fungal community structure of habitats of the subgenus Brachypetalum in Southwest China. Lays a foundation for research on the wild populations and conservation Brachypetalum. The results showed that species of the subgenus Brachypetalum preferred a cool and humid environment, grew in scattered or aggregated form in narrow negative terrain, mainly in humic soil. The soil physical and chemical properties and soil enzyme activity indexes of the habitats were significantly different among different species, and the soil properties of different distribution points of the same species also varied greatly. There were significant differences in the soil fungal community structure among the habitats of different species. Basidiomycetes and ascomycetes were the main fungi in habitats of subgenus Brachypetalum species, and their relative abundance varied among different species. The functional groups of soil fungi were mainly symbiotic fungi and saprophytic fungi. LEfSe analysis found that there were different numbers and species of biomarkers in the habitats of subgenus Brachypetalum species, indicating that the habitat preference characteristics of each species in subgenus Brachypetalum were reflected in the fungal community. It was found that environmental factors had an impact on the changes in soil fungal communities in the habitats of subgenus Brachypetalum species, with climatic factors having the highest explanation rate (20.96%). Soil properties were significantly positively or negatively correlated with a variety of dominant soil fungal groups. Conclusions: The results of this study lay the foundation for the study of the habitat characteristics of wild populations of subgenus Brachypetalum and provides data to support in situ and ex situ conservation in the future.
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Affiliation(s)
- Li Tian
- Forestry College of Guizhou University, Guizhou University, Guiyang, China
- Research Center of Biodiversity and Nature Conservation, Guizhou University, Guiyang, China
| | - Mingtai An
- Forestry College of Guizhou University, Guizhou University, Guiyang, China
- Research Center of Biodiversity and Nature Conservation, Guizhou University, Guiyang, China
| | - Moxu Wu
- Forestry College of Guizhou University, Guizhou University, Guiyang, China
- Research Center of Biodiversity and Nature Conservation, Guizhou University, Guiyang, China
| | - Feng Liu
- Forestry College of Guizhou University, Guizhou University, Guiyang, China
- Research Center of Biodiversity and Nature Conservation, Guizhou University, Guiyang, China
| | - Yang Zhang
- Forestry College of Guizhou University, Guizhou University, Guiyang, China
- Research Center of Biodiversity and Nature Conservation, Guizhou University, Guiyang, China
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4
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Zhu Z, Liu X, Hsiang T, Ji R, Liu S. Forest Type and Climate Outweigh Soil Bank in Shaping Dynamic Changes in Macrofungal Diversity in the Ancient Tree Park of Northeast China. J Fungi (Basel) 2023; 9:856. [PMID: 37623627 PMCID: PMC10455530 DOI: 10.3390/jof9080856] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 08/01/2023] [Accepted: 08/10/2023] [Indexed: 08/26/2023] Open
Abstract
The community structure of macrofungi is influenced by multiple complex factors, including climate, soil, vegetation, and human activities, making it challenging to discern their individual contributions. To investigate the dynamic changes in macrofungal diversity in an Ancient Tree Park located in Northeast China and explore the factors influencing this change, we collected 1007 macrofungi specimens from different habitats within the park and identified 210 distinct fungal species using morphological characteristics and ITS sequencing. The species were classified into 2 phyla, 6 classes, 18 orders, 55 families, and 94 genera. We found macrofungal compositions among different forest types, with the mixed forest displaying the highest richness and diversity. Climatic factors, particularly rainfall and temperature, positively influenced macrofungal species richness and abundance. Additionally, by analyzing the soil fungal community structure and comparing aboveground macrofungi with soil fungi in this small-scale survey, we found that the soil fungal bank is not the main factor leading to changes in the macrofungal community structure, as compared to the influence of climate factors and forest types. Our findings provide valuable insights into the dynamic nature of macrofungal diversity in the Ancient Tree Park, highlighting the influence of climate and forest type.
