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Select item 119216651.

Exploring the female genital tract mycobiome in young South African women using metaproteomics

Tamlyn K. Gangiah, Arghavan Alisoltani, Matthys Potgieter, Liam Bell, Elizabeth Ross, Arash Iranzadeh, Zac McDonald, Imane Allali, Smritee Dabee, Shaun Barnabas, Jonathan M. Blackburn, David L. Tabb, Linda-Gail Bekker, Heather B. Jaspan, Jo-Ann S. Passmore, Nicola Mulder, Lindi Masson

Microbiome. 2025; 13: 76. Published online 2025 Mar 19. doi: 10.1186/s40168-025-02066-1

PMCID:: PMC11921665

Article PDF–4.6M

Select item 119216292.

MicrobeRX: a tool for enzymatic-reaction-based metabolite prediction in the gut microbiome

Angel J. Ruiz-Moreno, Ángela Del Castillo-Izquierdo, Isabel Tamargo-Rubio, Jingyuan Fu

Microbiome. 2025; 13: 78. Published online 2025 Mar 19. doi: 10.1186/s40168-025-02070-5

PMCID:: PMC11921629

Article PDF–5.9M

Select item 118921843.

Comprehensive profiling of genomic invertons in defined gut microbial community reveals associations with intestinal colonization and surface adhesion

Xiaofan Jin, Alice G. Cheng, Rachael B. Chanin, Feiqiao B. Yu, Alejandra Dimas, Marissa Jasper, Allison Weakley, Jia Yan, Ami S. Bhatt, Katherine S. Pollard

Microbiome. 2025; 13: 71. Published online 2025 Mar 10. doi: 10.1186/s40168-025-02052-7

PMCID:: PMC11892184

Article PDF–2.3M

Select item 118898544.

Correction: Seed microbiomes promote Astragalus mongholicus seed germination through pathogen suppression and cellulose degradation

Da Li, Weimin Chen, Wen Luo, Haofei Zhang, Yang Liu, Duntao Shu, Gehong Wei

Microbiome. 2025; 13: 70. Published online 2025 Mar 8. doi: 10.1186/s40168-025-02057-2

Corrects:: Microbiome. 2025; 13: 23.

PMCID:: PMC11889854

Correction PDF–559K

Select item 118870965.

DRAMMA: a multifaceted machine learning approach for novel antimicrobial resistance gene detection in metagenomic data

Ella Rannon, Sagi Shaashua, David Burstein

Microbiome. 2025; 13: 67. Published online 2025 Mar 7. doi: 10.1186/s40168-025-02055-4

PMCID:: PMC11887096

Article PDF–2.9M

Select item 118716806.

Deciphering the coordinated roles of the host genome, duodenal mucosal genes, and microbiota in regulating complex traits in chickens

Fangren Lan, Xiqiong Wang, Qianqian Zhou, Xiaochang Li, Jiaming Jin, Wenxin Zhang, Chaoliang Wen, Guiqin Wu, Guangqi Li, Yiyuan Yan, Ning Yang, Congjiao Sun

Microbiome. 2025; 13: 62. Published online 2025 Mar 1. doi: 10.1186/s40168-025-02054-5

PMCID:: PMC11871680

Article PDF–8.9M

Select item 118695857.

Microbiota-derived urolithin A in monoclonal gammopathies and multiple myeloma therapy

Alba Rodríguez-García, Raquel Ancos-Pintado, Roberto García-Vicente, Alejandra Ortiz-Ruiz, Andrés Arroyo, Miguel Ángel Navarro, María Luz Morales, Patricia Guevara-Ramirez, Pablo Justo, Nieves López-Muñoz, José Sánchez-Pina, Rafael Alonso, María Victoria Selma, María Dolores Frutos-Lisón, Rocío García-Villalba, Francisco A. Tomás-Barberán, Rosa Ayala, Joaquín Martínez-López, María Linares

Microbiome. 2025; 13: 56. Published online 2025 Feb 28. doi: 10.1186/s40168-025-02045-6

PMCID:: PMC11869585

Article PDF–4.8M

Select item 118695718.

Roux-en-Y gastric bypass-associated fecal tyramine promotes colon cancer risk via increased DNA damage, cell proliferation, and inflammation

Maria Glymenaki, Sophie Curio, Smeeta Shrestha, Qi Zhong, Laura Rushton, Rachael Barry, Mona El-Bahrawy, Julian R. Marchesi, Yulan Wang, Nigel J. Gooderham, Nadia Guerra, Jia V. Li

Microbiome. 2025; 13: 60. Published online 2025 Feb 28. doi: 10.1186/s40168-025-02049-2

PMCID:: PMC11869571

Article PDF–5.3M

Select item 118694819.

