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For: Chen S, Zhou Y, Chen Y, Gu J. fastp: an ultra-fast all-in-one FASTQ preprocessor. Bioinformatics 2019;34:i884-i890. [PMID: 30423086 PMCID: PMC6129281 DOI: 10.1093/bioinformatics/bty560] [Citation(s) in RCA: 13255] [Impact Index Per Article: 2209.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]  Open
Number Cited by Other Article(s)
1
Kumar R, Gandham S, Bhaskar V, Praharaj MR, Maity HK, Sarkar U, Dey B. Transcriptomic insights into Mycobacterium orygis infection-associated pulmonary granulomas reveal multicellular immune networks and tuberculosis biomarkers in cattle. Vet Q 2025;45:1-19. [PMID: 40432328 PMCID: PMC12120866 DOI: 10.1080/01652176.2025.2509503] [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: 12/30/2024] [Revised: 04/11/2025] [Accepted: 05/17/2025] [Indexed: 05/29/2025]  Open
2
Dong X, Xiang Y, Li L, Zhang Y, Wu T. Genomic insights into the rapid rise of Pseudomonas aeruginosa ST463: A high-risk lineage's adaptive strategy in China. Virulence 2025;16:2497901. [PMID: 40320374 PMCID: PMC12051580 DOI: 10.1080/21505594.2025.2497901] [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: 10/01/2024] [Revised: 12/19/2024] [Accepted: 04/17/2025] [Indexed: 05/08/2025]  Open
3
Ryt-Hansen P, George S, Hjulsager CK, Trebbien R, Krog JS, Ciucani MM, Langerhuus SN, DeBeauchamp J, Crumpton JC, Hibler T, Webby RJ, Larsen LE. Rapid surge of reassortant A(H1N1) influenza viruses in Danish swine and their zoonotic potential. Emerg Microbes Infect 2025;14:2466686. [PMID: 39945729 PMCID: PMC11849018 DOI: 10.1080/22221751.2025.2466686] [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: 12/03/2024] [Revised: 02/05/2025] [Accepted: 02/07/2025] [Indexed: 02/22/2025]
4
Jiao Y, Ren J, Xie S, Yuan N, Shen J, Yin H, Wang J, Guo H, Cao J, Wang X, Wu D, Zhou Z, Qi X. Raffinose-metabolizing bacteria impair radiation-associated hematopoietic recovery via the bile acid/FXR/NF-κB signaling pathway. Gut Microbes 2025;17:2488105. [PMID: 40192235 PMCID: PMC11980471 DOI: 10.1080/19490976.2025.2488105] [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: 12/20/2024] [Revised: 03/23/2025] [Accepted: 03/28/2025] [Indexed: 04/11/2025]  Open
5
Fumagalli A, Castells-Nobau A, Trivedi D, Garre-Olmo J, Puig J, Ramos R, Ramió-Torrentà L, Pérez-Brocal V, Moya A, Swann J, Martin-Garcia E, Maldonado R, Fernández-Real JM, Mayneris-Perxachs J. Archaea methanogens are associated with cognitive performance through the shaping of gut microbiota, butyrate and histidine metabolism. Gut Microbes 2025;17:2455506. [PMID: 39910065 PMCID: PMC11810085 DOI: 10.1080/19490976.2025.2455506] [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: 09/30/2024] [Revised: 12/28/2024] [Accepted: 01/13/2025] [Indexed: 02/07/2025]  Open
6
Zou Y, Pu L, Guo A, Li Y, Liu Y, Wang Y, Ding Y, Du X, Guo X, Zhang S, Cai X, Wang S. Helminth reshapes host gut microbiota and immunoregulation by deploying an antimicrobial program of innate immunity. Gut Microbes 2025;17:2496447. [PMID: 40266093 PMCID: PMC12026035 DOI: 10.1080/19490976.2025.2496447] [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: 01/27/2025] [Revised: 03/17/2025] [Accepted: 04/11/2025] [Indexed: 04/24/2025]  Open
7
Akagbosu CO, McCauley KE, Namasivayam S, Romero-Soto HN, O’Brien W, Bacorn M, Bohrnsen E, Schwarz B, Mistry S, Burns AS, Perez-Chaparro PJ, Chen Q, LaPoint P, Patel A, Krausfeldt LE, Subramanian P, Sellers BA, Cheung F, Apps R, Douagi I, Levy S, Nadler EP, Hourigan SK. Gut microbiome shifts in adolescents after sleeve gastrectomy with increased oral-associated taxa and pro-inflammatory potential. Gut Microbes 2025;17:2467833. [PMID: 39971742 PMCID: PMC11845021 DOI: 10.1080/19490976.2025.2467833] [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: 09/26/2024] [Revised: 01/30/2025] [Accepted: 02/10/2025] [Indexed: 02/21/2025]  Open