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Affiliation(s)
- Zhaoxiang Zhu
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China; (Z.Z.); (X.L.)
| | - Xin Liu
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China; (Z.Z.); (X.L.)
| | - Tom Hsiang
- Department of Environmental Sciences, University of Guelph, Guelph, ON N1G 2W1, Canada;
| | - Ruiqing Ji
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China; (Z.Z.); (X.L.)
| | - Shuyan Liu
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China; (Z.Z.); (X.L.)
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5
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Melnick RL, Jarvis L, Hendley P, Garcia-Alonso M, Metzger MJ, Ramankutty N, Teem JL, Roberts A. GEnZ explorer: a tool for visualizing agroclimate to inform research and regulatory risk assessment. Transgenic Res 2023; 32:321-337. [PMID: 37278871 PMCID: PMC10409678 DOI: 10.1007/s11248-023-00354-w] [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: 01/27/2023] [Accepted: 05/16/2023] [Indexed: 06/07/2023]
Abstract
Confined field trials (CFT) of genetically engineered (GE) crops are used to generate data to inform environmental risk assessments (ERA). ERAs are required by regulatory authorities before novel GE crops can be released for cultivation. The transportability of CFT data to inform risk assessment in countries other than those where the CFT was conducted has been discussed previously in an analysis showing that the primary difference between CFT locations potentially impacting trial outcomes is the physical environment, particularly the agroclimate. This means that data from trials carried out in similar agroclimates could be considered relevant and sufficient to satisfy regulatory requirements for CFT data, irrespective of the country where the CFTs are conducted. This paper describes the development of an open-source tool to assist in determining the transportability of CFT data. This tool provides agroclimate together with overall crop production information to assist regulators and applicants in making informed choices on whether data from previous CFTs can inform an environmental risk assessment in a new country, as well as help developers determine optimal locations for planning future CFTs. The GEnZ Explorer is a freely available, thoroughly documented, and open-source tool that allows users to identify the agroclimate zones that are relevant for the production of 21 major crops and crop categories or to determine the agroclimatic zone at a specific location. This tool will help provide additional scientific justification for CFT data transportability, along with spatial visualization, to help ensure regulatory transparency.
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Affiliation(s)
| | - Larissa Jarvis
- McGill University, 845 Sherbrooke Street West, Montréal, QC, Canada
| | - Paul Hendley
- Phasera Ltd., 7 Kenilworth Avenue, Bracknell, Berkshire, UK
| | | | - Marc J Metzger
- School of Geosciences, Geography and the Lived Environment, The University of Edinburgh, Edinburgh, Scotland
| | - Navin Ramankutty
- School of Public Policy and Global Affairs, The University of British Columbia, Vancouver, BC, Canada
| | - John L Teem
- Genetic Biocontrols LLC, Tallahassee, FL, USA
| | - Andrew Roberts
- Agriculture and Food Systems Institute, Washington, DC, USA.
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6
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Mukhtar H, Wunderlich RF, Muzaffar A, Ansari A, Shipin OV, Cao TND, Lin YP. Soil microbiome feedback to climate change and options for mitigation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 882:163412. [PMID: 37059149 DOI: 10.1016/j.scitotenv.2023.163412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 03/14/2023] [Accepted: 04/06/2023] [Indexed: 05/12/2023]
Abstract
Microbes are a critical component of soil ecosystems, performing crucial functions in biogeochemical cycling, carbon sequestration, and plant health. However, it remains uncertain how their community structure, functioning, and resultant nutrient cycling, including net GHG fluxes, would respond to climate change at different scales. Here, we review global and regional climate change effects on soil microbial community structure and functioning, as well as the climate-microbe feedback and plant-microbe interactions. We also synthesize recent studies on climate change impacts on terrestrial nutrient cycles and GHG fluxes across different climate-sensitive ecosystems. It is generally assumed that climate change factors (e.g., elevated CO2 and temperature) will have varying impacts on the microbial community structure (e.g., fungi-to-bacteria ratio) and their contribution toward nutrient turnover, with potential interactions that may either enhance or mitigate each other's effects. Such climate change responses, however, are difficult to generalize, even within an ecosystem, since they are subjected to not only a strong regional influence of current ambient environmental and edaphic conditions, historical exposure to fluctuations, and time horizon but also to methodological choices (e.g., network construction). Finally, the potential of chemical intrusions and emerging tools, such as genetically engineered plants and microbes, as mitigation strategies against global change impacts, particularly for agroecosystems, is presented. In a rapidly evolving field, this review identifies the knowledge gaps complicating assessments and predictions of microbial climate responses and hindering the development of effective mitigation strategies.
