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For: Louca S, Polz MF, Mazel F, Albright MBN, Huber JA, O'Connor MI, Ackermann M, Hahn AS, Srivastava DS, Crowe SA, Doebeli M, Parfrey LW. Function and functional redundancy in microbial systems. Nat Ecol Evol 2018;2:936-43. [PMID: 29662222 DOI: 10.1038/s41559-018-0519-1] [Citation(s) in RCA: 777] [Impact Index Per Article: 111.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2017] [Accepted: 02/26/2018] [Indexed: 11/08/2022]
Number Cited by Other Article(s)
1
Darriaut R, Roose-Amsaleg C, Vanhove M, Monard C. Microbiome engineering to palliate microbial dysbiosis occurring in agroecosystems. Microbiol Res 2025;297:128178. [PMID: 40220558 DOI: 10.1016/j.micres.2025.128178] [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: 01/17/2025] [Revised: 03/28/2025] [Accepted: 04/07/2025] [Indexed: 04/14/2025]
2
Zheng MY, Qi XJ, Liu ZY, Wang YT, Ren YB, Li Y, Zhang Y, Chai BF, Jia T. Microbial taxonomic diversity and functional genes mirror soil ecosystem multifunctionality in nonferrous metal mining areas. JOURNAL OF HAZARDOUS MATERIALS 2025;492:138149. [PMID: 40188538 DOI: 10.1016/j.jhazmat.2025.138149] [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: 01/28/2025] [Revised: 03/09/2025] [Accepted: 04/01/2025] [Indexed: 04/08/2025]
3
Guo J, Luo W, Wu X, Li Y, Liu Z, Fang H, Chen Q, Li E, Wang Y. Stochastic and deterministic mechanisms jointly drive the assembly of microbial communities in cold-rolling wastewater across China. JOURNAL OF HAZARDOUS MATERIALS 2025;491:137925. [PMID: 40086244 DOI: 10.1016/j.jhazmat.2025.137925] [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: 01/13/2025] [Revised: 02/26/2025] [Accepted: 03/10/2025] [Indexed: 03/16/2025]
4
Guo Y, Cheng S, Fang H, Geng J, Shi F, Wang H, Chen L, Pu H, Liu B, Zhou Y. Water regime alters microbial mechanisms of N2O emission in metal-contaminated paddy soils. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2025;298:118304. [PMID: 40367615 DOI: 10.1016/j.ecoenv.2025.118304] [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: 02/22/2025] [Revised: 05/08/2025] [Accepted: 05/09/2025] [Indexed: 05/16/2025]
5
Liu M, Xu Y, Li S, Dong S, Yang W, Zhang G, Li S, Dou J, Zhao X. Active restoration facilitates sedge colonization in degraded alpine meadows on the Qinghai-Tibetan Plateau. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2025;388:126028. [PMID: 40449439 DOI: 10.1016/j.jenvman.2025.126028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2024] [Revised: 04/21/2025] [Accepted: 05/27/2025] [Indexed: 06/03/2025]
6
Zheng Z, Gustavsson DJI, Zheng D, Holmin F, Falås P, Wilén BM, Modin O, Persson F. Genome-centric metagenomics reveals the effect of organic carbon source on one-stage partial denitrification-anammox in biofilm reactors. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2025;388:125972. [PMID: 40449445 DOI: 10.1016/j.jenvman.2025.125972] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2024] [Revised: 05/06/2025] [Accepted: 05/24/2025] [Indexed: 06/03/2025]
7
Kelleher LA, Anderson Z, Stratford JA, Fortunato CS. Deciphering Soil Microbial Dynamics in Northeastern American Grasslands with Goldenrods (Solidago sp.). MICROBIAL ECOLOGY 2025;88:53. [PMID: 40411587 PMCID: PMC12103325 DOI: 10.1007/s00248-025-02525-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/23/2025] [Accepted: 04/02/2025] [Indexed: 05/26/2025]
8