An in vitro model demonstrating homeostatic interactions between reconstructed human gingiva and a saliva-derived multispecies biofilm

Lin Shang, Sanne Roffel, Vera Slomka, Eleanor M. D’Agostino, Aline Metris, Mark J. Buijs, Bernd W. Brandt, Dongmei Deng, Susan Gibbs, Bastiaan P. Krom

Microbiome. 2025; 13: 58. Published online 2025 Feb 28. doi: 10.1186/s40168-025-02033-w

PMCID:: PMC11869481

Article PDF–3.3M

Select item 1183766610.

Correction: Live Akkermansia muciniphila boosts dendritic cell retinoic acid synthesis to modulate IL-22 activity and mitigate colitis in mice

Hongbin Liu, Ruo Huang, Binhai Shen, Chongyang Huang, Qian Zhou, Jiahui Xu, Shengbo Chen, Xinlong Lin, Jun Wang, Xinmei Zhao, Yandong Guo, Xiuyun Ai, Yangyang Liu, Ye Wang, Wendi Zhang, Fachao Zhi

Microbiome. 2025; 13: 54. Published online 2025 Feb 19. doi: 10.1186/s40168-025-02060-7

Corrects:: Microbiome. 2024; 12: 275.

PMCID:: PMC11837666

Correction PDF–608K

Select item 1182954711.

Correction: Aerobic anoxygenic phototrophs play important roles in nutrient cycling within cyanobacterial Microcystis bloom microbiomes

Haiyuan Cai, Christopher J. McLimans, Helong Jiang, Feng Chen, Lee R. Krumholz, K. David Hambright

Microbiome. 2025; 13: 53. Published online 2025 Feb 15. doi: 10.1186/s40168-025-02056-3

Corrects:: Microbiome. 2024; 12: 88.

PMCID:: PMC11829547

Correction PDF–560K

Select item 1181729912.

The impact of regular sauerkraut consumption on the human gut microbiota: a crossover intervention trial

Nelly Schropp, Alexander Bauer, Virginie Stanislas, Kun D. Huang, Till-Robin Lesker, Agata Anna Bielecka, Till Strowig, Karin B. Michels

Microbiome. 2025; 13: 52. Published online 2025 Feb 12. doi: 10.1186/s40168-024-02016-3

PMCID:: PMC11817299

Article PDF–2.7M

Select item 1181717813.

PhyloFunc: phylogeny-informed functional distance as a new ecological metric for metaproteomic data analysis

Luman Wang, Caitlin M. A. Simopoulos, Joeselle M. Serrana, Zhibin Ning, Yutong Li, Boyan Sun, Jinhui Yuan, Daniel Figeys, Leyuan Li

Microbiome. 2025; 13: 50. Published online 2025 Feb 11. doi: 10.1186/s40168-024-02015-4

PMCID:: PMC11817178

Article PDF–2.0M

Select item 1180408614.

Bacterial community assembly of specific pathogen-free neonatal mice

Elizabeth A. Kennedy, James S. Weagley, Andrew H. Kim, Avan Antia, Anna L. DeVeaux, Megan T. Baldridge

Microbiome. 2025; 13: 46. Published online 2025 Feb 7. doi: 10.1186/s40168-025-02043-8

PMCID:: PMC11804086

Article PDF–5.1M

Select item 1180397315.

Fecal microbiota transplantation modulates jejunal host-microbiota interface in weanling piglets

Shankumar Mooyottu, Muhammed Shafeekh Muyyarikkandy, Farnaz Yousefi, Ganwu Li, Orhan Sahin, Eric Burrough, Joy Scaria, Brett Sponseller, Alejandro Ramirez

Microbiome. 2025; 13: 45. Published online 2025 Feb 7. doi: 10.1186/s40168-025-02042-9

PMCID:: PMC11803973

Article PDF–7.6M

Select item 1180397016.

Correction: An integrated microbiome- and metabolome-genome-wide association study reveals the role of heritable ruminal microbial carbohydrate metabolism in lactation performance in Holstein dairy cows

Chenguang Zhang, Huifeng Liu, Xingwei Jiang, Zhihong Zhang, Xinfeng Hou, Yue Wang, Dangdang Wang, Zongjun Li, Yangchun Cao, Shengru Wu, Sharon A. Huws, Junhu Yao

Microbiome. 2025; 13: 47. Published online 2025 Feb 7. doi: 10.1186/s40168-025-02040-x