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Affiliation(s)
- Hussnain Mukhtar
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan
| | | | | | - Andrianto Ansari
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan
| | - Oleg V Shipin
- School of Environmental Engineering and Management, Asian Institute of Technology, Thailand
| | - Thanh Ngoc-Dan Cao
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan
| | - Yu-Pin Lin
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan.
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7
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Tan Y, Wang J, He Y, Yu X, Chen S, Penttinen P, Liu S, Yang Y, Zhao K, Zou L. Organic Fertilizers Shape Soil Microbial Communities and Increase Soil Amino Acid Metabolites Content in a Blueberry Orchard. MICROBIAL ECOLOGY 2023; 85:232-246. [PMID: 35064809 DOI: 10.1007/s00248-022-01960-7] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Accepted: 01/06/2022] [Indexed: 06/14/2023]
Abstract
The decline in soil nutrients is becoming a major concern of soil degradation. The possibility of using organic waste as a soil additive to increase nutrients and essential components is significant in soil quality protection and waste management. The aim of this study was to investigate the effects of composted spent mushroom substrate (MS), giant panda feces (PF), and cattle manure (CM) as organic fertilizers in soil microbial communities and metabolites in blueberry orchard in China, which were measured by using high-throughput sequencing and gas chromatography-mass spectrometry (GC-MS)-based metabolomics. Altogether, 45.66% of the bacterial operational taxonomic units (OTUs) and 9.08% of the fungal OTUs were detected in all treatments. Principal coordinates analysis demonstrated that the bacterial and fungal communities in MS and PF treatments were similar, whereas the communities in the not-organic fertilized control (CK) were significantly different from those in the organic fertilizer treatments. Proteobacteria, Acidobacteria, and Bacteroidetes were the dominant bacterial phyla, and Basidiomycota, Ascomycota, and Mortierellomycota the dominant fungal phyla. Redundancy analysis indicated that pH and available potassium were the main factors determining the composition of microbial communities. The fungal genera Postia, Cephalotrichum, and Thermomyces increased in organic fertilizer treatments, and likely promoted the degradation of organic fertilizers into low molecular-weight metabolites (e.g., amino acids). PCA and PLS-DA models showed that the metabolites in CK were different from those in the other three treatments, and those in CM were clearly different from those in MS and PF. Co-occurrence network analysis showed that several taxa correlated positively with amino acid contents. The results of this study provide new insights into organic waste reutilization and new directions for further studies.
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Affiliation(s)
- Yulan Tan
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Jing Wang
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Yongguo He
- Key Laboratory of State Forestry and Grassland Administration (SFGA) on Conservation Biology of Rare Animals in the Giant Panda National Park, the China Conservation and Research Center for the Giant Panda (CCRCGP), Dujiangyan, 611830, China
| | - Xiumei Yu
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Shujuan Chen
- College of Food Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, China
| | - Petri Penttinen
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Shuliang Liu
- College of Food Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, China
| | - Yong Yang
- College of Food Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, China
| | - Ke Zhao
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
- Sichuan Agricultural University, No. 211, Huimin Road, Wenjiang District, Chengdu Sichuan, 611130, China.
| | - Likou Zou
- College of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
- Sichuan Agricultural University, No. 211, Huimin Road, Wenjiang District, Chengdu Sichuan, 611130, China.
