Results 111 to 120 of about 503,920 (237)

Antarctic endolithic bacterial metagenome-assembled genomes

, 2020
Bacterial assembled genomes and annotation data from the Antarctic cryptoendolithic communities collected during the XXXI (2015-16) Italian Antarctic Expedition. The dataset consists of 4 zip archives and 1 metadata file (tab-separated format).
Davide Albanese, Claudia Coleine, Jason E. Stajich, Claudio Donati, Laura Selbmann   +4 more
core   +1 more source

Data from: Metagenomes and Metagenome-Assembled Genomes from Ex Vivo Fecal Incubations of Six Unique Donors

, 2023
This is a dataset consisting of donor-specific collections of 78 metagenomes (13 / donor) and 143 metagenome-assembled genomes (MAGs) representing the gut microbiomes of six healthy adult human donors.
Jenni Firrman (17484801), LinShu Liu (17484807), Adrienne Narrowe (17362465), Johanna Lemons (17484930), Karley K. Mahalak (17484798)   +4 more
core   +1 more source

Taxonomy bias in metagenome-assembled genome recovery

Microbial Genomics
The recovery of metagenome-assembled genomes (MAGs) from shotgun metagenomic sequencing is rapidly expanding the availability of representative genomes. However, this practice may skew the representation of specific taxa in real-world datasets.
Daniel J. Nebauer, Tiffanie Nelson, Caitlin Romanis, Brett A. Neilan, Verlaine J. Timms   +4 more
openaire   +1 more source

Seasonal Dynamics of Community and Function of Gut Microbiome in Taihangshan Macaque (Macaca mulatta tcheliensis): Inferred From Metagenomic Data

Integrative Zoology, EarlyView.
A total of 435 non‐redundant metagenome‐assembled genomes (MAGs) were obtained from fecal samples of Taihangshan macaque across all four seasons. The alpha diversity of the gut microbiome in spring and winter was significantly higher than in summer and autumn. Furthermore, marked differences were detected in functional pathways and carbohydrate enzymes
Yanyan Zhou, Qi Shao, Chunbo Liu, Jundong Tian, Xiaowen Guan, Xi Zhang, Jiqi Lu   +6 more
wiley   +1 more source

Questioning the Quality of 16S rRNA Gene Sequences Derived From Human Gut Metagenome-Assembled Genomes [PDF]

, 2022
The recent introduction of metagenome-assembled genomes (MAGs) has marked a major milestone in the human gut microbiome field (Almeida et al., 2019; Nayfach et al., 2019; Pasolli et al., 2019).
Rudi, Knut, Furu, Kari, Wilson, Robert Charles, Hiseni, Pranvera, Snipen, Lars Gustav   +4 more
core  

bbsag20 dataset: total 30,851 single-cell genomes, 51 metagenomes, and 1,544 metagenome-assembled genomes from the human oral/gut microbiota

, 2023
READMEThis is the large single amplified genome calatog (bbsag20) corresponding to the publication below:Title: "Single Amplified Genome Catalog Reveals the Dynamics of Mobilome and Resistome in the Human Microbiome" (preprint: https://www.biorxiv.org ...
Masahito Hosokawa (17320261), Tetsuro Kawano-Sugaya (17311120), Tatsuya Saeki (523160), Kazuma Kamata (17324040), Koji Arikawa (17320264), Taruho Endoh (11555365), Ayumi Matsuhashi (11555368)   +6 more
core   +1 more source

A phenotype‐based framework to measure functional redundancy in microbial ecosystems

Methods in Ecology and Evolution, EarlyView.
Abstract Functional redundancy is a key biological concept that offers critical insights into microbial ecosystem stability and responses to environmental perturbations. Existing methods to quantify redundancy typically rely on gene annotations as functional units, limiting their ability to capture complex or partially characterised traits and making ...
Sofia Fraulini, Davide Sanguineti, Guido Zampieri, Laura Treu, Stefano Campanaro   +4 more
wiley   +1 more source

zhouyunyan/PIGC: The construction of reference gene catalog and metagenome-assembled genomes

, 2020
This directory contains scripts related to the manuscript "Expanded catalogue of microbial genes and metagenome-assembled genomes from the pig gut microbiome"
yyz
core   +1 more source