Jiang T, Sun T, Guo Z, Lu J, Liu F, Guan X. Effects of ecological water replenishment on microbial denitrification in aquatic environment of infiltration area. JOURNAL OF HAZARDOUS MATERIALS 2025;494:138688. [PMID: 40408966 DOI: 10.1016/j.jhazmat.2025.138688] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2025] [Revised: 04/23/2025] [Accepted: 05/19/2025] [Indexed: 05/25/2025]
9
Yu Y, Lin Y, Gu C, Man F, Ma S, Xue Y, Ren H, Xu K. Algae biofilm produces less microbe-derived dissolved organic nitrogen under higher C/N ratio conditions. ENVIRONMENTAL RESEARCH 2025;280:121897. [PMID: 40393536 DOI: 10.1016/j.envres.2025.121897] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2025] [Revised: 05/11/2025] [Accepted: 05/17/2025] [Indexed: 05/22/2025]
10
Li B, Gesang Q, Sun Y, Wang Y, Nan J, Xu J. Soil Microbial Adaptation and Biogeochemical Feedback in Degraded Alpine Meadows of the Qinghai-Tibetan Plateau. Microorganisms 2025;13:1142. [PMID: 40431314 PMCID: PMC12114374 DOI: 10.3390/microorganisms13051142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2025] [Revised: 05/09/2025] [Accepted: 05/12/2025] [Indexed: 05/29/2025]  Open
11
Wu Q, Ning Z, Zhang A, Zhang X, Sun Z, Figeys D. Operational Taxon-Function Framework in MetaX: Unveiling Taxonomic and Functional Associations in Metaproteomics. Anal Chem 2025;97:9739-9747. [PMID: 40314762 DOI: 10.1021/acs.analchem.4c06645] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/03/2025]
12
Li Y, Qu N, Li S, Zhou H, Yue M. Ecological mechanisms of microbial assembly in clonal plant Glechoma longituba: from soil to endosphere. Appl Environ Microbiol 2025:e0033625. [PMID: 40353652 DOI: 10.1128/aem.00336-25] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2025] [Accepted: 04/16/2025] [Indexed: 05/14/2025]  Open
13
Wang Y, Huang S, He J, Feng Z, Wu W, Guo C, He J. Unveiling the dynamic viral landscape across developmental stages of cold seep ecosystems: Implications for global marine biogeochemistry. JOURNAL OF HAZARDOUS MATERIALS 2025;494:138594. [PMID: 40367785 DOI: 10.1016/j.jhazmat.2025.138594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2025] [Revised: 04/08/2025] [Accepted: 05/10/2025] [Indexed: 05/16/2025]
14
Jian J, Feng S, Xu Y, Jia M, Huang H, Zheng X, Liu H, Xu H. Bacterial community assembly processes mediate soil functioning under cadmium stress in the agroecosystem. JOURNAL OF HAZARDOUS MATERIALS 2025;494:138496. [PMID: 40339367 DOI: 10.1016/j.jhazmat.2025.138496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2025] [Revised: 04/19/2025] [Accepted: 05/03/2025] [Indexed: 05/10/2025]
15
Gilpin W. Optimization hardness constrains ecological transients. PLoS Comput Biol 2025;21:e1013051. [PMID: 40324147 PMCID: PMC12074658 DOI: 10.1371/journal.pcbi.1013051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2024] [Revised: 05/13/2025] [Accepted: 04/11/2025] [Indexed: 05/07/2025]  Open
16
Zhang Y, Huang Y, Xu F, Cai S, Liu Y, Xu C, Lin L, Chen J, Laws EA, Liu X, Huang B. Decoupling of bacterial production and respiration in the surface water of the North Pacific Subtropical Gyre. MARINE LIFE SCIENCE & TECHNOLOGY 2025;7:397-412. [PMID: 40417245 PMCID: PMC12102442 DOI: 10.1007/s42995-025-00279-9] [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: 07/28/2024] [Accepted: 12/20/2024] [Indexed: 05/27/2025]
17