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8
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Wu S, Wu J, Wang Y, Qu Y, He Y, Wang J, Cheng J, Zhang L, Cheng C. Discovery of entomopathogenic fungi across geographical regions in southern China on pine sawyer beetle Monochamus alternatus and implication for multi-pathogen vectoring potential of this beetle. FRONTIERS IN PLANT SCIENCE 2022; 13:1061520. [PMID: 36643293 PMCID: PMC9832029 DOI: 10.3389/fpls.2022.1061520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Accepted: 11/28/2022] [Indexed: 06/17/2023]
Abstract
Entomopathogen-based biocontrol is crucial for blocking the transmission of vector-borne diseases; however, few cross-latitudinal investigations of entomopathogens have been reported for vectors transmitting woody plant diseases in forest ecosystems. The pine sawyer beetle Monochamus alternatus is an important wood borer and a major vector transmitting pine wilt disease, facilitating invasion of the pinewood nematode Bursaphelenchus xylophilus (PWN) in China. Due to the limited geographical breadth of sampling regions, species diversity of fungal associates (especially entomopathogenic fungi) on M. alternatus adults and their potential ecological functions have been markedly underestimated. In this study, through traditional fungal isolation with morphological and molecular identification, 640 fungal strains (affiliated with 15 genera and 39 species) were isolated from 81 beetle cadavers covered by mycelia or those symptomatically alive across five regional populations of this pest in southern China. Multivariate analyses revealed significant differences in the fungal community composition among geographical populations of M. alternatus, presenting regionalized characteristics, whereas no significant differences were found in fungal composition between beetle genders or among body positions. Four region-representative fungi, namely, Lecanicillium attenuatum (Zhejiang), Aspergillus austwickii (Sichuan), Scopulariopsis alboflavescens (Fujian), and A. ruber (Guangxi), as well as the three fungal species Beauveria bassiana, Penicillium citrinum, and Trichoderma dorotheae, showed significantly stronger entomopathogenic activities than other fungi. Additionally, insect-parasitic entomopathogenic fungi (A. austwickii, B. bassiana, L. attenuatum, and S. alboflavescens) exhibited less to no obvious phytopathogenic activities on the host pine Pinus massoniana, whereas P. citrinum, Purpureocillium lilacinum, and certain species of Fusarium spp.-isolated from M. alternatus body surfaces-exhibited remarkably higher phytopathogenicity. Our results provide a broader view of the entomopathogenic fungal community on the vector beetle M. alternatus, some of which are reported for the first time on Monochamus spp. in China. Moreover, this beetle might be more highly-risk in pine forests than previously considered, as a potential multi-pathogen vector of both PWN and phytopathogenic fungi.
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Affiliation(s)
- Shengxin Wu
- School of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Jia Wu
- Station of Forest Pest Control, Anji Forestry Bureau, Huzhou, Zhejiang, China
| | - Yun Wang
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Yifei Qu
- School of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Yao He
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Jingyan Wang
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Jianhui Cheng
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Liqin Zhang
- School of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
| | - Chihang Cheng
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, Huzhou University, Huzhou, Zhejiang, China
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9
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Zhang X, Song X, Wang T, Huang L, Ma H, Wang M, Tan D. The responses to long-term nitrogen addition of soil bacterial, fungal, and archaeal communities in a desert ecosystem. Front Microbiol 2022; 13:1015588. [PMID: 36312972 PMCID: PMC9606763 DOI: 10.3389/fmicb.2022.1015588] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Accepted: 09/26/2022] [Indexed: 10/29/2023] Open
Abstract
Nitrogen (N) deposition is a worldwide issue caused by human activity. Long-term deposition of N strongly influences plant productivity and community composition. However, it is still unclear how the microbial community responds to long-term N addition in a desert ecosystem. Therefore, a long-term experiment was conducted in the Gurbantonggut Desert in northwestern China in 2015. Four N addition rates, 0 (CK), 5 (N1), 20 (N2), and 80 (N3) kg N ha-1 yr.-1, were tested and the soil was sampled after 6 years of N addition. High-throughput sequencing (HTS) was used to analyze the soil microbial composition. The HTS results showed that N addition had no significant effect on the bacterial α-diversity and β-diversity (p > 0.05) but significantly reduced the archaeal β-diversity (p < 0.05). The fungal Chao1 and ACE indexes in the N2 treatment increased by 24.10 and 26.07%, respectively. In addition, N addition affected the bacterial and fungal community structures. For example, compared to CK, the relative abundance of Actinobacteria increased by 17.80%, and the relative abundance of Bacteroidetes was reduced by 44.46% under N3 treatment. Additionally, N addition also changed the bacterial and fungal community functions. The N3 treatment showed increased relative abundance of nitrate-reducing bacteria (27.06% higher than CK). The relative abundance of symbiotrophic fungi was increased in the N1 treatment (253.11% higher than CK). SOC and NH4 +-N could explain 62% of the changes in the fungal community function. N addition can directly affect the bacterial community function or indirectly through NO3 --N. These results suggest that different microbial groups may have various responses to N addition. Compared with bacteria and fungi, the effect of N addition was less on the archaeal community. Meanwhile, N-mediated changes of the soil properties play an essential role in changes in the microbial community. The results in the present study provided a reliable basis for an understanding of how the microbial community in a desert ecosystem adapts to long-term N deposition.
