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For: Bokulich NA, Kaehler BD, Rideout JR, Dillon M, Bolyen E, Knight R, Huttley GA, Gregory Caporaso J. Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin. Microbiome 2018;6:90. [PMID: 29773078 PMCID: PMC5956843 DOI: 10.1186/s40168-018-0470-z] [Citation(s) in RCA: 3002] [Impact Index Per Article: 428.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Number Cited by Other Article(s)
101
Duran C, Dupuy C, Agogué H, Duran R, Cravo-Laureau C. Towards a comprehensive view of wetland benthic communities. CURRENT RESEARCH IN MICROBIAL SCIENCES 2025;8:100391. [PMID: 40321238 PMCID: PMC12048814 DOI: 10.1016/j.crmicr.2025.100391] [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] [Indexed: 05/08/2025]  Open
102
Bentanachs R, Miró L, Ramírez-Carrasco P, Sánchez RM, Bernabeu M, Amat C, Alegret M, Pérez-Bosque A, Roglans N, Laguna JC. Mirabegron induces selective changes in the faecal microbiota of HFHFr rats without altering bile acid composition. Front Pharmacol 2025;16:1547749. [PMID: 40297137 PMCID: PMC12034709 DOI: 10.3389/fphar.2025.1547749] [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: 12/18/2024] [Accepted: 03/27/2025] [Indexed: 04/30/2025]  Open
103
Huttunen KL, Malazarte J, Jyväsjärvi J, Lehosmaa K, Muotka T. Temporal Beta Diversity of Bacteria in Streams: Network Position Matters But Differently for Bacterioplankton and Biofilm Communities. MICROBIAL ECOLOGY 2025;88:26. [PMID: 40216640 PMCID: PMC11992004 DOI: 10.1007/s00248-025-02522-3] [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: 01/16/2025] [Accepted: 03/31/2025] [Indexed: 04/14/2025]
104
Brinkerhoff RJ, Pandian J, Leber M, Hauser ID, Gaff HD. Impacts of Tick Parasitism on the Rodent Gut Microbiome. Microorganisms 2025;13:888. [PMID: 40284724 PMCID: PMC12029286 DOI: 10.3390/microorganisms13040888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2025] [Revised: 03/06/2025] [Accepted: 04/08/2025] [Indexed: 04/29/2025]  Open
105
Knoppersen RS, Bose T, Coutinho TA, Hammerbacher A. Inside the Belly of the Beast: Exploring the Gut Bacterial Diversity of Gonipterus sp. n. 2. MICROBIAL ECOLOGY 2025;88:27. [PMID: 40220189 PMCID: PMC11993490 DOI: 10.1007/s00248-025-02524-1] [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: 02/21/2025] [Accepted: 04/02/2025] [Indexed: 04/14/2025]
106
Wu X, Liao H, Zhang X, Ma Z, Fu Z. Unraveling the Impact of Microplastic-Tetracycline Composite Pollution on the Moon Jellyfish Aurelia aurita: Insights from Its Microbiome. Microorganisms 2025;13:882. [PMID: 40284718 PMCID: PMC12029949 DOI: 10.3390/microorganisms13040882] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2025] [Revised: 04/04/2025] [Accepted: 04/09/2025] [Indexed: 04/29/2025]  Open
107
Sonam W, Liu Y, Ren L. Differentiation and Interconnection of the Bacterial Community Associated with Silene nigrescens Along the Soil-To-Plant Continuum in the Sub-Nival Belt of the Qiangyong Glacier. PLANTS (BASEL, SWITZERLAND) 2025;14:1190. [PMID: 40284077 PMCID: PMC12030249 DOI: 10.3390/plants14081190] [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: 02/24/2025] [Revised: 03/26/2025] [Accepted: 03/27/2025] [Indexed: 04/29/2025]
108
Achasova KM, Snytnikova OA, Chanushkina KE, Morozova MV, Tsentalovich YP, Kozhevnikova EN. Baseline abundance of Akkermansia muciniphila and Bacteroides acidifaciens in a healthy state predicts inflammation associated tumorigenesis in the AOM/DSS mouse model. Sci Rep 2025;15:12241. [PMID: 40210644 PMCID: PMC11985942 DOI: 10.1038/s41598-025-96514-5] [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: 01/09/2025] [Accepted: 03/28/2025] [Indexed: 04/12/2025]  Open
109