Jia C, Li J, Li Z, Zhang L. Influence of high-load shocks on achieving mainstream partial nitrification: Microbial community succession. WATER RESEARCH X 2025;27:100304. [PMID: 39911734 PMCID: PMC11794177 DOI: 10.1016/j.wroa.2025.100304] [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: 11/01/2024] [Revised: 12/24/2024] [Accepted: 01/12/2025] [Indexed: 02/07/2025]
18
Pan S, Zhang W, Yan F, Ding Y, Hellweger FL, Shang J, Yan Y, Yu F, Li Y. Keystone microbial taxa identified by deep learning reveal mechanisms of phosphorus stoichiometric homeostasis in submerged macrophytes under different hydrodynamic states. WATER RESEARCH 2025;282:123721. [PMID: 40311292 DOI: 10.1016/j.watres.2025.123721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2024] [Revised: 03/26/2025] [Accepted: 04/24/2025] [Indexed: 05/03/2025]
19
Larkin AA, Brock ML, Fagan AJ, Moreno AR, Gerace SD, Lees LE, Suarez SA, Eloe-Fadrosh EA, Martiny AC. Climate-driven succession in marine microbiome biodiversity and biogeochemical function. Nat Commun 2025;16:3926. [PMID: 40280934 PMCID: PMC12032349 DOI: 10.1038/s41467-025-59382-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2024] [Accepted: 04/21/2025] [Indexed: 04/29/2025]  Open
20
Tang Y, Nian L, Zhao X, Li J, Wang Z, Dong L. Bio-Organic Fertilizer Application Enhances Silage Maize Yield by Regulating Soil Physicochemical and Microbial Properties. Microorganisms 2025;13:959. [PMID: 40431133 PMCID: PMC12114197 DOI: 10.3390/microorganisms13050959] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2025] [Revised: 04/09/2025] [Accepted: 04/15/2025] [Indexed: 05/29/2025]  Open
21
Gao FZ, Hu LX, Liu YS, Yang HY, He LY, Bai H, Liu F, Jin XW, Ying GG. Unveiling the prevalence of metal resistance genes and their associations with antibiotic resistance genes in heavy metal-contaminated rivers. WATER RESEARCH 2025;281:123699. [PMID: 40280009 DOI: 10.1016/j.watres.2025.123699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2024] [Revised: 04/15/2025] [Accepted: 04/21/2025] [Indexed: 04/29/2025]
22
Basili M, Randazzo B, Caccamo L, Guicciardi O Guizzardi S, Meola M, Perdichizzi A, Quero GM, Maricchiolo G. Effect of graded inclusion of black soldier fly (Hermetia illucens, Linnaeus, 1758) pre-pupae meal in diets for gilthead seabream (Sparus aurata, Linnaeus, 1758) on gut microbiome and liver morphology. FISH PHYSIOLOGY AND BIOCHEMISTRY 2025;51:85. [PMID: 40261569 PMCID: PMC12014712 DOI: 10.1007/s10695-025-01485-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2024] [Accepted: 03/12/2025] [Indexed: 04/24/2025]
23
Zhu W, Zhang J, Zhao H, Liu X, Ke J, Wang A, Li X. Relative importance of microbial abundance and taxonomic types in driving the processes and functions of coral reef seawater in the Wuzhizhou Island. MARINE ENVIRONMENTAL RESEARCH 2025;209:107169. [PMID: 40286480 DOI: 10.1016/j.marenvres.2025.107169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2025] [Revised: 04/19/2025] [Accepted: 04/20/2025] [Indexed: 04/29/2025]
24
Kop LFM, Koch H, Dalcin Martins P, Suarez C, Karačić S, Persson F, Wilén BM, Hagelia P, Jetten MSM, Lücker S. High diversity of nitrifying bacteria and archaea in biofilms from a subsea tunnel. FEMS Microbiol Ecol 2025;101:fiaf032. [PMID: 40156577 PMCID: PMC11995701 DOI: 10.1093/femsec/fiaf032] [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: 11/15/2024] [Revised: 03/12/2025] [Accepted: 03/27/2025] [Indexed: 04/01/2025]  Open
25
