The DOI matches its Crossref record; 83 of the 83 references it cites were found in a registry or an index.
Linking soil fungi to bacterial community assembly in arid ecosystems
Open accessAbstract
Revealing the roles of biotic factors in driving community assembly, which is crucial for the understanding of biodiversity and ecosystem functions, is a fundamental but infrequently investigated subject in microbial ecology. Here, combining a cross‐biome observational study with an experimental microcosm study, we provided evidence to reveal the major roles of biotic factors (i.e., soil fungi and cross‐kingdom species associations) in determining soil bacterial biogeography and community assembly in complex terrestrial ecosystems of the arid regions of northwest China. The results showed that the soil fungal richness mediates the balance of assembly processes of bacterial communities, and stochastic assembly processes decreased with increasing fungal richness. Our results further suggest that the predicted increase in aridity conditions due to climate change will reduce bacterial α‐diversity, particularly in desert soils and subsurface layer, and induce more negative species associations. Together, our study represents a significant advance in linking soil fungi to the mechanisms underlying bacterial biogeographic patterns and community assembly in arid ecosystems under climate aridity and land‐use change scenarios.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
DADA2: High–resolution sample inference from Illumina amplicon data
Callahan, B. J., McMurdie, P. J., Rosen, M. J., Han, A. W., Johnson, A. J. A., & Holmes, S. P. (2016) · Nature Methods · doi:10.1038/nmeth.3869 · Cited by 35,698
Very high resolution interpolated climate surfaces for global land areas
Hijmans, R. J., Cameron, S. E., Parra, J. L., Jones, P. G., & Jarvis, A. (2005) · International Journal of Climatology · doi:10.1002/joc.1276 · Cited by 19,825
The Structure and Function of Complex Networks
Newman, M. E. J. (2003) · SIAM Review · doi:10.1137/s003614450342480 · Cited by 18,719
Modularity and community structure in networks
Newman, M. E. J. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601602103 · Cited by 12,256
The igraph software package for complex network research
Csárdi, G., & Nepusz, T. (2006) · Medical Entomology and Zoology · Cited by 10,078
The diversity and biogeography of soil bacterial communities
Fierer, N., & Jackson, R. B. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0507535103 · Cited by 5,711
Microbial interactions: from networks to models
Faust, K., & Raes, J. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2832 · Cited by 4,141
Belowground biodiversity and ecosystem functioning
Bardgett, R. D., & van der Putten, W. H. (2014) · Nature · doi:10.1038/nature13855 · Cited by 3,990
phangorn: phylogenetic analysis in R
Schliep, K. P. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btq706 · Cited by 3,747
Global diversity and geography of soil fungi
Tedersoo, L., Bahram, M., Põlme, S., Kõljalg, U., Yorou, N. S., Wijesundera, R., Ruiz, L. V., Vasco-Palacios, A. M., Thu, P. Q., Suija, A., et al. (2014) · Science · doi:10.1126/science.1256688 · Cited by 3,702
Embracing the unknown: disentangling the complexities of the soil microbiome
Fierer, N. (2017) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2017.87 · Cited by 3,487
The Microbial Engines That Drive Earth's Biogeochemical Cycles
Falkowski, P. G., Fenchel, T., & Delong, E. F. (2008) · Science · doi:10.1126/science.1153213 · Cited by 3,379
Global Desertification: Building a Science for Dryland Development
Reynolds, J. F., Smith, D. M. S., Lambin, E. F., Turner, B. L., Mortimore, M., Batterbury, S. P. J., Downing, T. E., Dowlatabadi, H., Fernández, R. J., Herrick, J. E., et al. (2007) · Science · doi:10.1126/science.1131634 · Cited by 2,916
Inclusion of facilitation into ecological theory
Bruno, J. F., Stachowicz, J. J., & Bertness, M. D. (2003) · Trends in Ecology & Evolution · doi:10.1016/s0169-5347(02)00045-9 · Cited by 2,902
Conceptual Synthesis in Community Ecology
Vellend, M. (2010) · The Quarterly Review of Biology · doi:10.1086/652373 · Cited by 2,832
Stochastic Community Assembly: Does It Matter in Microbial Ecology?
