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Metagenomics

Development of a multiplex ddPCR assay for simultaneous absolute quantification of bacterial, fungal, and human DNA

Guohong Huang, Torrey L. Gallagher, Gregory J. Tsongalis, Joel A. Lefferts

published 20 Feb 2026

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Uncovering the hidden yeast diversity in fermented coffee: Insights from a shotgun metagenomic approach

Katherine Bedoya-Urrego, Aida Esther Peñuela-Martínez, Juan F. Alzate

published 19 Feb 2026

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Multi-modal data to identify key factors influencing lung injury in ARDS patients undergoing invasive mechanical ventilation: A prospective multi-center observational study protocol

Zhimei Duan, Di Lian, Kaifei Wang, Ye Hu, Han Fu, Ruoxuan Wen, Ying Zhao, Xingshuo Hu, Pan Pan, Jianqiao Xu, Jin Chen, Li Xiao, Lin Wang, Xiao Yu, Xiaobo Han, Wuxiang Xie, Fei Xie, Lixin Xie, Zhihai Han

published 23 Jan 2026

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Centriflaken: An automated data analysis pipeline for assembly and in silico analyses of foodborne pathogens from metagenomic samples

Kranti Konganti, Julie A. Kase, Narjol Gonzalez-Escalona

published 23 Dec 2025

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Targeted virome deep sequencing reveals frequent herpesvirus detection in intestinal biopsies of inflammatory bowel disease patients

Jennifer-Natalia Vásquez, Pedro Doncel, Juan Camacho, Estrella Ruiz, Vanessa Recio, David Tarragó

published 11 Dec 2025

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Picoplankton nitrogen guilds in the tropical and subtropical oceans: From the surface to the deep

Juan Rivas-Santisteban, Nuria Fernández-González, Rafael Laso-Pérez, Javier Tamames, Carlos Pedrós-Alió

published 05 Nov 2025

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Metagenomic analysis reveals the abundance changes of bacterial communities and antibiotic resistance genes in the influent and effluent of hospital wastewater

Xu Jia, Jiaojiao Peng, Junhong Lv, Yuanting Li, Ziren Luo, Jing Xiang, Yaqin Hou, Qian Zheng, Bin Han

published 31 Oct 2025

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Gut microbiome signatures in iNPH: Insights from a shotgun metagenomics study

Rahel Park, Claire Chevalier, Silas Kieser, Moira Marizzoni, Arthur Paquis, Stephane Armand, Max Scheffler, Gilles Allali, Frederic Assal, Shahan Momjian, Giovanni B. Frisoni

published 15 Sep 2025

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Exploring extreme environments in Türkiye for novel P450s through metagenomic analysis

Hande Mumcu, Julian Zaugg, Irem Keles, Aycan Kayrav, Nurgul Balci, David R. Nelson, Philip Hugenholtz, Elizabeth M. J. Gillam, Nevin Gul Karaguler

published 08 Sep 2025

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Plastispheres as reservoirs of antimicrobial resistance: Insights from metagenomic analyses across aquatic environments

Ingun Lund Witsø, Amulya Baral, Ann-Katrin Llarena, Marina Aspholm, Mette Myrmel, Yngvild Wasteson

published 03 Sep 2025

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Evaluation of shotgun metagenomics as a diagnostic tool for infectious gastroenteritis

Kjersti Haugum, Anuradha Ravi, Jan Egil Afset, Christina Gabrielsen Ås

published 02 Sep 2025

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Identifying microbial functional guilds performing cryptic organotrophic and lithotrophic redox cycles in anaerobic granular biofilms

Zachary Flinkstrom, Samuel J. Bryson, Bojan Pelivano, Pieter Candry, Kristopher A. Hunt, Mari-Karoliina H. Winkler

published 18 Aug 2025

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The porphyran degradation system is complete, phylogenetically and geographically diverse across the gut microbiota of East Asian populations

Laure Ségurel, Thirumalai Selvi Ulaganathan, Sophie Mathieu, Mélanie Loiodice, Laurent Poulet, Sophie Drouillard, Miroslaw Cygler, William Helbert

published 01 Aug 2025

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