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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)
1
Katona BW, Shukla A, Hu W, Nyul T, Dudzik C, Arvanitis A, Clay D, Dungan M, Weber M, Tu V, Hao F, Gan S, Chau L, Buchner AM, Falk GW, Jaffe DL, Ginsberg G, Palmer SN, Zhan X, Patterson AD, Bittinger K, Ni J. Microbiota and metabolite-based prediction tool for colonic polyposis with and without a known genetic driver. Gut Microbes 2025;17:2474141. [PMID: 40069167 PMCID: PMC11913376 DOI: 10.1080/19490976.2025.2474141] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/16/2024] [Revised: 01/22/2025] [Accepted: 02/25/2025] [Indexed: 03/19/2025]  Open
2
Organski AC, Rajwa B, Reddivari A, Jorgensen JS, Cross TWL. Gut microbiome-driven regulation of sex hormone homeostasis: a potential neuroendocrine connection. Gut Microbes 2025;17:2476562. [PMID: 40071861 PMCID: PMC11913384 DOI: 10.1080/19490976.2025.2476562] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/02/2024] [Revised: 12/17/2024] [Accepted: 03/03/2025] [Indexed: 03/19/2025]  Open
3
Zhang W, Xiong W, Wang M, Zhao D, Guo X, Zhan A. Vertical exchange versus horizontal dispersal in structuring local planktonic and sedimentary bacterial communities in polluted lotic ecosystems. J Environ Sci (China) 2025;156:859-870. [PMID: 40412982 DOI: 10.1016/j.jes.2024.10.032] [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: 07/19/2024] [Revised: 10/22/2024] [Accepted: 10/30/2024] [Indexed: 05/27/2025]
4
Peng Q, Zhou H, Zheng H, Xie G. Investigating the role of primary fungi in Huangjiu fermentation: Insights from flavor orientation and synthetic microbiomes. Food Microbiol 2025;129:104765. [PMID: 40086991 DOI: 10.1016/j.fm.2025.104765] [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: 10/25/2024] [Revised: 02/16/2025] [Accepted: 03/03/2025] [Indexed: 03/16/2025]
5
Li B, Liang C, Xu B, Song P, Liu D, Zhang J, Gu H, Jiang F, Gao H, Cai Z, Zhang T. Extreme winter environment dominates gut microbiota and metabolome of white-lipped deer. Microbiol Res 2025;297:128182. [PMID: 40252261 DOI: 10.1016/j.micres.2025.128182] [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: 07/25/2024] [Revised: 03/23/2025] [Accepted: 04/10/2025] [Indexed: 04/21/2025]
6
Liu J, Xu G, Zhao S, He J. Microbiomes of coastal sediments and plastispheres shaped by microplastics and decabrominated diphenyl ether. WATER RESEARCH 2025;280:123417. [PMID: 40112457 DOI: 10.1016/j.watres.2025.123417] [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: 12/03/2024] [Revised: 01/25/2025] [Accepted: 02/28/2025] [Indexed: 03/22/2025]
7
Deng B, Ren Z, Li Q, Zhang Z, Xu C, Wang P, Zhao H, Yuan Q. Black soldier fly larvae mediate Zinc and Chromium transformation through the ZnuCBA and citric acid cycle system. WATER RESEARCH 2025;280:123483. [PMID: 40090144 DOI: 10.1016/j.watres.2025.123483] [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: 12/09/2024] [Revised: 03/09/2025] [Accepted: 03/11/2025] [Indexed: 03/18/2025]
8
Peng H, Zhang Z, Kang X, Zhang Y, Zhang H, Wang Y, Yang D, Zhang J, Wang Y, Cui L, Zhu YG, Ju F. Unveiling gut microbiota and metabolic functions contributed to polyvinyl chloride degradation in Spodoptera frugiperda larvae. JOURNAL OF HAZARDOUS MATERIALS 2025;492:138209. [PMID: 40222058 DOI: 10.1016/j.jhazmat.2025.138209] [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: 02/20/2025] [Revised: 04/04/2025] [Accepted: 04/06/2025] [Indexed: 04/15/2025]
9