Zhou, J., & Ning, D. (2017) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00002-17 · Cited by 2,773
Relative Importance for Linear Regression in R : The Package relaimpo
Grömping, U. (2006) · Journal of Statistical Software · doi:10.18637/jss.v017.i01 · Cited by 2,615
Soil biodiversity and soil community composition determine ecosystem multifunctionality
Wagg, C., Bender, S. F., Widmer, F., & van der Heijden, M. G. A. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1320054111 · Cited by 2,550
Structure and function of the global topsoil microbiome
Bahram, M., Hildebrand, F., Forslund, S. K., Anderson, J. L., Soudzilovskaia, N. A., Bodegom, P. M., Bengtsson-Palme, J., Anslan, S., Coelho, L. P., Harend, H., et al. (2018) · Nature · doi:10.1038/s41586-018-0386-6 · Cited by 2,538
Quantifying community assembly processes and identifying features that impose them
Stegen, J. C., Lin, X., Fredrickson, J. K., Chen, X., Kennedy, D. W., Murray, C. J., Rockhold, M. L., & Konopka, A. (2013) · The ISME Journal · doi:10.1038/ismej.2013.93 · Cited by 2,535
Discovering statistics using R
(2012) · Choice Reviews Online · doi:10.5860/choice.50-2114 · Cited by 2,534
The ecodist Package for Dissimilarity-based Analysis of Ecological Data
Goslee, S. C., & Urban, D. L. (2007) · Journal of Statistical Software · doi:10.18637/jss.v022.i07 · Cited by 2,429
Stochastic and deterministic assembly processes in subsurface microbial communities
Stegen, J. C., Lin, X., Konopka, A. E., & Fredrickson, J. K. (2012) · The ISME Journal · doi:10.1038/ismej.2012.22 · Cited by 2,064
Patterns and Processes of Microbial Community Assembly
Nemergut, D. R., Schmidt, S. K., Fukami, T., O'Neill, S. P., Bilinski, T. M., Stanish, L. F., Knelman, J. E., Darcy, J. L., Lynch, R. C., Wickey, P., et al. (2013) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00051-12 · Cited by 1,984
Living in a fungal world: impact of fungi on soil bacterial niche development
Boer, W. D., Folman, L. B., Summerbell, R. C., & Boddy, L. (2005) · FEMS Microbiology Reviews · doi:10.1016/j.femsre.2004.11.005 · Cited by 1,867
Fungal-bacterial diversity and microbiome complexity predict ecosystem functioning
Wagg, C., Schlaeppi, K., Banerjee, S., Kuramae, E. E., & van der Heijden, M. G. A. (2019) · Nature Communications · doi:10.1038/s41467-019-12798-y · Cited by 1,836
The Genome Sequence Archive Family: Toward Explosive Data Growth and Diverse Data Types
Chen, T., Chen, X., Zhang, S., Zhu, J., Tang, B., Wang, A., Dong, L., Zhang, Z., Yu, C., Sun, Y., et al. (2021) · Genomics, Proteomics & Bioinformatics · doi:10.1016/j.gpb.2021.08.001 · Cited by 1,816
Beyond biogeographic patterns: processes shaping the microbial landscape
Hanson, C. A., Fuhrman, J. A., Horner-Devine, M. C., & Martiny, J. B. H. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2795 · Cited by 1,739
Dini-Andreote, F., Stegen, J. C., van Elsas, J. D., & Salles, J. F. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1414261112 · Cited by 1,685
Disentangling the importance of ecological niches from stochastic processes across scales
Chase, J. M., & Myers, J. A. (2011) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2011.0063 · Cited by 1,673
Multiple elements of soil biodiversity drive ecosystem functions across biomes
Delgado-Baquerizo, M., Reich, P. B., Trivedi, C., Eldridge, D. J., Abades, S., Alfaro, F. D., Bastida, F., Berhe, A. A., Cutler, N. A., Gallardo, A., et al. (2020) · Nature Ecology & Evolution · doi:10.1038/s41559-019-1084-y · Cited by 1,426
Microbial community structure and its functional implications
Fuhrman, J. A. (2009) · Nature · doi:10.1038/nature08058 · Cited by 1,382
Ma, B., Wang, H., Dsouza, M., Lou, J., He, Y., Dai, Z., Brookes, P. C., Xu, J., & Gilbert, J. A. (2016) · The ISME Journal · doi:10.1038/ismej.2015.261 · Cited by 1,264