8
Nakajima A, Arzamasov AA, Sakanaka M, Murakami R, Kozakai T, Yoshida K, Katoh T, Ojima MN, Hirose J, Nagao S, Xiao JZ, Odamaki T, Rodionov DA, Katayama T. In vitro competition with Bifidobacterium strains impairs potentially pathogenic growth of Clostridium perfringens on 2'-fucosyllactose. Gut Microbes 2025;17:2478306. [PMID: 40102238 PMCID: PMC11956901 DOI: 10.1080/19490976.2025.2478306] [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: 10/06/2024] [Revised: 02/23/2025] [Accepted: 03/04/2025] [Indexed: 03/20/2025]  Open
9
Yang Y, Lin W, Li H, Yang F, Bao X, Pan C, Lai L, Lin W, Lin R. Identification of candidate genes affecting egg weight trait of Putian Black duck based on whole genome resequencing. Anim Biotechnol 2025;36:2503754. [PMID: 40380810 DOI: 10.1080/10495398.2025.2503754] [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: 08/08/2024] [Accepted: 05/05/2025] [Indexed: 05/19/2025]
10
Ma L, Lin X, Xu M, Ke X, Liu D, Chen Q. Exploring the biological mechanisms of severe COVID-19 in the elderly: Insights from an aged mouse model. Virulence 2025;16:2487671. [PMID: 40228062 PMCID: PMC12005417 DOI: 10.1080/21505594.2025.2487671] [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: 09/14/2024] [Revised: 02/04/2025] [Accepted: 03/26/2025] [Indexed: 04/16/2025]  Open
11
Jiang S, Huang S, Zhang Z, Ma W, Han Z, Song Y, Huo D, Cui W, Zhang J. Gut microbiota drives structural variation of exogenous probiotics to enhance colonization. Gut Microbes 2025;17:2503371. [PMID: 40349120 PMCID: PMC12068336 DOI: 10.1080/19490976.2025.2503371] [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: 02/25/2025] [Revised: 04/26/2025] [Accepted: 05/02/2025] [Indexed: 05/14/2025]  Open
12
Wang X, Li S, Ou R, Pang W, Wang Y, Zhang Y, Lin Y, Yang C, Chen W, Lei C, Zeng G, Zhou W, Wang Y, Yin J, Zhang H, Jin X, Zhang Y. Wide-spectrum profiling of plasma cell-free RNA and the potential for health-monitoring. RNA Biol 2025;22:1-15. [PMID: 40110666 PMCID: PMC11970758 DOI: 10.1080/15476286.2025.2481736] [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: 10/07/2024] [Revised: 02/10/2025] [Accepted: 03/13/2025] [Indexed: 03/22/2025]  Open
13
You H, Yang B, Liu H, Wu W, Yu F, Lin N, Yang W, Hu B, Liu Y, Zou H, Hao S, Xiao Y, Xu T, Jiang Y. Unravelling distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae. Emerg Microbes Infect 2025;14:2449087. [PMID: 39760260 PMCID: PMC11730683 DOI: 10.1080/22221751.2024.2449087] [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: 03/24/2024] [Revised: 12/04/2024] [Accepted: 12/29/2024] [Indexed: 01/07/2025]
14
Chen A, Teng C, Wei J, Wu X, Zhang H, Chen P, Cai D, Qian H, Zhu H, Zheng X, Chen X. Gut microbial dysbiosis exacerbates long-term cognitive impairments by promoting intestinal dysfunction and neuroinflammation following neonatal hypoxia-ischemia. Gut Microbes 2025;17:2471015. [PMID: 40008452 PMCID: PMC11866968 DOI: 10.1080/19490976.2025.2471015] [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: 06/06/2024] [Revised: 01/12/2025] [Accepted: 02/18/2025] [Indexed: 02/27/2025]  Open
15
Tahira AC, Gomes MPB, Freire MH, Muxfeldt M, Prosdocimi F, Passos YM, Sena Amaral M, Felix Valadão LP, Rangel LP, Silva JL, Verjovski-Almeida S, Cordeiro Y. RNA-seq analyses reveal the relevance of RNAs involved in ribosomal complex to induce mammalian prion protein aggregation and phase separation in vitro. RNA Biol 2025;22:1-16. [PMID: 40438940 PMCID: PMC12123958 DOI: 10.1080/15476286.2025.2508107] [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] [Revised: 04/01/2025] [Accepted: 05/01/2025] [Indexed: 06/02/2025]  Open