Wang Z, Gao X, Ji H, Shao M, Ni B, Fei S, Sun L, Chen H, Tan R, Du M, Gu M. Characterization of gut microbiota and metabolites in renal transplant recipients during COVID-19 and prediction of one-year allograft function. J Transl Med 2025;23:420. [PMID: 40211390 PMCID: PMC11987245 DOI: 10.1186/s12967-025-06090-5] [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: 01/06/2025] [Indexed: 04/13/2025]  Open
110
Yun J, Song JS, Yoo JJ, Kweon S, Choi YY, Lim D, Kuk JC, Kim HJ, Park SK. Microbial and Immune Landscape of Malignant Ascites: Insights from Gut, Bladder, and Ascitic Fluid Analyses. Cancers (Basel) 2025;17:1280. [PMID: 40282458 PMCID: PMC12025743 DOI: 10.3390/cancers17081280] [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: 03/06/2025] [Revised: 04/01/2025] [Accepted: 04/07/2025] [Indexed: 04/29/2025]  Open
111
Cavalcante FG, Bandeira LL, Faria CMDA, Mesquita ADFN, de Matos Neto JM, Martins CM, Martins SCS. The Unseen Impacts of Human Footprints: How Land Use Reshapes Actinobacterial Communities in the Brazilian Cerrado. BIOLOGY 2025;14:390. [PMID: 40282255 PMCID: PMC12025010 DOI: 10.3390/biology14040390] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2025] [Revised: 04/04/2025] [Accepted: 04/07/2025] [Indexed: 04/29/2025]
112
Denny JE, Flores JN, Mdluli NV, Abt MC. Standard mouse diets lead to differences in severity in infectious and non-infectious colitis. mBio 2025;16:e0330224. [PMID: 40126017 PMCID: PMC11980566 DOI: 10.1128/mbio.03302-24] [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: 10/22/2024] [Accepted: 02/04/2025] [Indexed: 03/25/2025]  Open
113
Fagerlund A, Møretrø T, Jensen MR, Langsrud S, Moen B. Early detection and population dynamics of Listeria monocytogenes in naturally contaminated drains from a meat processing plant. Front Microbiol 2025;16:1541481. [PMID: 40270812 PMCID: PMC12014604 DOI: 10.3389/fmicb.2025.1541481] [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: 12/07/2024] [Accepted: 03/25/2025] [Indexed: 04/25/2025]  Open
114
Costa JSP, Brandão HV, da Cruz Martins C, Benevides RG, Contreras JCZ, Sparvoli LG, Vanzele PAR, Taddei CR, Vieira TDO, Vieira GO. Intestinal microbiota development in the first week of life of preterm newborns. J Pediatr (Rio J) 2025:S0021-7557(25)00055-5. [PMID: 40158530 DOI: 10.1016/j.jped.2025.02.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/18/2024] [Revised: 02/21/2025] [Accepted: 02/24/2025] [Indexed: 04/02/2025]  Open
115
Arenas-Montes J, Alcala-Diaz JF, Garcia-Fernandez H, Gutierrez-Mariscal FM, Lopez-Moreno A, Luque-Cordoba D, Arenas-de Larriva AP, Torres-Peña JD, Luque RM, Prodam F, Priego-Capote F, Delgado-Lista J, Lopez-Miranda J, Camargo A. A microbiota pattern associated with cardiovascular events in secondary prevention: the CORDIOPREV study. Eur Heart J 2025:ehaf181. [PMID: 40197788 DOI: 10.1093/eurheartj/ehaf181] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/16/2024] [Revised: 08/21/2024] [Accepted: 03/11/2025] [Indexed: 04/10/2025]  Open
116
Lázaro Á, Gómez-Ramírez P, Vila-Donat P, Cimbalo A, Manyes L. Effects of pumpkin and fermented whey on fecal microbiota profile against AFB1 and OTA exposure in Wistar rats. Toxicol Mech Methods 2025:1-13. [PMID: 40129370 DOI: 10.1080/15376516.2025.2484636] [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: 01/16/2025] [Revised: 03/20/2025] [Accepted: 03/21/2025] [Indexed: 03/26/2025]
117
De La Guardia Hidrogo VM, Rummell LM, Swanson KS. Effects of Yeast Products on the Apparent Total Tract Macronutrient Digestibility, Oxidative Stress Markers, Skin Measures, and Fecal Characteristics and Microbiota Populations of Healthy Adult Dogs. Animals (Basel) 2025;15:1046. [PMID: 40218439 PMCID: PMC11987801 DOI: 10.3390/ani15071046] [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: 03/14/2025] [Revised: 04/01/2025] [Accepted: 04/01/2025] [Indexed: 04/14/2025]  Open