Global ecosystem thresholds driven by aridity
Berdugo, M., Delgado-Baquerizo, M., Soliveres, S., Hernández-Clemente, R., Zhao, Y., Gaitán, J. J., Gross, N., Saiz, H., Maire, V., Lehmann, A., et al. (2020) · Science · doi:10.1126/science.aay5958 · Cited by 1,231
Functional Traits and Niche-Based Tree Community Assembly in an Amazonian Forest
Kraft, N. J. B., Valencia, R., & Ackerly, D. D. (2008) · Science · doi:10.1126/science.1160662 · Cited by 1,224
Global patterns in belowground communities
Fierer, N., Strickland, M. S., Liptzin, D., Bradford, M. A., & Cleveland, C. C. (2009) · Ecology Letters · doi:10.1111/j.1461-0248.2009.01360.x · Cited by 1,218
The interconnected rhizosphere: High network complexity dominates rhizosphere assemblages
Shi, S., Nuccio, E. E., Shi, Z. J., He, Z., Zhou, J., & Firestone, M. K. (2016) · Ecology Letters · doi:10.1111/ele.12630 · Cited by 1,183
Increasing aridity reduces soil microbial diversity and abundance in global drylands
Maestre, F. T., Delgado-Baquerizo, M., Jeffries, T. C., Eldridge, D. J., Ochoa, V., Gozalo, B., Quero, J. L., García-Gómez, M., Gallardo, A., Ulrich, W., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1516684112 · Cited by 1,152
Zomer, R. J., Trabucco, A., Bossio, D. A., & Verchot, L. V. (2008) · Agriculture, Ecosystems & Environment · doi:10.1016/j.agee.2008.01.014 · Cited by 1,135
Jiao, S., Yang, Y., Xu, Y., Zhang, J., & Lu, Y. (2020) · The ISME Journal · doi:10.1038/s41396-019-0522-9 · Cited by 1,052
Self-citationSoil pH mediates the balance between stochastic and deterministic assembly of bacteria
Tripathi, B. M., Stegen, J. C., Kim, M., Dong, K., Adams, J. M., & Lee, Y. K. (2018) · The ISME Journal · doi:10.1038/s41396-018-0082-4 · Cited by 1,049
Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival
Durán, P., Thiergart, T., Garrido-Oter, R., Agler, M., Kemen, E., Schulze-Lefert, P., & Hacquard, S. (2018) · Cell · doi:10.1016/j.cell.2018.10.020 · Cited by 1,037
Network thinking in ecology and evolution
PROULX, S., PROMISLOW, D., & PHILLIPS, P. (2005) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2005.04.004 · Cited by 936
Soil networks become more connected and take up more carbon as nature restoration progresses
Morriën, E., Hannula, S. E., Snoek, L. B., Helmsing, N. R., Zweers, H., de Hollander, M., Soto, R. L., Bouffaud, M.-L., Buée, M., Dimmers, W., et al. (2017) · Nature Communications · doi:10.1038/ncomms14349 · Cited by 936
Metabolic dependencies drive species co-occurrence in diverse microbial communities
Zelezniak, A., Andrejev, S., Ponomarova, O., Mende, D. R., Bork, P., & Patil, K. R. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1421834112 · Cited by 930
The Ecology and Evolution of Microbial Competition
Ghoul, M., & Mitri, S. (2016) · Trends in Microbiology · doi:10.1016/j.tim.2016.06.011 · Cited by 917
The bacterial biogeography of British soils
Griffiths, R. I., Thomson, B. C., James, P., Bell, T., Bailey, M., & Whiteley, A. S. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02480.x · Cited by 901
Eilers, K. G., Debenport, S., Anderson, S., & Fierer, N. (2012) · Soil Biology and Biochemistry · doi:10.1016/j.soilbio.2012.03.011 · Cited by 894
A practical guide to amplicon and metagenomic analysis of microbiome data
Liu, Y.-X., Qin, Y., Chen, T., Lu, M., Qian, X., Guo, X., & Bai, Y. (2021) · Protein & Cell · doi:10.1007/s13238-020-00724-8 · Cited by 864
Drivers of bacterial β-diversity depend on spatial scale
Martiny, J. B. H., Eisen, J. A., Penn, K., Allison, S. D., & Horner-Devine, M. C. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1016308108 · Cited by 794
The Unified Neutral Theory of Biodiversity and Biogeography (MPB-32)
Hubbell, S. P. (2011) · Princeton University Press eBooks · doi:10.1515/9781400837526 · Cited by 791