16
Li H, Liu H, Wu H, Guo C, Zuo W, Zheng Y, Deng X, Xu J, Wang Y, Wang Z, Lu B, Hou B, Cao B. Reading of human acute immune dynamics in omicron SARS-CoV-2 breakthrough infection. Emerg Microbes Infect 2025;14:2494705. [PMID: 40231451 PMCID: PMC12064115 DOI: 10.1080/22221751.2025.2494705] [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: 12/18/2024] [Revised: 03/19/2025] [Accepted: 04/13/2025] [Indexed: 04/16/2025]
17
Batalha MA, LeCroy MN, Lin J, Peters BA, Qi Q, Wang Z, Wang T, Gallo LC, Talavera GA, McClain AC, Thyagarajan B, Daviglus ML, Hou L, Llabre M, Cai J, Kaplan RC, Isasi CR. Life-course socioeconomic position and the gut microbiome in the Hispanic Community Health Study/Study of Latinos (HCHS/SOL). Gut Microbes 2025;17:2479772. [PMID: 40102030 DOI: 10.1080/19490976.2025.2479772] [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: 07/10/2024] [Revised: 02/03/2025] [Accepted: 03/10/2025] [Indexed: 03/20/2025]  Open
18
Dong J, Mao Z, Li H, Wang R, Wang Y, Jia H, Li J, Liu Q, Zhang C, Liao X, Liu D, Ma H, Tian C. MTD: A cloud-based omics database and interactive platform for Myceliophthora thermophila. Synth Syst Biotechnol 2025;10:783-793. [PMID: 40276250 PMCID: PMC12018684 DOI: 10.1016/j.synbio.2025.04.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2025] [Revised: 03/05/2025] [Accepted: 04/02/2025] [Indexed: 04/26/2025]  Open
19
Kang D, Lu H, Kang T, Zhang Y, Ge Z, Zhang L, Peng Y. Heterogeneous microstructure induces floatation in high-rate anammox granules. WATER RESEARCH X 2025;28:100319. [PMID: 40028193 PMCID: PMC11871469 DOI: 10.1016/j.wroa.2025.100319] [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: 10/17/2024] [Revised: 12/11/2024] [Accepted: 02/09/2025] [Indexed: 03/05/2025]
20
Lee H, Kim Y, Cho Y, Jeon EJ, Jeong SH, Lee JH, Kim S. Nociceptive effects and gene alterations of CMIT/MIT mixture in zebrafish embryos and larvae. JOURNAL OF HAZARDOUS MATERIALS 2025;493:138392. [PMID: 40280059 DOI: 10.1016/j.jhazmat.2025.138392] [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: 02/27/2025] [Revised: 04/22/2025] [Accepted: 04/22/2025] [Indexed: 04/29/2025]
21
Kim CW, Kim HJ, Kang I, Ku KB, Kim Y, Park JH, Lim J, Kang BH, Park WH, La J, Chang S, Hwang I, Kim M, Ahn S, Lee HK. Gut dysbiosis from high-salt diet promotes glioma via propionate-mediated TGF-β activation. J Exp Med 2025;222:e20241135. [PMID: 40402148 PMCID: PMC12097148 DOI: 10.1084/jem.20241135] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2024] [Revised: 03/08/2025] [Accepted: 05/05/2025] [Indexed: 05/23/2025]  Open
22
Zhang Y, He K, Zhang C, Dang H, Hei J, Zhang Y, Chen P, Zhang Z, Yang Y, Wang Z, Yang X, Zhang L, Yu Y. Atlas of temporal molecular pathological alterations after traumatic brain injury based on RNA-Seq. Exp Neurol 2025;390:115270. [PMID: 40268159 DOI: 10.1016/j.expneurol.2025.115270] [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: 12/22/2024] [Revised: 04/01/2025] [Accepted: 04/20/2025] [Indexed: 04/25/2025]
23
Peng Q, Quan L, Zheng H, Li J, Xie G. Analyzing the contribution of top-down and bottom-up methods to the construction of synthetic microbial communities in Jiuyao. Food Microbiol 2025;129:104759. [PMID: 40086988 DOI: 10.1016/j.fm.2025.104759] [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: 10/10/2024] [Revised: 01/16/2025] [Accepted: 02/19/2025] [Indexed: 03/16/2025]
24