Tao M, Ke X, Ma J, Liu L, Qiu Y, Hu Z, Liu F. Dissolved organic matter (DOM) - Driven variations of cadmium mobility and bioavailability in waterlogged paddy soil. JOURNAL OF HAZARDOUS MATERIALS 2025;492:138065. [PMID: 40158508 DOI: 10.1016/j.jhazmat.2025.138065] [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: 02/14/2025] [Revised: 03/20/2025] [Accepted: 03/23/2025] [Indexed: 04/02/2025]
10
Zhao X, Chen A, Gong X, Zhang P, Cui K, Li S, Zhang W, Zhu C, Gang H, Huo J, Xie F, Qin D. Metabolite-mediated responses of phyllosphere microbiota to powdery mildew infection in resistant and susceptible black currant cultivars. HORTICULTURE RESEARCH 2025;12:uhaf092. [PMID: 40371437 PMCID: PMC12077297 DOI: 10.1093/hr/uhaf092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2024] [Accepted: 03/18/2025] [Indexed: 05/16/2025]
11
Jiang T, Ren J, Li D, Luo Y, Huang Y, Gao T, Yang J, Yu J, Liu L, Yuan H. Pseudomonas syringae exacerbates apple replant disease caused by Fusarium. Microbiol Res 2025;296:128124. [PMID: 40054134 DOI: 10.1016/j.micres.2025.128124] [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: 12/20/2024] [Revised: 02/14/2025] [Accepted: 02/24/2025] [Indexed: 04/10/2025]
12
Temovska M, Hegner R, Ortiz-Ardila AE, Usack JG, Angenent LT. Lactate production from lactose-rich wastewater: A comparative study on reactor configurations to maximize conversion rates and efficiencies. WATER RESEARCH 2025;278:123365. [PMID: 40022799 DOI: 10.1016/j.watres.2025.123365] [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: 10/15/2024] [Revised: 02/13/2025] [Accepted: 02/21/2025] [Indexed: 03/04/2025]
13
Zhou X, Xiao C, Zhang B, Yang X. Depth-dependent response of soil microbial community and greenhouse gas efflux to polylactic acid microplastics and tidal cycles in a mangrove ecosystem. JOURNAL OF HAZARDOUS MATERIALS 2025;489:137664. [PMID: 39987736 DOI: 10.1016/j.jhazmat.2025.137664] [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: 11/06/2024] [Revised: 01/28/2025] [Accepted: 02/17/2025] [Indexed: 02/25/2025]
14
Barrena-González J, Lloret E, Zornoza R, Lavado-Contador F, Pulido M. Spatial patterns of soil bacterial communities in grazing areas of Southwest Spain. THE SCIENCE OF THE TOTAL ENVIRONMENT 2025;979:179516. [PMID: 40280101 DOI: 10.1016/j.scitotenv.2025.179516] [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: 01/04/2025] [Revised: 03/31/2025] [Accepted: 04/22/2025] [Indexed: 04/29/2025]
15
Chen B, Zeng Y, Wang J, Lei M, Gan B, Wan Z, Wu L, Luo G, Cao S, An T, Zhang Q, Pan K, Jing B, Ni X, Zeng D. Targeted Screening of Fiber Degrading Bacteria with Probiotic Function in Herbivore Feces. Probiotics Antimicrob Proteins 2025;17:1473-1497. [PMID: 38300451 DOI: 10.1007/s12602-024-10215-5] [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] [Accepted: 01/04/2024] [Indexed: 02/02/2024]
16
Shi Z, Zeng W, Liu Z, Yao F, Guo J, Chen Y, Qin Z, Zhang J. Invasive apple snails with their core microbes are underestimated hotspots for disseminating antibiotic resistance genes and virulence factors in aquatic habitats. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2025;385:125575. [PMID: 40339249 DOI: 10.1016/j.jenvman.2025.125575] [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: 01/11/2025] [Revised: 03/19/2025] [Accepted: 04/26/2025] [Indexed: 05/10/2025]
17
Liu H, Xu T, Ye W, Li Y, He K, Zhu Y, Zou X, Ruan H. Urbanisation Affects Millipede Gut Microbiota Communities by Impeding Host Gene Flow. Mol Ecol 2025;34:e17792. [PMID: 40347019 DOI: 10.1111/mec.17792] [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: 06/29/2024] [Revised: 04/11/2025] [Accepted: 04/28/2025] [Indexed: 05/12/2025]
18
