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Microbial taxonomy

FAVABEAN and FALAPhyl: Open-source pipelines for scalable 16s rRNA microbiome data processing and visualization

Afnan Faridoun, Ramon Carvalho, Jacob Smith, Andrew Gibb, Lavanya Jain, Annie Zhang, Ajay Sran, Johanna Redmond, Mohammad Zubbair Malik, Monica Gibson, Anum Haider, Umar Rekhi, Anjali Bhagirath, Leigha D. Rock, Khaled Altabtbaei

published 07 Apr 2026

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Integrating natural gradients and controlled assays to reveal bacterial responses to cadmium in Theobroma cacao L., soils

Claudia Jaramillo-Mazo, Daniel Bravo, Diego Fernando Villanueva-Mejía, Javier Correa-Alvarez

published 24 Mar 2026

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Exploring anatomical and geographical drivers of the microbiota in wild capybaras (Hydrochoerus hydrochaeris): Baseline Data for zoonotic risk assessment

Milena Camargo, Jorge A. Marín-Sánchez, Plutarco Urbano, Nicolas Luna, Valentina Acevedo Ramírez, Julián A. Rodríguez, Davinzon Martínez, Carlos Porras, Luz H. Patiño, Marina Muñoz, Juan David Ramírez

published 23 Mar 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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Beyond the host: Unveiling the independent microbiome of equine gastrointestinal nematodes

Fabio Gentilini, Tolulope Grace Ogundipe, Maria Elena Turba, Noemi Romagnoli, Carlotta Lambertini, Claudia Pollera, Paola Cremonesi, Laura Stancampiano

published 10 Feb 2026

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Bacterial-archaeal co-occurrence in honey bee gut microbiomes across host species and management regimes

Jian-Ping Ying, Yang-Feng Zou, Tao Jiang, Jia-Li Chang

published 21 Jan 2026

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Evaluation of the soil microbiome of three raised beaches in the Devon Island Lowland, High Arctic, Canada

Laura Maretto, Saptarathi Deb, Andrea Squartini, Giuseppe Concheri, Piergiorgio Stevanato, Serenella Nardi, Stefania Cocco, Giuseppe Corti

published 05 Nov 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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Metagenomic profiling of the insect-specific virome in non-urban mosquitoes (Culicidae: Culicinae) from Colombia’s Northern inter-Andean valleys

Andrés Gómez-Palacio, Howard Junca, Rafael J. Vivero-Gomez, Juan Suaza, Claudia X. Moreno-Herrera, Gloria Cadavid-Restrepo, Dietmar H. Pieper, Sandra Uribe

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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Stabilized and unstabilized sampling methods result in differential fecal 16S rRNA microbial sequencing results

Christopher E. Stamper, Andrew J. Hoisington, Joseph C. Ellis, Christopher A. Lowry, Lisa A. Brenner

published 13 Aug 2025

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Whole genome-based reclassification of several species of the genus Nonomuraea

Noureddine Bouras, Imen Nouioui, Guendouz Dif, Fawzia Chaabane Chaouch, Sherif S. Ebada

published 01 Jul 2025

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Microbiota and Postmenopause: The resilience of intestinal bacteria in the face of female hormonal aging

Thayane Christine Alves da Silva, Jennefer Aparecida Gonçalves Oliveira, Lauro Ângelo Gonçalves de Moraes, Izinara Rosse, Aristóteles Góes-Neto, Vasco Ariston de Carvalho Azevedo, Renata Guerra-Sá

published 18 Jun 2025

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