Results 51 to 60 of about 117,934 (343)

Maximal viral information recovery from sequence data using VirMAP

Nature Communications, 2018
Viral taxonomic characterization from metagenomic data suffers from high background noise and signal crosstalk. Here, the authors develop VirMAP, a novel pipeline for analyses of metagenomic data that classifies viral reconstructions independent of ...
Nadim J Ajami, Matthew C. Wong, Matthew C. Ross, Richard E. Lloyd, Joseph F. Petrosino   +4 more
doaj   +1 more source

Metagenome of a polluted river reveals a reservoir of metabolic and antibiotic resistance genes

Environmental Microbiome, 2019
Background Yamuna, a major tributary of Ganga, which flows through the national capital region of Delhi, is among the major polluted rivers in India. The accumulation of various effluents, toxic chemicals, heavy metals, and increased organic load in the ...
Parul Mittal, Vishnu Prasoodanan PK, Darshan B. Dhakan, Sanjiv Kumar, Vineet K. Sharma   +4 more
doaj   +1 more source

Metagenomics Approaches for Improving Food Safety.

Journal of Food Protection, 2021
Advancements in next-generation sequencing technology have dramatically reduced the cost and increased the ease of microbial whole-genome sequencing. This is revolutionizing the identification and analysis of foodborne microbial pathogens, facilitating ...
C. Billington, J. Kingsbury, L. Rivas
semanticscholar   +1 more source

Metagenomic Analysis of Silage [PDF]

Journal of Visualized Experiments, 2017
Metagenomics is defined as the direct analysis of deoxyribonucleic acid (DNA) purified from environmental samples and enables taxonomic identification of the microbial communities present within them. Two main metagenomic approaches exist; sequencing the 16S rRNA gene coding region, which exhibits sufficient variation between taxa for identification ...
Tennant, RK, Sambles, CM, Diffey, GE, Moore, KA, Love, J   +4 more
openaire   +4 more sources

Pattern-Recognition Receptors and Cervical Microbiome in Patients with Early Miscarriages

International Journal of Inflammation
Early miscarriages are one of the main causes of reproductive losses. The objective of this study was to estimate Toll- and NOD-like receptors mRNA expression levels and their correlation with microbiome composition in the endocervix of patients with 1st
Mariya V. Gryaznova, Olesya N. Kozarenko, Victoria M. Ivannikova, Yuliya D. Smirnova, Inna Y. Burakova, Oxana B. Altukhova, Natalia I. Samborskaya, Mikhail Y. Syromyatnikov, Alexander Y. Maslov, Olga P. Lebedeva   +9 more
doaj   +1 more source

The gut mycobiome of the Human Microbiome Project healthy cohort

Microbiome, 2017
Background Most studies describing the human gut microbiome in healthy and diseased states have emphasized the bacterial component, but the fungal microbiome (i.e., the mycobiome) is beginning to gain recognition as a fundamental part of our microbiome ...
Andrea K. Nash, Thomas A. Auchtung, Matthew C. Wong, Daniel P. Smith, Jonathan R. Gesell, Matthew C. Ross, Christopher J. Stewart, Ginger A. Metcalf, Donna M. Muzny, Richard A. Gibbs, Nadim J. Ajami, Joseph F. Petrosino   +11 more
doaj   +1 more source

Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification

Bioinform., 2019
SUMMARY Pavian is a web application for exploring classification results from metagenomics experiments. With Pavian, researchers can analyze, visualize, and transform results from various classifiers - such as Kraken, Centrifuge, and MethaPhlAn - using ...
F. Breitwieser, S. Salzberg
semanticscholar   +1 more source

Open resource metagenomics: a model for sharing metagenomic libraries [PDF]

Standards in Genomic Sciences, 2011
Both sequence-based and activity-based exploitation of environmental DNA have provided unprecedented access to the genomic content of cultivated and uncultivated microorganisms. Although researchers deposit microbial strains in culture collections and DNA sequences in databases, activity-based metagenomic studies typically only publish sequences from ...
David R. Rose, Josh D. Neufeld, Trevor C. Charles, Gabriel Moreno-Hagelsieb, Katja Engel, Jiujun Cheng   +5 more
openaire   +3 more sources

A database of animal metagenomes

Scientific Data, 2022
AbstractWith the rapid development of high-throughput sequencing technology, the amount of metagenomic data (including both 16S and whole-genome sequencing data) in public repositories is increasing exponentially. However, owing to the large and decentralized nature of the data, it is still difficult for users to mine, compare, and analyze the data ...
Hu, Ruirui, Yao, Rui, Li, Lei, Xu, Yueren, Lei, Bingbing, Tang, Guohao, Liang, Haowei, Lei, Yunjiao, Li, Cunyuan, Li, Xiaoyue, Liu, Kaiping, Wang, Limin, Zhang, Yunfeng, Wang, Yue, Cui, Yuying, Dai, Jihong, Ni, Wei, Zhou, Ping, Yu, Baohua, Hu, Shengwei   +19 more
openaire   +3 more sources

Microbial exopolysaccharide production by polyextremophiles in the adaptation to multiple extremes

FEBS Letters, EarlyView.
Polyextremophiles are microorganisms that endure multiple extreme conditions by various adaptation strategies that also include the production of exopolysaccharides (EPSs). This review provides an integrated perspective on EPS biosynthesis, function, and regulation in these organisms, emphasizing their critical role in survival and highlighting their ...
Tracey M Gloster, Ebru Toksoy Öner
wiley   +1 more source