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Affiliation(s)
- Xuan Zhang
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
| | - Xin Song
- State Key Laboratory of Grassland Agro-Ecosystems, Institute of Arid Agroecology, College of Ecology, Lanzhou University, Lanzhou, China
| | - Taotao Wang
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
| | - Lei Huang
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
| | - Haiyang Ma
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
| | - Mao Wang
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
| | - Dunyan Tan
- College of Life Sciences, Xinjiang Agricultural University, Ürümqi, China
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10
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Hu JJ, Zhao GP, Tuo YL, Qi ZX, Yue L, Zhang B, Li Y. Ecological Factors Influencing the Occurrence of Macrofungi from Eastern Mountainous Areas to the Central Plains of Jilin Province, China. J Fungi (Basel) 2022; 8:jof8080871. [PMID: 36012860 PMCID: PMC9410083 DOI: 10.3390/jof8080871] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Accepted: 08/16/2022] [Indexed: 12/26/2022] Open
Abstract
Macrofungi are essential in forest ecological functioning. Their distribution and diversity are primarily impacted by vegetation, topography, and environmental factors, such as precipitation and temperature. However, the composition and topographical changes of the macrofungi between the eastern mountainous area and central plains of Jilin Province are currently unknown. For this study, we selected six investigational sites representing three different topographical research sites in Jilin Province to assess macrofungal diversity, and applied a quadrat sampling method. Macro- and micro-morphological characteristics combined with the molecular method were used to identify the collected macrofungi. Meanwhile, selected meteorological data were obtained for statistical analysis. As a result, 691 species were identified, of which Agarics were the most common, accounting for 60.23%, while the Cantharelloid fungi were the least common (0.91%). Furthermore, most of the shared genera (species) were saprophytic. The α diversity showed that the species diversity and richness in Longwan National Forest Park (B2) were the highest at the genus level. The mycorrhizal macrofungi proportion revealed that Quanshuidong Forest Farm (A1) was the healthiest. Finally, species composition similarity decreased with the transition from mountainous to hilly plains. We concluded that the occurrence of macrofungi was most influenced by vegetation. The air humidity, precipitation, and wind velocity were also found to significantly impact the occurrence of macrofungi. Finally, the mycorrhizal:saprophytic ratios and species similarity decreased with the transition from the mountainous area to the plains. The results presented here help elucidate the macrofungi composition and their relationship with environmental factors and topography in Jilin Province, which is crucial for sustainable utilization and future conservation.
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Affiliation(s)
- Jia-Jun Hu
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- School of Life Science, Northeast Normal University, Changchun 130024, China
- Joint Laboratory of International Cooperation in Modern Agricultural Technology, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- China Mycological Valley (Hefei), Hefei 231100, China
| | - Gui-Ping Zhao
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Yong-Lan Tuo
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- Joint Laboratory of International Cooperation in Modern Agricultural Technology, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- China Mycological Valley (Hefei), Hefei 231100, China
| | - Zheng-Xiang Qi
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Lei Yue
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Bo Zhang
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- Joint Laboratory of International Cooperation in Modern Agricultural Technology, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- China Mycological Valley (Hefei), Hefei 231100, China
- Correspondence: or (B.Z.); or (Y.L.)
| | - Yu Li
- Engineering Research Centre of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- School of Life Science, Northeast Normal University, Changchun 130024, China
- Joint Laboratory of International Cooperation in Modern Agricultural Technology, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
- China Mycological Valley (Hefei), Hefei 231100, China
- Correspondence: or (B.Z.); or (Y.L.)
