Results 61 to 70 of about 30,341 (174)

Effect of Social Rank on Gut Microbes and Their Metabolites of Greater Long‐Tailed Hamsters (Tscherskia triton)

Integrative Zoology, EarlyView.
Social rank in greater long‐tailed hamsters (Tscherskia triton) shapes gut microbiota composition and metabolite profiles. Dominant males exhibit a “high‐vigilance, metabolically activated” phenotype, with elevated aggression and specific gut microbiota enriched in energy‐harvesting taxa and fecal queuine.
Da Zhang, Xiaoming Xu, Zhibin Zhang
wiley   +1 more source

Benchmarking metagenomic binning tools on real datasets across sequencing platforms and binning modes

Nature Communications
Metagenomic binning is a culture-free approach that facilitates the recovery of metagenome-assembled genomes by grouping genomic fragments. However, there remains a lack of a comprehensive benchmark to evaluate the performance of metagenomic binning ...
Haitao Han, Ziye Wang, Shanfeng Zhu
doaj   +1 more source

Gut Microbiota of Gray Snub‐Nosed Monkeys: Adaptation to Seasonal Variations Through Energy Compensation and Thermogenesis

Integrative Zoology, EarlyView.
Based on metagenome‐assembled genomes (MAGs), the gut microbiota of the gray snub‐nosed monkeys recovered 1229 non‐redundant MAGs. The gut microbiota showed an enhanced capacity to produce energy substrates with increased conversion activity of these substrates during winter.
Yue Sun, Mingyi Zhang, Xiaochen Wang, Xiaolong Huang, Yanze Yu, Huijuan Pan, Haibo Li, Lei Shi, Wei Yang, Chen Zhang, Bo Ding, Xun Liu, Jianfeng Li, Changjiang Qian, Boxing Cheng, Chao Zhang, Jingcheng Ran, Ming Li   +17 more
wiley   +1 more source

metagenome-atlas/atlas: Fix eggNOGmapper

, 2020
ATLAS - Three commands to start analysing your metagenome ...
Silas Kieser, Jackson M. Tsuji, Richard Allen White III, Christopher Bottoms, Joe Brown, Sean M. Colby, Vladimir Mikryukov, wangzc, Chris Overall, Mattias de Hollander, C. Titus Brown, Colin Brislawn   +11 more
core   +1 more source

The DOE JGI Metagenome Workflow [PDF]

, 2020
The DOE JGI Metagenome Workflow performs metagenome data processing, including assembly, structural, functional, and taxonomic annotation, and binning of metagenomic datasets that are subsequently included into the Integrated Microbial Genomes and ...
Reddy, TBK, Clum, Alicia, Yoshinaga, Yuko, Seshadri, Rekha, Bushnell, Brian, Varghese, Neha, Daum, Chris, Foster, Bryce, Ivanova, Natalia N, Mukherjee, Supratim, Chen, I-Min A, Kyrpides, Nikos C, Huntemann, Marcel, Foster, Brian, Hajek, Patrick P, Eloe-Fadrosh, Emiley A, Copeland, Alex, Roux, Simon   +17 more
core   +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

Metagenome-assembled genomes (MAGs)

The MetaWRAP pipeline was employed for genome assembly and binning. Specifically, MEGAHIT was used to assemble sequences and generate contigs. Prodigal was used to predict open reading frames (ORFs) in each contig.
Zhou (18148486)
core   +1 more source

Mapping the omics landscape for peri‐implant diseases: A scoping review

Periodontology 2000, EarlyView.
Abstract Objectives To map omics evidence across peri‐implant health, peri‐implant mucositis, and peri‐implantitis, and to identify recurring molecular patterns and candidate biomarker signals relevant to diagnosis, monitoring, and treatment. Materials and Methods This scoping review included human studies using genomics, DNA methylation–based ...
Ethan Ng, Ioannis Fragkioudakis, Jeniffer Perussolo, John Rong Hao Tay, Elena Calciolari, Nikos Donos   +5 more
wiley   +1 more source

Sharon (Co-assembly) dataset and binning results

, 2021
Sharon dataset from the preborn infant gut metagenome (Sharon et. al, 2013). Contains the following files.- Contigs file- Paths file (metaSPAdes)- Assembly graph file (metaSPAdes)- Abundance file- Binning results (including CheckM results)
Vijini Mallawaarachchi (11308821)
core   +1 more source

Comparing the Performance of Double‐Stranded and Single‐Stranded DNA Libraries for Ancient Oral Microbiome Reconstruction

Molecular Ecology Resources, Volume 26, Issue 7, October 2026.
ABSTRACT DNA library construction methods can affect the recovery of ancient DNA, thus influencing downstream analyses. While single‐stranded library preparation (ssLib) has been shown to outperform double‐stranded (dsLib) for highly degraded vertebrate host DNA, especially for samples older than 40,000 years, few studies have examined how library ...
Keri Burge, Irina M. Velsko, Domingo C. Salazar‐García, María Haber Uriarte, Joaquín Lomba Maurandi, Christina Warinner   +5 more
wiley   +1 more source