Shao Y, Gu S, Peng H, Zhang L, Li S, Berendsen RL, Yang T, Dong C, Wei Z, Xu Y, Shen Q. Synergic interactions between Trichoderma and the soil microbiomes improve plant iron availability and growth. NPJ Biofilms Microbiomes 2025;11:56. [PMID: 40199867 PMCID: PMC11978894 DOI: 10.1038/s41522-025-00684-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2024] [Accepted: 03/17/2025] [Indexed: 04/10/2025]  Open
26
Matsumura E, Kato H, Hara S, Ohbayashi T, Ito K, Shingubara R, Kawakami T, Mitsunobu S, Saeki T, Tsuda S, Minamisawa K, Wagai R. Single-cell genomics of single soil aggregates: methodological assessment and potential implications with a focus on nitrogen metabolism. Front Microbiol 2025;16:1557188. [PMID: 40260087 PMCID: PMC12010503 DOI: 10.3389/fmicb.2025.1557188] [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: 01/08/2025] [Accepted: 02/05/2025] [Indexed: 04/23/2025]  Open
27
Liu H, Zhang C, Zhang B, Xu W, Zhang R, Zhang L, Li Y, Han H, Cao H. Reapplication of glyphosate mitigate fitness costs for soil bacterial communities. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2025;378:124773. [PMID: 40043561 DOI: 10.1016/j.jenvman.2025.124773] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2024] [Revised: 02/04/2025] [Accepted: 02/28/2025] [Indexed: 03/16/2025]
28
Altamira-Algarra B, Garcia J, Gonzalez-Flo E. Cyanobacteria microbiomes for bioplastic production: Critical review of key factors and challenges in scaling from laboratory to industry set-ups. BIORESOURCE TECHNOLOGY 2025;422:132231. [PMID: 39956522 DOI: 10.1016/j.biortech.2025.132231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2024] [Revised: 01/24/2025] [Accepted: 02/13/2025] [Indexed: 02/18/2025]
29
Peng Z, van der Heijden MGA, Liu Y, Li X, Pan H, An Y, Gao H, Qi J, Gao J, Qian X, Tiedje JM, Wei G, Jiao S. Agricultural subsoil microbiomes and functions exhibit lower resistance to global change than topsoils in Chinese agroecosystems. NATURE FOOD 2025;6:375-388. [PMID: 39753761 DOI: 10.1038/s43016-024-01106-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Accepted: 12/02/2024] [Indexed: 03/29/2025]
30
Sun D, Liu Y, Zhou S, Meegaskumbura M. Microbiome and climate: skin microbial diversity and community functions of Polypedates megacephalus (Anura: Rhacophoridae) associated with bioclimate. Microbiol Spectr 2025;13:e0235824. [PMID: 40042318 PMCID: PMC11960054 DOI: 10.1128/spectrum.02358-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2024] [Accepted: 01/06/2025] [Indexed: 04/03/2025]  Open
31
Pascual-García A, Rivett DW, Jones ML, Bell T. Replicating community dynamics reveals how initial composition shapes the functional outcomes of bacterial communities. Nat Commun 2025;16:3002. [PMID: 40164605 PMCID: PMC11958796 DOI: 10.1038/s41467-025-57591-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Accepted: 02/26/2025] [Indexed: 04/02/2025]  Open
32
Li D, Zhang Y, Su X, Wang J, Li N. Seasonal freeze-thaw significantly alters the distinct aquifers solute transport, microbial community assembly patterns, and molecular ecological networks in the hyporheic zone. WATER RESEARCH 2025;281:123555. [PMID: 40187145 DOI: 10.1016/j.watres.2025.123555] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2024] [Revised: 03/06/2025] [Accepted: 03/24/2025] [Indexed: 04/07/2025]
33
Hotchkiss MZ, Poulain AJ, Forrest JRK. Bumble bee gut microbial community structure differs between species and commercial suppliers, but metabolic potential remains largely consistent. Appl Environ Microbiol 2025;91:e0203624. [PMID: 39912643 PMCID: PMC11921327 DOI: 10.1128/aem.02036-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2024] [Accepted: 01/20/2025] [Indexed: 02/07/2025]  Open