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Szabó P, Jordan G, Kocsis T, Posta K, Kardos L, Šajn R, Alijagić J. Biomonitoring and assessment of toxic element contamination in floodplain sediments and soils using fluorescein diacetate (FDA) enzymatic activity measurements: evaluation of possibilities and limitations through the case study of the Drava River floodplain. ENVIRONMENTAL MONITORING AND ASSESSMENT 2022; 194:632. [PMID: 35922719 PMCID: PMC9349168 DOI: 10.1007/s10661-022-10301-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Accepted: 07/12/2022] [Indexed: 06/15/2023]
Abstract
The EU Water Framework Directive requires the monitoring and evaluation of surface water sediment quality based on the assessment of risk posed by contamination on the biotic receptors. Floodplain sediments are important receptors of potentially toxic element (PTE) contamination from the upstream catchment areas, and floodplains host climate-sensitive riverine ecosystems and fertile agricultural areas at the same time. This study investigates the effect of PTE contamination on microbial communities in floodplain sediments and soils using the fast, inexpensive and reliable fluorescein diacetate (FDA) method in order to estimate its applicability for sediment quality monitoring and preliminary toxicity-based risk assessment. Sediment and soil samples were collected from the actively flooded alluvial plain and the river terrace areas along a 130-km stretch of the large Drava River floodplain known to be widely contaminated by historical mining, smelting and the associated industry in the upstream Alpine region. Results of detailed data analysis show that the total microbial activity represented by the measured FDA values is related to PTE (As, Cu, Zn, Cd, Pb) concentrations, but this relationship shows significant heterogeneity and depends on the spatial location and on the soil properties such as organic matter content, dissolved salt and nutrient content, and it is specific to the toxic elements. Results show that some microbe species appear to be able to adapt to the elevated PTE concentrations in toxic soil micro-environments, over time. Despite the observed heterogeneity of microbial activity, the results revealed a breakpoint in the FDA dataset around the FDA = 3 FC (fluorescein concentration) value suggesting that microbial activity is controlled by thresholds.
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Affiliation(s)
- Péter Szabó
- Doctoral School of Environmental Sciences, ELTE Eötvös Loránd University, Budapest, Hungary
| | - Gyozo Jordan
- Hungarian University of Agriculture and Life Sciences, Gödöllő, Hungary
| | - Tamás Kocsis
- Hungarian University of Agriculture and Life Sciences, Gödöllő, Hungary.
| | - Katalin Posta
- Hungarian University of Agriculture and Life Sciences, Gödöllő, Hungary
| | - Levente Kardos
- Hungarian University of Agriculture and Life Sciences, Gödöllő, Hungary
| | - Robert Šajn
- Geological Survey of Slovenia, Ljubljana, Slovenia
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12
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Digital Twins of the Soil Microbiome for Climate Mitigation. ENVIRONMENTS 2022. [DOI: 10.3390/environments9030034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Recent advances in computation power have enabled the creation of digital twins of the microbiome (DTM) to substantially curb soil greenhouse gases (GHG) emissions under global change conditions [...]