Kothe CI, Renault P. Metagenomic driven isolation of poorly culturable species in food. Food Microbiol 2025;129:104722. [PMID: 40086981 DOI: 10.1016/j.fm.2025.104722] [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: 10/30/2024] [Revised: 01/02/2025] [Accepted: 01/02/2025] [Indexed: 03/16/2025]
25
Guan L, Wang P, Li Y, Zhang S. FERONIA interacts with NPL4 to regulate immunity gene mRNA nucleocytoplasmic transport in response to plant immunity. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2025;357:112545. [PMID: 40348341 DOI: 10.1016/j.plantsci.2025.112545] [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: 12/06/2024] [Revised: 05/04/2025] [Accepted: 05/05/2025] [Indexed: 05/14/2025]
26
Dede A, Pérez-Valera E, Elhottová D. Genome analysis of manure and soil-dwelling Acinetobacter strains indicates potential health risks associated with antibiotic resistance and virulence factors. Microb Pathog 2025;205:107610. [PMID: 40252939 DOI: 10.1016/j.micpath.2025.107610] [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: 01/28/2025] [Revised: 04/10/2025] [Accepted: 04/16/2025] [Indexed: 04/21/2025]
27
Ma J, Wu D, Xu C, He Q, Wang M, Imran M, Nazar M, Li K. Lactobacillus salivarius alleviated dextran sulfate sodium (DSS)-induced colitis in mice by mitigating oxidative stress and inflammatory responses through modulation of the intestinal flora. Microb Pathog 2025;205:107696. [PMID: 40355053 DOI: 10.1016/j.micpath.2025.107696] [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: 03/06/2025] [Revised: 05/01/2025] [Accepted: 05/10/2025] [Indexed: 05/14/2025]
28
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]
29
Liu S, Zheng Y, Cui B, Yang J, Yuan B, Cao Y, Zhao Z, Sun Z, Wang Q, Yang X, Pan W, He C. Gut microbiota-derived butyrate alleviates the impairment of mice intestinal integrity caused by Toxoplasma gondii infection. Life Sci 2025;374:123709. [PMID: 40368048 DOI: 10.1016/j.lfs.2025.123709] [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: 01/24/2025] [Revised: 05/04/2025] [Accepted: 05/09/2025] [Indexed: 05/16/2025]
30
Chen Y, Wang R, Zhu Z, Subedi N, Jiang X, Jing M, Huang L. Phylogenomic analyses revealed a new lineage of house mouse (Mus musculus) in Gyirong Basin of Xizang Autonomous Region, China. Mol Phylogenet Evol 2025;209:108370. [PMID: 40339673 DOI: 10.1016/j.ympev.2025.108370] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2024] [Revised: 04/03/2025] [Accepted: 05/04/2025] [Indexed: 05/10/2025]
31
Zhu Y, Zhang X, Tao W, Yang S, Qi H, Zhou Q, Su W, Zhang Y, Dong Y, Gan Y, Lei C, Zhang A. Mitigating the risk of antibiotic resistance and pathogenic bacteria in swine waste: The role of ectopic fermentation beds. JOURNAL OF HAZARDOUS MATERIALS 2025;492:138221. [PMID: 40220395 DOI: 10.1016/j.jhazmat.2025.138221] [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: 01/09/2025] [Revised: 03/21/2025] [Accepted: 04/07/2025] [Indexed: 04/14/2025]
32
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]
33
Ma JY, Liu JH, Chen CZ, Zhang YZ, Guo ZS, Song MP, Jiang F, Chai ZT, Li Z, Lv SX, Zhen YJ, Wang L, Liang ZL, Jiang ZY. Characteristics of microbial carbon pump in the sediment of kelp aquaculture zone and its contribution to recalcitrant dissolved organic carbon turnover: insights into metabolic patterns and ecological functions. ENVIRONMENTAL RESEARCH 2025;277:121559. [PMID: 40228693 DOI: 10.1016/j.envres.2025.121559] [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: 01/15/2025] [Revised: 03/29/2025] [Accepted: 04/05/2025] [Indexed: 04/16/2025]
34