118
Plaza-Díaz J, Fernández MF, García F, Chueca N, Fontana L, Álvarez-Mercado AI. Comparison of Three DNA Isolation Methods and Two Sequencing Techniques for the Study of the Human Microbiota. Life (Basel) 2025;15:599. [PMID: 40283154 PMCID: PMC12028492 DOI: 10.3390/life15040599] [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: 02/27/2025] [Revised: 03/21/2025] [Accepted: 04/02/2025] [Indexed: 04/07/2025]  Open
119
Zilberstein NF, Engen PA, Swanson GR, Naqib A, Post Z, Alutto J, Green SJ, Shaikh M, Lawrence K, Adnan D, Zhang L, Voigt RM, Schwartz J, Keshavarzian A. The Bidirectional Effects of Periodontal Disease and Oral Dysbiosis on Gut Inflammation in Inflammatory Bowel Disease. J Crohns Colitis 2025;19:jjae162. [PMID: 39447062 PMCID: PMC12041420 DOI: 10.1093/ecco-jcc/jjae162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/06/2024] [Indexed: 10/26/2024]
120
Adam-Beyer N, Deusner C, Schmidt M, Perner M. Microbial hydrogen oxidation potential in seasonally hypoxic Baltic Sea sediments. Front Microbiol 2025;16:1565157. [PMID: 40256623 PMCID: PMC12007115 DOI: 10.3389/fmicb.2025.1565157] [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: 01/22/2025] [Accepted: 03/20/2025] [Indexed: 04/22/2025]  Open
121
Olson EG, Dittoe DK, Chaney WE, Binnebose AM, Ricke SC. Potential of saccharomyces cerevisiae fermentation-derived postbiotic technology in mitigating multiple drug-resistant Salmonella enterica serovars in an in vitro broiler cecal model. PLoS One 2025;20:e0320977. [PMID: 40179087 PMCID: PMC11967930 DOI: 10.1371/journal.pone.0320977] [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: 12/12/2024] [Accepted: 02/27/2025] [Indexed: 04/05/2025]  Open
122
Schenkelaars N, Wekema L, Faas MM, Steegers-Theunissen RP, Schoenmakers S. Protocol of the PROMOTE study: characterization of the microbiome, the immune response, and one-carbon metabolism in preconceptional and pregnant women with and without obesity (an observational subcohort of the Rotterdam Periconception cohort). PLoS One 2025;20:e0319618. [PMID: 40173397 PMCID: PMC11964453 DOI: 10.1371/journal.pone.0319618] [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: 09/19/2024] [Accepted: 02/04/2025] [Indexed: 04/04/2025]  Open
123
Jonjić A, Dolanc I, Slivšek G, Bočkor L, Tarle M, Mustapić S, Kmet M, Orehovec B, Kučan Brlić P, Cokarić Brdovčak M, Obad A, Walenta M, Dražić I, Bilić-Zulle L, Lukšić I, Bulić N, Goessler W, Jonjić S, Čoklo M, Žučko J. Relationship Between Gut Microbiota and the Clinical Course of COVID-19 Disease. Viruses 2025;17:520. [PMID: 40284963 PMCID: PMC12031135 DOI: 10.3390/v17040520] [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: 10/03/2024] [Revised: 03/26/2025] [Accepted: 03/27/2025] [Indexed: 04/29/2025]  Open
124
Deng Z, Yang W, Lin T, Wang Y, Hua X, Jiang X, Chen J, Liu D, Ye Z, Zhang Y, Lynch M, Long H, Pan J. Multidimensional insights into the biodiversity of Streptomyces in soils of China: a pilot study. Microbiol Spectr 2025;13:e0169224. [PMID: 40172189 PMCID: PMC12054067 DOI: 10.1128/spectrum.01692-24] [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: 07/10/2024] [Accepted: 02/11/2025] [Indexed: 04/04/2025]  Open
125
Seo CW, Yoo S, Cho Y, Kim JS, Steinegger M, Lim YW. FunVIP: Fungal Validation and Identification Pipeline based on phylogenetic analysis. J Microbiol 2025;63:e2411017. [PMID: 40313148 DOI: 10.71150/jm.2411017] [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: 11/12/2024] [Accepted: 01/20/2025] [Indexed: 05/03/2025]
126