Liu Y, Niu Y, Zhou Z, Ma Y, Chen M, Xu N, Zhao F, Sun Y, Chen P. Insight into endophytic microbiota-driven geographical and bioactive signatures toward a novel quality assessment model for Codonopsis Radix. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2025;223:109888. [PMID: 40203555 DOI: 10.1016/j.plaphy.2025.109888] [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: 11/27/2024] [Revised: 04/02/2025] [Accepted: 04/04/2025] [Indexed: 04/11/2025]
19
Nieves-Morales R, Paez-Diaz JA, Rodriguez-Carrio SM, Melendez Martinez G, Rivera-Lopez EO, Rodríguez-Ramos J, García-Arrarás JE, Rios-Velazquez C. Intestinal microbiome profile of the brown rock sea cucumber (Holothuria glaberrima) using ITS and 16S rDNA amplicons from direct mechanical, enzymatic, and chemical metagenomic extraction. Microbiol Resour Announc 2025:e0029325. [PMID: 40434086 DOI: 10.1128/mra.00293-25] [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: 03/28/2025] [Accepted: 05/07/2025] [Indexed: 05/29/2025]  Open
20
Mezhibovsky E, Wu G, Wu Y, Ning Z, Bacalia K, Sadangi S, Patel R, Poulev A, Duran RM, Macor M, Coyle S, Lam YY, Raskin I, Figeys D, Zhao L, Roopchand DE. Grape polyphenols reduce fasting glucose and increase hyocholic acid in healthy humans: a meta-omics study. NPJ Sci Food 2025;9:87. [PMID: 40425565 PMCID: PMC12116990 DOI: 10.1038/s41538-025-00443-6] [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: 12/10/2024] [Accepted: 05/06/2025] [Indexed: 05/29/2025]  Open
21
Castaneda A, Indugu N, Lenker K, Narayan K, Rassler S, Bender J, Baker L, Purandare O, Chai D, Zhao X, Pitta D. Host-specific microbiome-rumination interactions shape methane-yield phenotypes in dairy cattle. mSphere 2025;10:e0009025. [PMID: 40277354 DOI: 10.1128/msphere.00090-25] [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: 02/10/2025] [Accepted: 03/31/2025] [Indexed: 04/26/2025]  Open
22
Benbrik B, Reid TE, Nkir D, Chaouki H, Aallam Y, Clark IM, Mauchline TH, Harris J, Pawlett M, Barakat A, Rchiad Z, Bargaz A. Unlocking the agro-physiological potential of wheat rhizoplane fungi under low P conditions using a niche-conserved consortium approach. JOURNAL OF EXPERIMENTAL BOTANY 2025;76:2320-2337. [PMID: 40000427 DOI: 10.1093/jxb/eraf042] [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: 05/20/2024] [Accepted: 01/30/2025] [Indexed: 02/27/2025]
23
Oz A, Mairesse O, Raikin S, Hanani H, Mor H, Dafny Yelin M, Sharon I. Pear flower and leaf microbiome dynamics during the naturally occurring spread of Erwinia amylovora. mSphere 2025;10:e0001125. [PMID: 40323108 DOI: 10.1128/msphere.00011-25] [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: 01/12/2025] [Accepted: 04/08/2025] [Indexed: 05/28/2025]  Open
24
Jimenez NR, Herman CR, Łaniewski P, Cope E, Lee K, Mahnert ND, Chase DM, Caporaso JG, Herbst-Kralovetz MM. Navigating complexities of polymorphic microbiomes in endometrial cancer. NPJ Biofilms Microbiomes 2025;11:85. [PMID: 40404643 PMCID: PMC12098703 DOI: 10.1038/s41522-025-00690-1] [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: 07/19/2024] [Accepted: 04/01/2025] [Indexed: 05/24/2025]  Open
25
Nieves-Morales R, Paez-Diaz JA, Rivera-Lopez EO, Pérez-Santos N, Borrero-Villabol SJ, Rodríguez-Ramos J, Nieves-Rivera AM, Rios-Velazquez C. Characterization of fungal communities in Puerto Rican caves using internal transcribed spacer sequencing. Microbiol Resour Announc 2025:e0002225. [PMID: 40401940 DOI: 10.1128/mra.00022-25] [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: 01/10/2025] [Accepted: 04/22/2025] [Indexed: 05/23/2025]  Open
26