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13
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Lin YP, Ansari A, Wunderlich RF, Lur HS, Ngoc-Dan Cao T, Mukhtar H. Assessing the influence of environmental niche segregation in ammonia oxidizers on N 2O fluxes from soil and sediments. CHEMOSPHERE 2022; 289:133049. [PMID: 34838835 DOI: 10.1016/j.chemosphere.2021.133049] [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: 07/21/2021] [Revised: 10/18/2021] [Accepted: 11/22/2021] [Indexed: 06/13/2023]
Abstract
Understanding the environmental niche segregation of ammonia-oxidizing archaea (AOA) and bacteria (AOB) and its impact on their relative contributions to nitrification and nitrous oxide (N2O) production is essential for predicting N2O dynamics within an ecosystem. Here, we used ammonia oxidizer-specific inhibitors to measure the differential contributions of AOA and AOB to potential ammonia oxidization (PAO) and N2O fluxes over pH (4.0-9.0) and temperature (10-45 °C) gradients in five soils and three wetland sediments. AOA and AOB activities were differentiated using PTIO (2-phenyl-4,4,5,5-tetramethylimidazoline-1-oxyl 3-oxide), 1-octyne, and acetylene. We used square root growth (SQRT) and macromolecular rate theory (MMRT) models to estimate cardinal temperatures and thermodynamic characteristics for AOA- and AOB-dominated PAO and N2O fluxes. We found that AOA and AOB occupied different niches for PAO, and soil temperature was the major determinant of niche specialization. SQRT and MMRT models predicted a higher optimum temperature for AOA-dominated PAO and N2O fluxes compared with those of AOB. Additionally, PAO was dominated by AOA in acidic conditions, whereas both AOA- and AOB-dominated N2O fluxes decreased with increasing pH. Consequently, net N2O fluxes (AOA and AOB) under acidic conditions were approximately one to three-fold higher than those observed in alkaline conditions. Moreover, structural equation and linear regression modeling confirmed a significant positive correlation (R2 = 0.45, p < 0.01) between PAO and N2O fluxes. Collectively, these results show the influence of ammonia oxidizer responses to temperature and pH on nitrification-driven N2O fluxes, highlighting the potential for mitigating N2O emissions via pH manipulation.
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Affiliation(s)
- Yu-Pin Lin
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan
| | - Andrianto Ansari
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan
| | | | - Huu-Sheng Lur
- Department of Agronomy, National Taiwan University, Taiwan
| | - Thanh Ngoc-Dan Cao
- Graduate Institute of Environmental Engineering, National Taiwan University, Taiwan
| | - Hussnain Mukhtar
- Department of Bioenvironmental Systems Engineering, National Taiwan University, Taiwan.
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Tuo Y, Rong N, Hu J, Zhao G, Wang Y, Zhang Z, Qi Z, Li Y, Zhang B. Exploring the Relationships between Macrofungi Diversity and Major Environmental Factors in Wunvfeng National Forest Park in Northeast China. J Fungi (Basel) 2022; 8:jof8020098. [PMID: 35205853 PMCID: PMC8880546 DOI: 10.3390/jof8020098] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 01/14/2022] [Accepted: 01/17/2022] [Indexed: 01/27/2023] Open
Abstract
In this paper, we analyze the macrofungi communities of five forest types in Wunvfeng National Forest Park (Jilin, China) by collecting fruiting bodies from 2019–2021. Each forest type had three repeats and covered the main habitats of macrofungi. In addition, we evaluate selected environmental variables and macrofungi communities to relate species composition to potential environmental factors. We collected 1235 specimens belonging to 283 species, 116 genera, and 62 families. We found that Amanitaceae, Boletaceae, Russulaceae, and Tricholomataceae were the most diverse family; further, Amanita, Cortinarius, Lactarius, Russula, and Tricholoma were the dominant genera in the area. The macrofungi diversity showed increasing trends from Pinus koraiensis Siebold et Zuccarini forests to Quercus mongolica Fischer ex Ledebour forests. The cumulative species richness was as follows: Q. mongolica forest A > broadleaf mixed forest B > Q. mongolica, P. koraiensis mix forest D (Q. mongolica was the dominant species) > Q. mongolica and P. koraiensis mix forest C (P. koraiensis was the dominant species) > P. koraiensis forest (E). Ectomycorrhizal fungi were the dominant functional group; they were mainly in forest type A and were influenced by soil moisture content and Q. mongolica content (p < 0.05). The wood-rotting fungus showed richer species diversity than other forest types in broadleaf forests A and B. Overall, we concluded that most fungal communities preferred forest types with a relatively high Q. mongolica content. Therefore, the deliberate protection of Q. mongolica forests proves to be a better strategy for maintaining fungal diversity in Wunvfeng National Forest Park.
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Affiliation(s)
| | | | | | | | | | | | | | - Yu Li
- Correspondence: (Y.L.); (B.Z.)