Lan Q, Wu X, Liu Q, Liang Q, He X, Zhu B. Integrating temporal dynamics of both microbial taxonomic and functional characteristics as a tool for forensic time since deposition estimation. Forensic Sci Int 2025;369:112406. [PMID: 40009954 DOI: 10.1016/j.forsciint.2025.112406] [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: 12/24/2024] [Revised: 01/28/2025] [Accepted: 02/10/2025] [Indexed: 02/28/2025]
127
Wang X, Ding Y, Zhang X, Feng Y, Li C, Ge Y, Yang Y, Su J, Chu X. The effects of degraded polysaccharides from Acanthopanax senticosus on growth, antioxidant and immune effects in broiler chicks based on intestinal flora. Poult Sci 2025;104:104933. [PMID: 40010047 PMCID: PMC11910097 DOI: 10.1016/j.psj.2025.104933] [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: 12/11/2024] [Revised: 02/15/2025] [Accepted: 02/19/2025] [Indexed: 02/28/2025]  Open
128
dos Reis JBA, de Oliveira TMR, Sartori da Silva MRS, Lopes FAC, de Paula AM, Pontes NDC, do Vale HMM. Different Land Use Systems in the Brazilian Cerrado and Their Effects on Soil Bacterial Communities. Microorganisms 2025;13:804. [PMID: 40284640 PMCID: PMC12029540 DOI: 10.3390/microorganisms13040804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2025] [Revised: 03/20/2025] [Accepted: 03/22/2025] [Indexed: 04/29/2025]  Open
129
Speer KA, Víquez‐R L, Frick WF, Ibarra A, Simmons NB, Dittmar K, Calderón RS, Preciado R, Medellín R, Tschapka M, Sommer S, Perkins SL. Comparative Community Ecology Reveals Conserved Ectoparasite Microbiomes Amidst Variable Host and Environment Microbiomes. Ecol Evol 2025;15:e71120. [PMID: 40177692 PMCID: PMC11962207 DOI: 10.1002/ece3.71120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2024] [Revised: 02/15/2025] [Accepted: 02/26/2025] [Indexed: 04/05/2025]  Open
130
Pastor-López EJ, Escolà Casas M, Hellman D, Müller JA, Matamoros V. Impact of riverbed renaturalization on the attenuation of antibiotics and antimicrobial resistance in wastewater effluent-dominated streams. ENVIRONMENTAL RESEARCH 2025;270:120910. [PMID: 39880113 DOI: 10.1016/j.envres.2025.120910] [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: 11/15/2024] [Revised: 01/17/2025] [Accepted: 01/19/2025] [Indexed: 01/31/2025]
131
McHugh RE, Rooney LM, Mark DR, Wale KR, Clapperton M, McConnell G, Hoskisson PA, Douce GR, Roe AJ. Evaluating the protective effects of Aurodox in a murine model of Shiga toxin-producing Escherichia coli. NPJ ANTIMICROBIALS AND RESISTANCE 2025;3:23. [PMID: 40169888 PMCID: PMC11962119 DOI: 10.1038/s44259-025-00094-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2024] [Accepted: 03/14/2025] [Indexed: 04/03/2025]
132
Thakur BK, Malaise Y, Choudhury SR, Neustaeter A, Turpin W, Streutker C, Copeland J, Wong EOY, Navarre WW, Guttman DS, Jobin C, Croitoru K, Martin A. Dietary fibre counters the oncogenic potential of colibactin-producing Escherichia coli in colorectal cancer. Nat Microbiol 2025;10:855-870. [PMID: 40033140 DOI: 10.1038/s41564-025-01938-4] [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: 08/05/2024] [Accepted: 01/14/2025] [Indexed: 03/05/2025]
133
Kovynev A, Charchuta MM, Begtašević A, Ducarmon QR, Rensen PCN, Schönke M. Combination of dietary fiber and exercise training improves fat loss in mice but does not ameliorate MASLD more than exercise alone. Am J Physiol Gastrointest Liver Physiol 2025;328:G399-G410. [PMID: 40033967 DOI: 10.1152/ajpgi.00317.2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/03/2024] [Revised: 01/02/2025] [Accepted: 02/20/2025] [Indexed: 03/05/2025]
134
Ding J, Gou W, Ma M, Cui Y, Lyu B, Xu J, Wang Z, Zhao Q, Li Y, Hou W. Investigation of the fingerprint-activity relationship of Tremella fuciformis polysaccharides and its mitigating effect on radiation-induced intestinal injury. Int J Biol Macromol 2025;304:140849. [PMID: 39938826 DOI: 10.1016/j.ijbiomac.2025.140849] [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: 11/25/2024] [Revised: 01/17/2025] [Accepted: 02/08/2025] [Indexed: 02/14/2025]