Thomson R, Le C, Wang L, Batstone DJ, Zhou Y, Oehmen A. Higher order volatile fatty acid metabolism and atypical polyhydroxyalkanoate production in fermentation-enhanced biological phosphorus removal. WATER RESEARCH 2025;280:123503. [PMID: 40121909 DOI: 10.1016/j.watres.2025.123503] [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: 05/03/2024] [Revised: 03/11/2025] [Accepted: 03/13/2025] [Indexed: 03/25/2025]
35
Cheng Y, Zheng X, Jiang Y, Xiao Q, Luo Q, Ding Y. Key genes and microbial ecological clusters involved in organophosphate ester degradation in agricultural fields of a typical watershed in southwest China. JOURNAL OF HAZARDOUS MATERIALS 2025;492:138076. [PMID: 40209409 DOI: 10.1016/j.jhazmat.2025.138076] [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: 11/23/2024] [Revised: 03/06/2025] [Accepted: 03/24/2025] [Indexed: 04/12/2025]
36
Matsumoto M, Yoshida M, Oya T, Tsuneyama K, Matsumoto M, Yoshida H. Role of PRC2 in the stochastic expression of Aire target genes and development of mimetic cells in the thymus. J Exp Med 2025;222:e20240817. [PMID: 40244172 PMCID: PMC12005117 DOI: 10.1084/jem.20240817] [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: 05/09/2024] [Revised: 10/10/2024] [Accepted: 03/11/2025] [Indexed: 04/18/2025]  Open
37
Guo M, Wu Y, Huang H, Li S, Zhao L, Cao J, Wang C. Revealing the critical role of rare bacterial communities in shaping antibiotic resistance genes in saline soils through metagenomic analysis. JOURNAL OF HAZARDOUS MATERIALS 2025;491:137848. [PMID: 40068396 DOI: 10.1016/j.jhazmat.2025.137848] [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: 10/29/2024] [Revised: 02/19/2025] [Accepted: 03/03/2025] [Indexed: 05/15/2025]
38
Wang L, Jiang Y, Hao Y, Yu L, Zhao S, Wu H, Long X, Zhang Z, Zhao T, Geng S, Guan X. Integrated transcriptomics and metabolomics analyses reveal jasmonic acid metabolic pathways for improving the chilling tolerance in cotton seedlings. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2025;224:109935. [PMID: 40286456 DOI: 10.1016/j.plaphy.2025.109935] [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: 02/12/2025] [Revised: 04/04/2025] [Accepted: 04/17/2025] [Indexed: 04/29/2025]
39
Song R, Lv B, He Z, Li H, Wang H. Rhizosphere metabolite dynamics in continuous cropping of vineyards: Impact on microflora diversity and co-occurrence networks. Microbiol Res 2025;296:128134. [PMID: 40068342 DOI: 10.1016/j.micres.2025.128134] [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: 10/21/2024] [Revised: 02/09/2025] [Accepted: 03/01/2025] [Indexed: 04/10/2025]
40
Trujillo-Viera J, Wittmann MC, Lam D, Shen Y, Ghosh A, Noé F, Hoffmann A, Viollet C, Dick A, Blüher M, Zhong J, Massier L, Wolfrum C, Klein H, Neubauer H, Hamilton B. Abundance of a metabolically active subpopulation in dedifferentiated adipocytes inversely correlates with body mass index. Mol Metab 2025;97:102161. [PMID: 40348015 PMCID: PMC12145827 DOI: 10.1016/j.molmet.2025.102161] [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: 04/04/2025] [Accepted: 04/29/2025] [Indexed: 05/14/2025]  Open
41
Wang R, Li X, Wang C, Shi Y, Xiong D, Huang D, Wang Z, Ye L. Tight orchestration of wound healing phase through metal-organic compounds. Biomaterials 2025;318:123160. [PMID: 39914195 DOI: 10.1016/j.biomaterials.2025.123160] [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: 08/26/2024] [Revised: 01/08/2025] [Accepted: 01/28/2025] [Indexed: 03/05/2025]
42
Fang F, Gong Z, Guo C, Wang C, Ding L, Zhou B, Chen S. Establishment of an ovarian cell line from tomato grouper (Cephalopholis sonnerati) and its transcriptome response to ISKNV infection. FISH & SHELLFISH IMMUNOLOGY 2025;162:110304. [PMID: 40185294 DOI: 10.1016/j.fsi.2025.110304] [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: 01/22/2025] [Revised: 03/27/2025] [Accepted: 03/30/2025] [Indexed: 04/07/2025]