Shotgun Metagenomics Reveals Skin Microbiome Composition and Function in Infant Atopic Disease

Allergy, EarlyView.
Deep shotgun metagenomics profiled > 1000 infant skin swabs in the VITALITY cohort. Distinct skin microbiome signatures separated AD alone from AD with allergic co‐occurrence. Early Staphylococcus enrichment preceded later AD with allergic co‐occurrence. FLG mutations and strain‐level analyses revealed host and microbial features linked to AD.
Zeyang Shen, Jana K. Eckert, Richard Saffery, Katrina J. Allen, Audrey Walsh, VITALITY team, Kirsten Perrett, Katrina J. Allen, Justin Brown, Natalie Carvalho, Nigel Curtis, Kim Daziel, Shyamali Dharmage, Ronda Greaves, Lyle Gurrin, Li Huang, Jennifer Koplin, Katherine Lee, Georgia Paxton, Rachel Peters, Anne‐Louise Ponsonby, Peter Sayre, Mimi Tang, Peter Vuillermin, Melissa Wake, Angela Young, Deborah Anderson, Christine Axelrad, Anna Bourke, Kirsty Bowes, Tim Brettig, Natasha Burgess, Beatriz Camesella‐Perez, Xueyuan Che, Daniela Ciciulla, Jac Cushnahan, Helen Czech, Thanh Dang, Kathryn Dawes, Jana Eckert, Hannah Elborough, Michael Field, Charlie Fink, Sarah Fowler, Grace Gell, Rebecca Gray, Emi Habgood, Richard Hall, Phoebe Harris, Erin Hill, Kensuke Hoashi, Hannah Ilhan, Narelle Jenkins, Andrew Knox, Clare Morrison, Melanie Neeland, Jenn Ness, Wendy Norton, Sasha Odoi, Mary Panjari, Kayla Parker, Ahelee Rahman, Ashleigh Rak, Maisie Ralphsmith, Natalie Schreurs, Carrie Service, Victoria Soriano, Judith Spotswood, Mark Taranto, Leone Thiele, Kate Wall, Audrey Walsh, Angela Walsh, Anita Wise, Andrew Davidson, Arul Earnest, Lara Ford, Andrew Kemp, Sam Mehr, Tibor Schuster, Dean Tey, Diana Zannino, Donna Legge, Jason Bell, Joanne Cheah, Kay Hynes, Kee Lim, Emily Porrello, Annette Powell, Pedro Ramos, Anushka Karunanayake, Izabelle Mezzetti, Kayla Parker, Ronita Singh, Harriet Edmund, Bridie Byrne, Tom Keeble, Cuby Martis, Belle Ngien, Penny Glenn, Andrew Kaynes, Clay Deming, Qiong Chen, Karen Laky, Jenny Min Li, Lindsay Chatman, NISC Comparative Sequencing Program, Beatrice B. Barnabas, Sean Black, Gerard G. Bouffard, Shelise Y. Brooks, Juyun Crawford, Holly Marfani, Lyudmila Dekhtyar, Joel Han, Shi‐Ling Ho, Richelle Legaspi, Quino L. Maduro, Catherine A. Masiello, Jennifer C. McDowell, Casandra Montemayor, James C. Mullikin, Morgan Park, Nancy L. Riebow, Karen Schandler, Brian Schmidt, Christina Sison, Sirintorn Stantripop, James W. Thomas, Pamela J. Thomas, Meghana Vemulapalli, Alice C. Young, Heidi H. Kong, Kirsten P. Perrett, Julia A. Segre, Pamela A. Frischmeyer‐Guerrerio   +135 more
wiley   +1 more source

High-quality Acinetobacter genomes recovered from combat wounds via metagenomic sequencing resemble cultured isolate genomes

Microbiology Spectrum
The ability to accurately characterize wound pathogens is critical to informing clinical decisions for wound infections with complex treatment requirements.
Jeffrey A. Kimbrel, James B. Thissen, Felipe A. Lisboa, Shalini Mabery, Crystal J. Jaing, Eric A. Elster, Seth A. Schobel, Nicholas A. Be   +7 more
doaj   +1 more source