Spatial scaling of microbial biodiversity
Green, J., & Bohannan, B. J. M. (2006) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2006.06.012 · Cited by 635
Wang, J., Shen, J., Wu, Y., Tu, C., Soininen, J., Stegen, J. C., He, J., Liu, X., Zhang, L., & Zhang, E. (2013) · The ISME Journal · doi:10.1038/ismej.2013.30 · Cited by 619
Earth microbial co-occurrence network reveals interconnection pattern across microbiomes
Ma, B., Wang, Y., Ye, S., Liu, S., Stirling, E., Gilbert, J. A., Faust, K., Knight, R., Jansson, J. K., Cardona, C., et al. (2020) · Microbiome · doi:10.1186/s40168-020-00857-2 · Cited by 574
Abundant fungi adapt to broader environmental gradients than rare fungi in agricultural fields
Jiao, S., & Lu, Y. (2020) · Global Change Biology · doi:10.1111/gcb.15130 · Cited by 530
Self-citationBacterial communities in oil contaminated soils: Biogeography and co-occurrence patterns
Jiao, S., Liu, Z., Lin, Y., Yang, J., Chen, W., & Wei, G. (2016) · Soil Biology and Biochemistry · doi:10.1016/j.soilbio.2016.04.005 · Cited by 488
Self-citationGlobal patterns in the biogeography of bacterial taxa
Nemergut, D. R., Costello, E. K., Hamady, M., Lozupone, C., Jiang, L., Schmidt, S. K., Fierer, N., Townsend, A. R., Cleveland, C. C., Stanish, L., et al. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2010.02315.x · Cited by 454
Shi, Y., Li, Y., Xiang, X., Sun, R., Yang, T., He, D., Zhang, K., Ni, Y., Zhu, Y.-G., Adams, J. M., et al. (2018) · Microbiome · doi:10.1186/s40168-018-0409-4 · Cited by 446
Self-citationIllumina-based analysis of microbial community diversity
Degnan, P. H., & Ochman, H. (2012) · The ISME Journal · doi:10.1038/ismej.2011.74 · Cited by 421
Freilich, M. A., Wieters, E., Broitman, B. R., Marquet, P. A., & Navarrete, S. A. (2018) · Ecology · doi:10.1002/ecy.2142 · Cited by 404
The large-scale organization of the bacterial network of ecological co-occurrence interactions
Freilich, S., Kreimer, A., Meilijson, I., Gophna, U., Sharan, R., & Ruppin, E. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq118 · Cited by 312
Habitat-specific patterns and drivers of bacterial β-diversity in China’s drylands
Wang, X.-B., Lü, X.-T., Yao, J., Wang, Z.-W., Deng, Y., Cheng, W.-X., Zhou, J.-Z., & Han, X.-G. (2017) · The ISME Journal · doi:10.1038/ismej.2017.11 · Cited by 309
Use and abuse of correlation analyses in microbial ecology
Carr, A., Diener, C., Baliga, N. S., & Gibbons, S. M. (2019) · The ISME Journal · doi:10.1038/s41396-019-0459-z · Cited by 289
Huber, P., Metz, S., Unrein, F., Mayora, G., Sarmento, H., & Devercelli, M. (2020) · The ISME Journal · doi:10.1038/s41396-020-0723-2 · Cited by 264
Higher precipitation strengthens the microbial interactions in semi‐arid grassland soils
Wang, S., Wang, X., Han, X., & Deng, Y. (2018) · Global Ecology and Biogeography · doi:10.1111/geb.12718 · Cited by 262
Mille‐Lindblom, C., Fischer, H., & J. Tranvik, L. (2006) · Oikos · doi:10.1111/j.2006.0030-1299.14337.x · Cited by 246
Feng, Y., Chen, R., Stegen, J. C., Guo, Z., Zhang, J., Li, Z., & Lin, X. (2018) · Molecular Ecology · doi:10.1111/mec.14914 · Cited by 236
Increasing antagonistic interactions cause bacterial communities to collapse at high diversity
Becker, J., Eisenhauer, N., Scheu, S., & Jousset, A. (2012) · Ecology Letters · doi:10.1111/j.1461-0248.2012.01759.x · Cited by 235
Aridity and reduced soil micronutrient availability in global drylands
Moreno-Jiménez, E., Plaza, C., Saiz, H., Manzano, R., Flagmeier, M., & Maestre, F. T. (2019) · Nature Sustainability · doi:10.1038/s41893-019-0262-x · Cited by 221
Hartmann, M., Lee, S., Hallam, S. J., & Mohn, W. W. (2009) · Environmental Microbiology · doi:10.1111/j.1462-2920.2009.02008.x · Cited by 210
Why do microbes exhibit weak biogeographic patterns?