Olimi E, Duller M, Stangl M, Bickel S, Battisti A, Kusstatscher P, Wicaksono WA, Abdelfattah A, Cernava T, Berg G. Plant microbiome responses to bioinoculants and volatiles. ENVIRONMENTAL MICROBIOME 2025;20:55. [PMID: 40400031 PMCID: PMC12096642 DOI: 10.1186/s40793-025-00715-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/03/2025] [Accepted: 04/24/2025] [Indexed: 05/23/2025]
27
Smahajcsik D, Roager L, Strube ML, Zhang SD, Gram L. Stronger together: harnessing natural algal communities as potential probiotics for inhibition of aquaculture pathogens. Microbiol Spectr 2025:e0042125. [PMID: 40396728 DOI: 10.1128/spectrum.00421-25] [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: 02/20/2025] [Accepted: 03/22/2025] [Indexed: 05/22/2025]  Open
28
Mori-Bazzano L, Nguyen NHA, Sevcu A, Riha J, Fu T, Slaveykova VI, Ibelings BW. Plastic degradation in Lake Geneva: Influence of depth, seasonal shifts, and bacterial community dynamics. THE SCIENCE OF THE TOTAL ENVIRONMENT 2025;983:179615. [PMID: 40398166 DOI: 10.1016/j.scitotenv.2025.179615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2025] [Revised: 04/24/2025] [Accepted: 05/05/2025] [Indexed: 05/23/2025]
29
Uchijima T, Kato S, Tanimoto K, Shiraishi F, Hamamura N, Tokunaga K, Makita H, Kondo M, Ohkuma M, Mitsunobu S. Custom-made medium approach for effective enrichment and isolation of chemolithotrophic iron-oxidizing bacteria. FEMS Microbiol Ecol 2025;101:fiaf051. [PMID: 40328454 PMCID: PMC12089753 DOI: 10.1093/femsec/fiaf051] [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: 11/24/2024] [Revised: 03/29/2025] [Accepted: 05/02/2025] [Indexed: 05/08/2025]  Open
30
Zhang C, Bosma TNP, Atashgahi S, Smidt H. Genome-resolved transcriptomics reveals novel PCE-dehalogenating bacteria from Aarhus Bay sediments. mSystems 2025;10:e0150324. [PMID: 40237482 PMCID: PMC12090745 DOI: 10.1128/msystems.01503-24] [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: 11/14/2024] [Accepted: 03/20/2025] [Indexed: 04/18/2025]  Open
31
Wang J, Su X, Zhang C, Han Z, Wang M. Biodegradation of Benzo(a)pyrene in Contaminated Soil: Plant and Microorganism Contributions from Isotope Tracing. TOXICS 2025;13:405. [PMID: 40423484 DOI: 10.3390/toxics13050405] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2025] [Revised: 05/12/2025] [Accepted: 05/13/2025] [Indexed: 05/28/2025]
32
Jiang H, Zhou C, Liang Z, Wu W, Ahmed T, Gao Q, Liao M, Cao H. Serratia marcescens Sm85 produces dimethyl disulfide defense against rice sheath blight and effects on phyllosphere bacterial community. PEST MANAGEMENT SCIENCE 2025. [PMID: 40370113 DOI: 10.1002/ps.8853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2024] [Revised: 02/18/2025] [Accepted: 04/09/2025] [Indexed: 05/16/2025]
33
Castaño-Jiménez PA, Baltazar-Díaz TA, González-Hernández LA, García-Salcido R, Klimov-Kravtchenko K, Andrade-Villanueva JF, Arellano-Arteaga KJ, Padilla-Sánchez MP, Del Toro-Arreola S, Bueno-Topete MR. Deciphering the Language of Intestinal Microbiota Associated with Sepsis, Organ Failure, and Mortality in Patients with Alcohol-Related Acute-on-Chronic Liver Failure (ACLF): A Pioneer Study in Latin America. Microorganisms 2025;13:1138. [PMID: 40431310 PMCID: PMC12113797 DOI: 10.3390/microorganisms13051138] [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: 04/02/2025] [Revised: 05/05/2025] [Accepted: 05/10/2025] [Indexed: 05/29/2025]  Open
34
Bressa C, González-Soltero R, Tabone M, Clemente-Velasco S, Gálvez BG, Larrosa M. Exploring the relationship between APOEε4 allele and gut microbiota composition and function in healthy adults. AMB Express 2025;15:77. [PMID: 40372527 PMCID: PMC12081816 DOI: 10.1186/s13568-025-01888-4] [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: 04/04/2025] [Accepted: 05/06/2025] [Indexed: 05/16/2025]  Open