135
Skičková Š, Kratou M, Svobodová K, Maitre A, Abuin-Denis L, Wu-Chuang A, Obregón D, Said MB, Majláthová V, Krejčí A, Cabezas-Cruz A. Functional redundancy and niche specialization in honeybee and Varroa microbiomes. Int Microbiol 2025;28:795-810. [PMID: 39172274 DOI: 10.1007/s10123-024-00582-y] [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: 06/19/2024] [Revised: 08/07/2024] [Accepted: 08/13/2024] [Indexed: 08/23/2024]
136
Shahmohamadloo RS, Gabidulin AR, Andrews ER, Fryxell JM, Rudman SM. A test for microbiome-mediated rescue via host phenotypic plasticity in Daphnia. Proc Biol Sci 2025;292:20250365. [PMID: 40199359 PMCID: PMC11978444 DOI: 10.1098/rspb.2025.0365] [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: 02/07/2025] [Revised: 03/14/2025] [Accepted: 03/14/2025] [Indexed: 04/10/2025]  Open
137
Freitas JA, Nehmi Filho V, Santamarina AB, Murata GM, Franco LAM, Fonseca JV, Martins RC, Souza GA, Benicio G, Sabbag IM, de Souza EA, Otoch JP, Pessoa AFM. Nutraceutical supplement slim reshaped colon histomorphology and reduces Mucispirillum schaedleri in obese mice. Front Microbiol 2025;16:1494994. [PMID: 40236479 PMCID: PMC11997693 DOI: 10.3389/fmicb.2025.1494994] [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: 09/24/2024] [Accepted: 02/28/2025] [Indexed: 04/17/2025]  Open
138
Sweeney CJ, Bottoms M, Kaushik R, Aderjan E, Sherborne N. Functional versus compositional tests in the risk assessment of the impacts of pesticides on the soil microbiome. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2025;44:1120-1133. [PMID: 39987504 DOI: 10.1093/etojnl/vgaf012] [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: 10/07/2024] [Revised: 12/18/2024] [Accepted: 12/19/2024] [Indexed: 02/25/2025]
139
Li J, Sun W, Cao Y, Wu J, Duan L, Zhang M, Luo X, Deng Q, Peng Z, Mou X, Li W, Wang P. Increased temperature enhances microbial-mediated lignin decomposition in river sediment. MICROBIOME 2025;13:89. [PMID: 40170118 PMCID: PMC11959967 DOI: 10.1186/s40168-025-02076-z] [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] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 03/04/2025] [Indexed: 04/03/2025]
140
Zhao M, Xiong S, Du T, Xu X, Li H, Zhang L, Xu Y, Wei T, Ren H, Xiong T, Xie M. Analysis of the quality and bacterial composition of spicy cabbage between Liaoning and Yanbian in northeastern China based on flavoromics and amplicon sequencing. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2025. [PMID: 40164994 DOI: 10.1002/jsfa.14250] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2025] [Revised: 03/10/2025] [Accepted: 03/13/2025] [Indexed: 04/02/2025]
141
Wang P, Li H, Zhang X, Wang X, Sun W, Zhang X, Chi B, Go Y, Chan XHF, Wu J, Huang Q. Microecology in vitro model replicates the human skin microbiome interactions. Nat Commun 2025;16:3085. [PMID: 40164644 PMCID: PMC11958821 DOI: 10.1038/s41467-025-58377-2] [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: 05/06/2024] [Accepted: 03/20/2025] [Indexed: 04/02/2025]  Open
142
Lee TY, Liao YC, Chang HT, Lin HC, Weng HM, Chang IJ, Young SL, Shen PC, Bhattarai BP, Lin JS, Lee JW. Inclusion of Multi-Strained Probiotics Improves the Fecal Microbiota and Carcass Quality of Pigs. Animals (Basel) 2025;15:993. [PMID: 40218386 PMCID: PMC11987732 DOI: 10.3390/ani15070993] [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: 02/14/2025] [Revised: 03/25/2025] [Accepted: 03/28/2025] [Indexed: 04/14/2025]  Open
143