34
Morrison ML, Xue KS, Rosenberg NA. Quantifying compositional variability in microbial communities with FAVA. Proc Natl Acad Sci U S A 2025;122:e2413211122. [PMID: 40063791 PMCID: PMC11929398 DOI: 10.1073/pnas.2413211122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2024] [Accepted: 01/21/2025] [Indexed: 03/19/2025]  Open
35
Cheng C, Liu F, Wu Y, Li P, Chen W, Wu C, Sun J. Positive Linkage in Bacterial Microbiota at the Plant-Insect Interface Benefits an Invasive Bark Beetle. PLANT, CELL & ENVIRONMENT 2025. [PMID: 40091613 DOI: 10.1111/pce.15470] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Revised: 02/25/2025] [Accepted: 02/26/2025] [Indexed: 03/19/2025]
36
Zhang M, Bai L, Yao Z, Li W, Yang W. Seasonal lake ice cover drives the restructuring of bacteria-archaea and bacteria-fungi interdomain ecological networks across diverse habitats. ENVIRONMENTAL RESEARCH 2025;269:120907. [PMID: 39848515 DOI: 10.1016/j.envres.2025.120907] [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: 10/13/2024] [Revised: 01/14/2025] [Accepted: 01/19/2025] [Indexed: 01/25/2025]
37
Wu J, Niu L, Li Y, Zheng J, Wang L, Zhu D. Stability characteristics of bacterial and protistan communities along an estuarine continuum: Diversity, composition and co-occurrence networks. ENVIRONMENTAL RESEARCH 2025;269:120920. [PMID: 39848524 DOI: 10.1016/j.envres.2025.120920] [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: 10/25/2024] [Revised: 01/19/2025] [Accepted: 01/20/2025] [Indexed: 01/25/2025]
38
Hao Z, Wang Y, Chen E, Mu X, Li J, La Q, De J, Liu Y, Huang S, Fang W, Cao P, Wang J, Zhou Y. Climate and biological factors jointly shape microbial community structure in the Yarlung Zangbo River during the dry season. THE SCIENCE OF THE TOTAL ENVIRONMENT 2025;969:178930. [PMID: 40020580 DOI: 10.1016/j.scitotenv.2025.178930] [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: 10/12/2024] [Revised: 02/18/2025] [Accepted: 02/19/2025] [Indexed: 03/03/2025]
39
Fässler D, Heinken A, Hertel J. Characterising functional redundancy in microbiome communities via relative entropy. Comput Struct Biotechnol J 2025;27:1482-1497. [PMID: 40265160 PMCID: PMC12013412 DOI: 10.1016/j.csbj.2025.03.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2024] [Revised: 03/06/2025] [Accepted: 03/08/2025] [Indexed: 04/24/2025]  Open
40
Freund L, Hung C, Topacio TM, Diamond C, Fresquez A, Lyons TW, Aronson EL. Diversity of sulfur cycling halophiles within the Salton Sea, California's largest lake. BMC Microbiol 2025;25:120. [PMID: 40045185 PMCID: PMC11883979 DOI: 10.1186/s12866-025-03839-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2024] [Accepted: 02/20/2025] [Indexed: 03/09/2025]  Open
41
Saltonstall K, van Breugel M, Navia W, Castillo H, Hall JS. Soil microbial communities in dry and moist tropical forests exhibit distinct shifts in community composition but not diversity with succession. Microbiol Spectr 2025;13:e0193124. [PMID: 39902968 PMCID: PMC11878062 DOI: 10.1128/spectrum.01931-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2024] [Accepted: 12/18/2024] [Indexed: 02/06/2025]  Open
42
Cotta SR, Dias ACF, Mendes R, Andreote FD. Role of horizontal gene transfer and cooperation in rhizosphere microbiome assembly. Braz J Microbiol 2025;56:225-236. [PMID: 39730778 PMCID: PMC11885732 DOI: 10.1007/s42770-024-01583-9] [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: 09/01/2023] [Accepted: 11/29/2024] [Indexed: 12/29/2024]  Open