35
Argenta N, Clark KF. Shell bacterial community dynamics suggest that American lobster (Homarus americanus) impoundment shell disease is caused by a dysbiosis. J Invertebr Pathol 2025;211:108355. [PMID: 40379204 DOI: 10.1016/j.jip.2025.108355] [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: 03/01/2025] [Revised: 05/05/2025] [Accepted: 05/12/2025] [Indexed: 05/19/2025]
36
Shevchenko AY, Ursalov GI, Eromasova NI, Shelyakin PV, Gelfand MS, Tutukina MN, Abramov AA, Vishnivetskaya TA, Rivkina EM. Microbial diversity of high-elevated fumarole fields, low-biomass communities on the boundary between ice and fire. Sci Rep 2025;15:16600. [PMID: 40360685 PMCID: PMC12075824 DOI: 10.1038/s41598-025-99782-3] [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: 09/19/2024] [Accepted: 04/22/2025] [Indexed: 05/15/2025]  Open
37
Wang JQ, Yu T, Qiu HY, Ji SW, Xu ZQ, Cui QC, Li HF, Liang WF, Feng S, Fu CT, Gao X, Han ZZ, Tian WN, Li JX, Xue SJ. Differential impact of spotted fever group rickettsia and anaplasmosis on tick microbial ecology: evidence from multi-species comparative microbiome analysis. Front Microbiol 2025;16:1589263. [PMID: 40432969 PMCID: PMC12106494 DOI: 10.3389/fmicb.2025.1589263] [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: 03/07/2025] [Accepted: 04/22/2025] [Indexed: 05/29/2025]  Open
38
Xie X, Wang JK, Liu JX, Guan LL, Neves ALA. Temporal microbial colonization on different forages is driven by the rumen environmental conditions. Anim Microbiome 2025;7:46. [PMID: 40355960 PMCID: PMC12067915 DOI: 10.1186/s42523-025-00407-x] [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: 02/06/2025] [Accepted: 04/09/2025] [Indexed: 05/15/2025]  Open
39
Yang H, Zhang X, Wang R, Wang Q, Wang Y, Zhang G, Sun P, Lu B, Wu M, Yan Z. Endophytic fungal community composition and function response to strawberry genotype and disease resistance. PeerJ 2025;13:e19383. [PMID: 40356669 PMCID: PMC12068253 DOI: 10.7717/peerj.19383] [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: 12/10/2024] [Accepted: 04/07/2025] [Indexed: 05/15/2025]  Open
40
Arp AP, Tietjen M, Sagel A, Vasquez M, Quintero G, Bodine D, Saelao P, Hickner PV. Tetracycline has no long-term effects on gut physiology and microbiome of the new world screwworm, Cochliomyia hominivorax, which has positive implications for transgenic male-only rearing systems. G3 (BETHESDA, MD.) 2025;15:jkaf058. [PMID: 40130547 PMCID: PMC12060240 DOI: 10.1093/g3journal/jkaf058] [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: 09/13/2024] [Revised: 02/24/2025] [Accepted: 03/01/2025] [Indexed: 03/26/2025]
41
Mowla S, Farahani L, Tharakan T, Davies R, Correia GDS, Lee YS, Kundu S, Khanjani S, Sindi E, Rai R, Regan L, Khalifa D, Henkel R, Minhas S, Dhillo WS, Ben Nagi J, Bennett P, MacIntyre DA, Jayasena CN. Characterisation and comparison of semen microbiota and bacterial load in men with infertility, recurrent miscarriage, or proven fertility. eLife 2025;13:RP96090. [PMID: 40338640 PMCID: PMC12061474 DOI: 10.7554/elife.96090] [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] [Indexed: 05/09/2025]  Open
42
Wang M, Ao L, Zeng S, Yang J, Wang C, Wang X, Shen C, Sun Y. Improvement of antioxidant capacity and gut microbiota balance in adult zebrafish (Danio rerio) by addition of fermented distillers' dried grains with solubles (DDGS). FISH PHYSIOLOGY AND BIOCHEMISTRY 2025;51:93. [PMID: 40332684 DOI: 10.1007/s10695-025-01511-0] [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: 12/18/2024] [Accepted: 04/29/2025] [Indexed: 05/08/2025]
43
