Results 41 to 50 of about 157,682 (311)

Species-level functional profiling of metagenomes and metatranscriptomes. [PDF]

, 2018
Functional profiles of microbial communities are typically generated using comprehensive metagenomic or metatranscriptomic sequence read searches, which are time-consuming, prone to spurious mapping, and often limited to community-level quantification ...
A Sczyrba, A Shafquat, AE Duran-Pinedo, AK Sharma, B Buchfink, B Langmead, BE Suzek, BK Swan, C Burke, C Luo, Curtis Huttenhower, D Medini, DH Huson, DT Truong, DT Truong, E Pasolli, EA Franzosa, EA Franzosa, Eric A. Franzosa, George Weingart, GG Silva, Gholamali Rahnavard, H Hauswedell, J Kim, J Lloyd-Price, J Lloyd-Price, J Ravel, J. Gregory Caporaso, JA Fuhrman, K Huang, Karen Schwarzberg Lipson, Lauren J. McIver, LR Thompson, LR Thompson, Luke R. Thompson, M Hamady, M Kanehisa, M Scholz, Melanie Schirmer, MY Galperin, N Segata, N Segata, Nicola Segata, OU Mason, P Petrenko, PJ Turnbaugh, R Caspi, RC Edgar, RD Finn, Rob Knight, S Abubucker, S Nayfach, S Sunagawa, S Sunagawa, T Bose, UniProt Consortium., W Huang, Y Ye, Y Zhao   +58 more
core   +2 more sources

Metatranscriptome of human faecal microbial communities in a cohort of adult men [PDF]

, 2018
The gut microbiome is intimately related to human health, but it is not yet known which functional activities are driven by specific microorganisms\u27 ecological configurations or transcription.
Abu-Ali, Galeb S., Branck, Tobyn, Chan, Andrew T., Drew, David A., DuLong, Casey, Huttenhower, Curtis, Ivey, Kerry L., Izard, Jacques, Lloyd-Price, Jason, Mallick, Himel, Mehta, Raaj S., Rimm, Eric   +11 more
core   +2 more sources

Presence of neutrophil extracellular traps (NETs) in different types of human urinary tract infections (UTI). A pilot study

Frontiers in Immunology
IntroductionActivated polymorphonuclear neutrophils (PMN) release neutrophil extracellular traps (NETs) composed of a web-like DNA core, concomitant with nuclear histones, granular peptides and enzymes.
Lena Schröder Alvarez, Lena Schröder Alvarez, Iván Conejeros, Gabriel Espinosa, Constanza Salinas-Varas, Benjamin Ott, Markus Weigel, Markus Weigel, Can Imirzalioglu, Can Imirzalioglu, Moritz Fritzenwanker, Moritz Fritzenwanker, Anita C. Windhorst, Torsten Hain, Torsten Hain, Anja Taubert, Carlos Hermosilla, Florian Wagenlehner, Florian Wagenlehner   +18 more
doaj   +1 more source

MMINP: A computational framework of microbe-metabolite interactions-based metabolic profiles predictor based on the O2-PLS algorithm

Gut Microbes, 2023
The gut metabolome acts as an intermediary between the gut microbiota and host, and has tremendous diagnostic and therapeutic potential. Several studies have utilized bioinformatic tools to predict metabolites based on the different aspects of the gut ...
Wenli Tang, Huimin Zheng, Shuangbin Xu, Pan Li, Li Zhan, Xiao Luo, Zehan Dai, Qianwen Wang, Guangchuang Yu   +8 more
doaj   +1 more source

Mining virulence genes using metagenomics.

PLoS ONE, 2011
When a bacterial genome is compared to the metagenome of an environment it inhabits, most genes recruit at high sequence identity. In free-living bacteria (for instance marine bacteria compared against the ocean metagenome) certain genomic regions are ...
Pedro Belda-Ferre, Raúl Cabrera-Rubio, Andrés Moya, Alex Mira   +3 more
doaj   +1 more source

The Vaginal Microbiome: Disease, Genetics and the Environment [PDF]

, 2010
The vagina is an interactive interface between the host and the environment. Its surface is covered by a protective epithelium colonized by bacteria and other microorganisms.
Bin Xie, Christopher J. Friedline, Cynthia N. Cornelissen, Elizabeth C. Prom-Wormley, Federico A. Puma, Gregory A. Buck, Huan Mo, James P. Brooks, Jennifer M. Fettweis, Jerome L. Strauss, Joao P. Alves, Joseph F. Borzelleca, Judy L. Silbert, Kimberly K. Jefferson, Lindon J. Eaves, Logan Voegtly, Maria C. Rivera, Mark A. Reimers, Michael D. Harwich, Michael C. Neale, Myrna G. Serrano, Nihar U. Sheth, Philippe Girerd, Seth B. Roberts, Stephanie L. Hendricks, Timothy P. York, Vladimir Lee, Xi Gao, Yuan Gao   +28 more
core   +3 more sources

Alternating High‐Fat and Polysaccharide Diets Modulates Gut Phage‐Bacterial Interplay

Advanced Science, EarlyView.
This study reveals how alternating high‐fat and polysaccharide diets reshape the human gut virome and enhance phage‐bacteria interactions. Using large‐scale metagenomic meta‐analysis and a time‐resolved mouse model, the authors show that diets strongly modulate phage abundance, lifestyle, and gene exchange, offering new insights into nutrition‐guided ...
Fengxiang Zhao, Ruiqi Zhang, Rujun Wei, Huimin Fan, Yongfei Hu, Wenyu Shi, Jinfeng Wang   +6 more
wiley   +1 more source

Metagenomic sequencing enables accurate pathogen and antimicrobial susceptibility profiling in complicated UTIs in approximately four hours

Nature Communications
Urinary tract infections (UTIs) affect 405 million people worldwide. Current diagnostics rely on cultures, which can take 2 to 4 days. This study evaluates eleven culture-independent methods for sample preparation from 78 complicated UTI patients ...
Anurag Basavaraj Bellankimath, Sverre Branders, Isabell Kegel, Jawad Ali, Fatemeh Asadi, Truls E. Bjerklund Johansen, Can Imirzalioglu, Torsten Hain, Florian Wagenlehner, Rafi Ahmad   +9 more
doaj   +1 more source

Reconstructing an ancestral genotype of two hexachlorocyclohexane-degrading Sphingobium species using metagenomic sequence data. [PDF]

, 2014
Over the last 60 years, the use of hexachlorocyclohexane (HCH) as a pesticide has resulted in the production of >4 million tons of HCH waste, which has been dumped in open sinks across the globe.
Gilbert, Jack A, Khurana, Jitendra P, Khurana, Paramjit, Kumar, Roshan, Lal, Rup, Lax, Simon, Negi, Vivek, Sangwan, Naseer, Verma, Helianthous   +8 more
core  

Similar Microbial Communities Found on Two Distant Seafloor Basalts. [PDF]

, 2015
The oceanic crust forms two thirds of the Earth's surface and hosts a large phylogenetic and functional diversity of microorganisms. While advances have been made in the sedimentary realm, our understanding of the igneous rock portion as a microbial ...
Chong, Lauren S, Edwards, Katrina J, Heidelberg, John F, Singer, Esther   +3 more
core   +3 more sources