43
Yang L, Yao B, Zhang S, Yang Y, Pan H, Zeng X, Qiao S. Study on the difference of gut microbiota in DLY and Diqing Tibetan pigs induce by high fiber diet. J Anim Physiol Anim Nutr (Berl) 2025;109:233-242. [PMID: 39180381 DOI: 10.1111/jpn.14023] [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: 09/15/2023] [Revised: 07/04/2024] [Accepted: 07/06/2024] [Indexed: 08/26/2024]
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Trinh HP, Lee SH, Nguyen TV, Park HD. Contribution of the microbial community to operational stability in an anammox reactor: Neutral theory and functional redundancy perspectives. BIORESOURCE TECHNOLOGY 2025;419:132029. [PMID: 39740752 DOI: 10.1016/j.biortech.2024.132029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2024] [Revised: 12/17/2024] [Accepted: 12/27/2024] [Indexed: 01/02/2025]
45
Romano-Zadaka H, Yissachar N. From microbiota to menu: predicting individual responses to dietary components. Gut 2025:gutjnl-2025-334712. [PMID: 40011032 DOI: 10.1136/gutjnl-2025-334712] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/12/2025] [Accepted: 02/13/2025] [Indexed: 02/28/2025]
46
Cross K, Beckman N, Jahnes B, Sabree ZL. Microbiome metabolic capacity is buffered against phylotype losses by functional redundancy. Appl Environ Microbiol 2025;91:e0236824. [PMID: 39882875 PMCID: PMC11837509 DOI: 10.1128/aem.02368-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2024] [Accepted: 01/01/2025] [Indexed: 01/31/2025]  Open
47
Foucault P, Halary S, Duval C, Goto M, Marie B, Hamlaoui S, Jardillier L, Lamy D, Lance E, Raimbault E, Allouti F, Troussellier M, Bernard C, Leloup J, Duperron S. A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential. ENVIRONMENTAL MICROBIOME 2025;20:24. [PMID: 39962619 PMCID: PMC11834611 DOI: 10.1186/s40793-025-00681-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2024] [Accepted: 02/02/2025] [Indexed: 02/20/2025]
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Lepcha A, Kumar R, Dindhoria K, Bhargava B, Pati AM, Kumar R. Metagenomic insights into the functional potential of non-sanitary landfill microbiomes in the Indian Himalayan region, highlighting key plastic degrading genes. JOURNAL OF HAZARDOUS MATERIALS 2025;484:136642. [PMID: 39653637 DOI: 10.1016/j.jhazmat.2024.136642] [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: 08/16/2024] [Revised: 11/03/2024] [Accepted: 11/22/2024] [Indexed: 01/29/2025]
49
Lan LY, Liu TC, Gao SM, Li Q, Yang L, Fei HL, Zhong XK, Wang YX, Zhu CY, Abel C, Kappeler PM, Huang LN, Fan PF. Comparative study of gut microbiota reveals the adaptive strategies of gibbons living in suboptimal habitats. NPJ Biofilms Microbiomes 2025;11:29. [PMID: 39953051 PMCID: PMC11828964 DOI: 10.1038/s41522-025-00653-6] [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: 07/09/2024] [Accepted: 01/06/2025] [Indexed: 02/17/2025]  Open
50
Li F, Xu MB, Pan LH, Li J, Lan CB, Li Z, Lu S, Lai JX, Li PF. Ammonifying and phosphorus-solubilizing function of Aliikangiella maris sp. nov. isolated from Phaeocystis globosa bloom and algal-bacterial interactions. Front Microbiol 2025;16:1516993. [PMID: 39996082 PMCID: PMC11849500 DOI: 10.3389/fmicb.2025.1516993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2024] [Accepted: 01/20/2025] [Indexed: 02/26/2025]  Open
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