Bergentall M, Tremaroli V, Sun C, Henricsson M, Khan MT, Mannerås Holm L, Olsson L, Bergh PO, Molinaro A, Mardinoglu A, Caesar R, Nieuwdorp M, Bäckhed F. Gut microbiota mediates SREBP-1c-driven hepatic lipogenesis and steatosis in response to zero-fat high-sucrose diet. Mol Metab 2025;97:102162. [PMID: 40345386 DOI: 10.1016/j.molmet.2025.102162] [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: 03/03/2025] [Revised: 04/23/2025] [Accepted: 05/02/2025] [Indexed: 05/11/2025]  Open
44
Gao X, Zhang F, Zhang J, Ma Y, Deng Y, Chen J, Ren Y, Wang H, Zhao B, He Y, Yin J. Host-Microbial Cometabolite Ursodeoxycholic Acid Protects Against Poststroke Cognitive Impairment. J Am Heart Assoc 2025;14:e038862. [PMID: 40265603 DOI: 10.1161/jaha.124.038862] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/20/2024] [Accepted: 03/11/2025] [Indexed: 04/24/2025]
45
Niechcial A, Schwarzfischer M, Wawrzyniak P, Determann M, Pöhlmann D, Wawrzyniak M, Gueguen E, Walker MR, Morsy Y, Atrott K, Wilmink M, Linzmeier L, Spalinger MR, Holowacz S, Leblanc A, Scharl M. Probiotic Administration Modulates Gut Microbiota and Suppresses Tumor Growth in Murine Models of Colorectal Cancer. Int J Mol Sci 2025;26:4404. [PMID: 40362641 PMCID: PMC12072948 DOI: 10.3390/ijms26094404] [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: 03/13/2025] [Revised: 04/14/2025] [Accepted: 04/16/2025] [Indexed: 05/15/2025]  Open
46
Du H, Xu J, Zhang H, Li J, Wang F, Li H, Han S, Gala J, Wang J. Parity-Associated Differences in the Antioxidants and Fecal Microbiota of Bactrian Camels. Vet Sci 2025;12:440. [PMID: 40431533 PMCID: PMC12115554 DOI: 10.3390/vetsci12050440] [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: 04/01/2025] [Revised: 04/24/2025] [Accepted: 04/28/2025] [Indexed: 05/29/2025]  Open
47
Quattrini G, Gatti E, Peretti DE, Aiello M, Chevalier C, Lathuiliere A, Park R, Pievani M, Salvatore M, Scheffler M, Cattaneo A, Frisoni GB, Garibotto V, Marizzoni M. [18F]flutemetamol uptake in the colon of a memory clinic population and its association with brain amyloidosis and the gut microbiota profile: an exploratory study. Eur J Nucl Med Mol Imaging 2025:10.1007/s00259-025-07299-8. [PMID: 40314812 DOI: 10.1007/s00259-025-07299-8] [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: 11/12/2024] [Accepted: 04/17/2025] [Indexed: 05/03/2025]
48
Shibata T, Ohno A, Murakami I, Takakura M, Sasagawa T, Imanishi T, Mikami M. Effect of chemical peeling therapy for treatment of cervical intraepithelial neoplasia on cervicovaginal microbiota. J Appl Microbiol 2025;136:lxaf080. [PMID: 40312781 DOI: 10.1093/jambio/lxaf080] [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: 07/22/2024] [Revised: 03/07/2025] [Accepted: 04/30/2025] [Indexed: 05/03/2025]
49
Lee M, Vindenes HK, Fouladi F, Shigdel R, Ward JM, Peddada SD, London SJ, Bertelsen RJ. Oral microbiota related to allergy in Norwegian adults. THE JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY. GLOBAL 2025;4:100435. [PMID: 40103748 PMCID: PMC11914992 DOI: 10.1016/j.jacig.2025.100435] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/02/2024] [Revised: 12/16/2024] [Accepted: 12/18/2024] [Indexed: 03/20/2025]
50
Zhang W, Luo H, Keung W, Chan Y, Chan K, Xiao X, Li F, Lyu A, Dong C, Xu J. Impact of pectin structural diversity on gut microbiota: A mechanistic exploration through in vitro fermentation. Carbohydr Polym 2025;355:123367. [PMID: 40037737 DOI: 10.1016/j.carbpol.2025.123367] [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: 11/06/2024] [Revised: 01/14/2025] [Accepted: 02/08/2025] [Indexed: 03/06/2025]
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