Li S, Peng Y, Li M, Li X, Li H, Dabu X, Yang Y. Different active exogenous carbons improve the yield and quality of roses by shaping different bacterial communities. Front Microbiol 2025;16:1558322. [PMID: 40226102 PMCID: PMC11985833 DOI: 10.3389/fmicb.2025.1558322] [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: 01/10/2025] [Accepted: 03/14/2025] [Indexed: 04/15/2025]  Open
144
Nieciecki VF, Blum FC, Johnson RC, Testerman TL, McAvoy TJ, King MC, Gushchin V, Whitmire JM, Frey KG, Glang L, Peña-Gomez D, Bishop-Lilly KA, Sardi A, Merrell DS, Metcalf JL. Cross-laboratory replication of pseudomyxoma peritonei tumor microbiome reveals reproducible microbial signatures. mSphere 2025;10:e0065224. [PMID: 39976448 PMCID: PMC11934312 DOI: 10.1128/msphere.00652-24] [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: 07/31/2024] [Accepted: 01/21/2025] [Indexed: 02/21/2025]  Open
145
Khan MM, Mushtaq MA, Suleman M, Ahmed U, Ashraf MF, Aslam R, Mohsin M, Rödiger S, Sarwar Y, Schierack P, Ali A. Fecal microbiota landscape of commercial poultry farms in Faisalabad, Pakistan: A 16S rRNA gene-based metagenomics study. Poult Sci 2025;104:105089. [PMID: 40187012 PMCID: PMC12002918 DOI: 10.1016/j.psj.2025.105089] [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: 02/07/2025] [Revised: 03/21/2025] [Accepted: 03/21/2025] [Indexed: 04/07/2025]  Open
146
Wong MK, Boukhaled GM, Armstrong E, Liu R, Heirali AA, Yee NR, Tsang J, Spiliopoulou P, Schneeberger PHH, Wang BX, Cochrane K, Sherriff K, Allen-Vercoe E, Siu LL, Spreafico A, Coburn B. Microbial Ecosystem Therapeutics 4 (MET4) elicits treatment-specific IgG responses associated with changes in gut microbiota in immune checkpoint inhibitor recipients with advanced solid tumors. J Immunother Cancer 2025;13:e010681. [PMID: 40121033 PMCID: PMC11979602 DOI: 10.1136/jitc-2024-010681] [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: 09/26/2024] [Accepted: 03/06/2025] [Indexed: 03/25/2025]  Open
147
Delicati A, Marcante B, Catelan D, Biggeri A, Caenazzo L, Tozzo P. Hand-to-surface bacterial transfer and healthcare-associated infections prevention: a pilot study on skin microbiome in a molecular biology laboratory. Front Med (Lausanne) 2025;12:1546298. [PMID: 40190580 PMCID: PMC11970135 DOI: 10.3389/fmed.2025.1546298] [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: 12/16/2024] [Accepted: 03/06/2025] [Indexed: 04/09/2025]  Open
148
Zhang Z, Li Y, Zhang D, Chen S, Lu S, Wang K, Zhou M, Song Z, Li Q, Yin J, Liu X. FACdb: a comprehensive resource for genes, gut microbiota, and metabolites in farm animals. Front Microbiol 2025;16:1557285. [PMID: 40190740 PMCID: PMC11968756 DOI: 10.3389/fmicb.2025.1557285] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2025] [Accepted: 02/28/2025] [Indexed: 04/09/2025]  Open
149
Cano-Argüelles AL, Wu-Chuang A, Mateos-Hernandez L, Abuin-Denis L, Maitre A, Avellanet J, García A, Fuentes D, Cabezas-Cruz A. Protocol to study the impact of breast cancer on colonization resistance of mouse microbiota using network node manipulation. STAR Protoc 2025;6:103618. [PMID: 39921860 PMCID: PMC11851282 DOI: 10.1016/j.xpro.2025.103618] [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: 10/07/2024] [Revised: 11/24/2024] [Accepted: 01/13/2025] [Indexed: 02/10/2025]  Open
150
Ko MJ, Liao CH, Chiu YL, Tsai WC, Yang JY, Pai MF, Tsai PH, Hsu SP, Peng YS, Wu HY. Gut microbial signatures associated with uremic pruritus in hemodialysis patients. JOURNAL OF MICROBIOLOGY, IMMUNOLOGY, AND INFECTION = WEI MIAN YU GAN RAN ZA ZHI 2025:S1684-1182(25)00072-6. [PMID: 40155303 DOI: 10.1016/j.jmii.2025.03.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2024] [Revised: 02/09/2025] [Accepted: 03/15/2025] [Indexed: 04/01/2025]
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