43
Zheng J, Hu J, Guo R, Lu D, Dai X, Wang R, Jin H, Sun Z, Li J, Chen F, Chen J, Wang P. Early warning on the potential harmful algal bloom species in Beibu Gulf of South China Sea under the background of climate change and human activity. ENVIRONMENTAL RESEARCH 2025;276:121516. [PMID: 40180263 DOI: 10.1016/j.envres.2025.121516] [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: 11/10/2024] [Revised: 03/12/2025] [Accepted: 03/30/2025] [Indexed: 04/05/2025]
44
Jing R, Wu P, Wang P, Zhao X, Baz NM, Wang J, Dong L, Han Y, Chen H, Cao H. The activity annotation of peach glycosyltransferase PpUGT78B based on engineering bacterial anthocyanin biosynthesis. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2025;224:109913. [PMID: 40239249 DOI: 10.1016/j.plaphy.2025.109913] [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: 01/26/2025] [Revised: 04/07/2025] [Accepted: 04/09/2025] [Indexed: 04/18/2025]
45
Zhang H, Pan Y, Wang M, Wang J, Huang J, Ma R, Yang S, Ma W, Yu S, Cui Y. SETD2 regulates oocytes in vitro maturation through histone methylation and maternal mRNA degradation in yak. Theriogenology 2025;240:117387. [PMID: 40120144 DOI: 10.1016/j.theriogenology.2025.117387] [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: 12/09/2024] [Revised: 02/26/2025] [Accepted: 03/10/2025] [Indexed: 03/25/2025]
46
Lian CY, Yao XY, Lv ZH, Zhang XL, Shao JW. Genetic diversity of canine coronavirus identified in dogs in yulin city, southern China. Virology 2025;608:110528. [PMID: 40233446 DOI: 10.1016/j.virol.2025.110528] [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: 09/29/2024] [Revised: 03/27/2025] [Accepted: 04/07/2025] [Indexed: 04/17/2025]
47
Thilén L, Lachenaud O, Thureborn O, Razafimandimbison SG, Rydin C. Phylogeny of Palicoureeae (Rubiaceae) based on 353 low-copy nuclear genes - with particular focus on Hymenocoleus Robbr. Mol Phylogenet Evol 2025;208:108338. [PMID: 40158785 DOI: 10.1016/j.ympev.2025.108338] [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: 01/13/2025] [Revised: 03/18/2025] [Accepted: 03/20/2025] [Indexed: 04/02/2025]
48
Luo W, Yi X, Zhang X, Yuan C, Wei W, Li X, Pu D, Yang J, Zheng H. Taxonomic reassessment of genomes from a divergent population of Streptococcus suis by average nucleotide identity analysis. INFECTION, GENETICS AND EVOLUTION : JOURNAL OF MOLECULAR EPIDEMIOLOGY AND EVOLUTIONARY GENETICS IN INFECTIOUS DISEASES 2025;131:105753. [PMID: 40287079 DOI: 10.1016/j.meegid.2025.105753] [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: 01/18/2025] [Revised: 04/22/2025] [Accepted: 04/23/2025] [Indexed: 04/29/2025]
49
Liang T, Jiang T, Liang Z, Li L, Chen Y, Chen T, Yang L, Zhang N, Dong B, Xie X, Gu B, Wu Q. Gut microbiota-driven BCAA biosynthesis via Staphylococcus aureus -expressed acetolactate synthase impairs glycemic control in type 2 diabetes in South China. Microbiol Res 2025;296:128145. [PMID: 40138872 DOI: 10.1016/j.micres.2025.128145] [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: 06/29/2024] [Revised: 03/12/2025] [Accepted: 03/14/2025] [Indexed: 03/29/2025]
50
Liu M, Wang S, Zhou H, Liu H, Huang D, Liu L, Li Q, Chen H, Lei Y, Jin LN, Zhang W. Thermal environment driving specific microbial species to form the visible biofilms on the UNESCO World Heritage Dazu Rock Carvings. ENVIRONMENTAL RESEARCH 2025;276:121510. [PMID: 40174744 DOI: 10.1016/j.envres.2025.121510] [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: 01/03/2025] [Revised: 03/28/2025] [Accepted: 03/29/2025] [Indexed: 04/04/2025]
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