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15
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Wang X, Li G, Zhang Y, Ma K. Contrasting Patterns and Drivers of Soil Fungal Communities between Two Ecosystems Divided by the Treeline. Microorganisms 2021; 9:microorganisms9112280. [PMID: 34835408 PMCID: PMC8622436 DOI: 10.3390/microorganisms9112280] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 10/29/2021] [Accepted: 10/29/2021] [Indexed: 11/25/2022] Open
Abstract
The treeline is a sensitive region of the terrestrial ecosystem responding to climate change. However, studies on the composition and formation mechanisms of soil fungal communities across the treeline are still lacking. In this study, we investigated the patterns of soil fungal community composition and interactions among functional guilds above and below the treeline using Illumina high-throughput sequencing and ecological network analysis. The results showed that there were significant differences in the soil environment and soil fungal community composition between the two ecosystems above and below the treeline. At the local scale of this study, geographic distance and environmental factors affected the composition of the soil fungal community. Soil temperature was an important environmental predictor of soil fungal community composition. Species in soil fungal communities in the subalpine meadow were more closely related to each other compared to those in the montane forest. Furthermore, the soil fungal community in montane forest was more stable. Our findings contribute to a better understanding of how mountain ecological functions respond to global climate change.
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Affiliation(s)
- Xueying Wang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (X.W.); (Y.Z.)
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guixiang Li
- Weifang Academy of Agricultural Sciences, Weifang 261061, China;
| | - Yuxin Zhang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (X.W.); (Y.Z.)
| | - Keming Ma
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (X.W.); (Y.Z.)
- University of Chinese Academy of Sciences, Beijing 100049, China
- Correspondence: ; Tel.: +86-10-62849104
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Liu L, Ma M, Liu Z, Zhang L, Zhou J. Community structure of fungal pathogens causing spikelet rot disease of naked oat from different ecological regions of China. Sci Rep 2021; 11:1243. [PMID: 33441827 PMCID: PMC7806892 DOI: 10.1038/s41598-020-80273-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2020] [Accepted: 12/18/2020] [Indexed: 01/29/2023] Open
Abstract
Spikelet rot disease (SRD) is an emerging disease of the grain surface of naked oat in China that affects both grain yield and quality. The typical symptom is discoloration from the black structures of the causal fungi. Here, we investigated the fungal communities on the grain surfaces of cultivar Bayou 13 grown in ten ecological oat-producing regions of China, to identify the main pathogens of naked oat SRD. Our results showed that the growth of Alternaria spp. and Davidiella spp. exhibited a competitive relationship and was mainly affected by the elevations of all 10 ecological regions. The dominant pathogens were Davidiella spp. in Shannan Prefecture in Tibet and Haidong Prefecture in Qinghai Province and Alternaria spp. in the other eight regions. The ratios of black pathogens of interest to all pathogens in Shannan Prefecture and Haidong Prefecture were significantly lower than those of the other eight regions, thus indicating that SRD mainly occurred in regions below 2000 m (elevation). We isolated black fungal pathogens from grain surfaces and deduced that they were Alternaria spp. by sequence comparison. The blackened appearance of the grain surfaces was more evident under spray inoculation with a spore suspension of Alternaria than under the control in greenhouse experiments. The recovered pathogen was the same as the pathogen used for inoculation. We thus concluded that Alternaria alone causes naked oat SRD and mainly infects naked oat in regions below 2000 m, which provides a basis for the recognition and management of SRD of naked oat.
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Affiliation(s)
- Longlong Liu
- Key Laboratory of Crop Gene Resources and Germplasm Enhancement on Loess Plateau, Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan, 030031, China.
| | - Mingchuan Ma
- Key Laboratory of Crop Gene Resources and Germplasm Enhancement on Loess Plateau, Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan, 030031, China
| | - Zhang Liu
- Key Laboratory of Crop Gene Resources and Germplasm Enhancement on Loess Plateau, Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan, 030031, China
| | - Lijun Zhang
- Key Laboratory of Crop Gene Resources and Germplasm Enhancement on Loess Plateau, Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan, 030031, China
| | - Jianping Zhou
- Key Laboratory of Crop Gene Resources and Germplasm Enhancement on Loess Plateau, Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan, 030031, China
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