Meyer, K. M., Memiaghe, H., Korte, L., Kenfack, D., Alonso, A., & Bohannan, B. J. M. (2018) · The ISME Journal · doi:10.1038/s41396-018-0103-3 · Cited by 187
Antibiotic Production by Myxobacteria Plays a Role in Predation
Xiao, Y., Wei, X., Ebright, R. H., & Wall, D. (2011) · Journal of Bacteriology · doi:10.1128/jb.05052-11 · Cited by 175
Self-citationCompetitive network determines the direction of the diversity–function relationship
Maynard, D. S., Crowther, T. W., & Bradford, M. A. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1712211114 · Cited by 163
Consistent trade-offs in fungal trait expression across broad spatial scales
Maynard, D. S., Bradford, M. A., Covey, K., Lindner, D. L., Glaeser, J. A., Talbert, D. A., Tinker, P., Walker, D. M., & Crowther, T. W. (2019) · Nature Microbiology · doi:10.1038/s41564-019-0361-5 · Cited by 148
Bissett, A. B., Richardson, A. E., Baker, G. H., Wakelin, S. A., & Thrall, P. H. (2010) · Molecular Ecology · doi:10.1111/j.1365-294x.2010.04804.x · Cited by 147
Fungicides enhanced the abundance of antibiotic resistance genes in greenhouse soil
Zhang, H., Chen, S., Zhang, Q., Long, Z., Yu, Y., & Fang, H. (2020) · Environmental Pollution · doi:10.1016/j.envpol.2019.113877 · Cited by 96
He, T., Guan, W., Luan, Z., & Xie, S. (2015) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-015-7072-5 · Cited by 93
Fang, H., Han, L., Cui, Y., Xue, Y., Cai, L., & Yu, Y. (2016) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2016.08.038 · Cited by 90
Chen, W., Jiao, S., Li, Q., & Du, N. (2019) · Journal of Applied Ecology · doi:10.1111/1365-2664.13533 · Cited by 90
Self-citationThe spatial scale dependence of diazotrophic and bacterial community assembly in paddy soil
Gao, Q., Yang, Y., Feng, J., Tian, R., Guo, X. Y., Ning, D., Hale, L. E., Wang, M., Cheng, J., Wu, L., et al. (2019) · Global Ecology and Biogeography · doi:10.1111/geb.12917 · Cited by 68
Self-citationMapping the imprint of biotic interactions on β‐diversity
Ohlmann, M., Mazel, F., Chalmandrier, L., Bec, S., Coissac, É., Gielly, L., Pansu, J., Schilling, V., Taberlet, P., Zinger, L., et al. (2018) · Ecology Letters · doi:10.1111/ele.13143 · Cited by 55
Peng, Z., Wang, Z., Liu, Y., Yang, T., Chen, W., Wei, G., & Jiao, S. (2021) · Soil Ecology Letters · doi:10.1007/s42832-021-0109-z · Cited by 41
Self-citationHomogenization of species composition and species association networks are decoupled
Li, D., Poisot, T., Waller, D. M., & Baiser, B. (2018) · Global Ecology and Biogeography · doi:10.1111/geb.12825 · Cited by 25
Metadata
- Authors
- Jiao, S., Chu, H., Zhang, B., Wei, X., Chen, W., & Wei, G.
- Venue
- iMeta
- Publisher
- Wiley
- Published
- 2022-02-24
- Volume
- 1
- Issue
- 1
- Pages
- e2-e2
- ISSN
- 2770-596X (ISSN-L)
- OpenAlex
- W4220691145
- Cited by
- 284
- References
- 83
- FWCI
- 28.56
- Type
- journal article
- Language
- en
- Open access
- gold
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.