Results 51 to 60 of about 71,233 (313)

Functional Characterisation of Bile Metagenome: Study of Metagenomic Dark Matter [PDF]

Microorganisms, 2021
Gallbladder metagenome involves a wide range of unidentified sequences comprising the so-called metagenomic dark matter. Therefore, this study aimed to characterise three gallbladder metagenomes and a fosmid library with an emphasis on metagenomic dark matter fraction.
Carlos Sabater, Natalia Molinero, Manuel Ferrer, Carmen María García Bernardo, Susana Delgado, Abelardo Margolles   +5 more
openaire   +5 more sources

Establishing a novel colorectal cancer predictive model based on unique gut microbial single nucleotide variant markers

Gut Microbes, 2021
Current metagenomic species-based colorectal cancer (CRC) microbial biomarkers may confuse diagnosis because the genetic content of different microbial strains, even those belonging to the same species, may differ from 5% to 30%.
Chenchen Ma, Kaining Chen, Yuanyuan Wang, Chaoping Cen, Qixiao Zhai, Jiachao Zhang   +5 more
doaj   +1 more source

Novel species identification and deep functional annotation of electrogenic biofilms, selectively enriched in a microbial fuel cell array

Frontiers in Microbiology, 2022
In this study, electrogenic microbial communities originating from a single source were multiplied using our custom-made, 96-well-plate-based microbial fuel cell (MFC) array.
Lukasz Szydlowski, Lukasz Szydlowski, Jiri Ehlich, Pawel Szczerbiak, Noriko Shibata, Igor Goryanin, Igor Goryanin, Igor Goryanin   +7 more
doaj   +1 more source

Deconvolute individual genomes from metagenome sequences through short read clustering. [PDF]

, 2020
Metagenome assembly from short next-generation sequencing data is a challenging process due to its large scale and computational complexity. Clustering short reads by species before assembly offers a unique opportunity for parallel downstream assembly of
Deng, Li, Li, Kexue, Lu, Yakang, Shi, Lizhen, Wang, Lili, Wang, Zhong   +5 more
core  

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

Insights into the global freshwater virome

Frontiers in Microbiology, 2022
Viruses are by far the most abundant life forms on this planet. Yet, the full viral diversity remains mostly unknown, especially in environments like freshwater. Therefore, we aimed to study freshwater viruses in a global context.
Ali H. A. Elbehery, Li Deng, Li Deng
doaj   +1 more source

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

Genome analysis of the candidate phylum MBNT15 bacterium from a boreal peatland predicted its respiratory versatility and dissimilatory iron metabolism

Frontiers in Microbiology, 2022
Uncultured bacteria of the candidate phylum MBNT15, distantly related to Desulfobacterota, have been identified in a broad range of mostly organic-rich aquatic environments. We assembled a near-complete genome of a member of MBNT15 from a boreal peatland
Shahjahon Begmatov, Alexey V. Beletsky, Svetlana N. Dedysh, Andrey V. Mardanov, Nikolai V. Ravin   +4 more
doaj   +1 more source

Integrating pan-genome with metagenome for microbial community profiling

Computational and Structural Biotechnology Journal, 2021
Advances in sequencing technology have led to the increased availability of genomes and metagenomes, which has greatly facilitated microbial pan-genome and metagenome analysis in the community.
Chaofang Zhong, Chaoyun Chen, Lusheng Wang, Kang Ning   +3 more
doaj  

Metagenome Analysis of the Bacterial Characteristics in Invasive Klebsiella Pneumoniae Liver Abscesses

Frontiers in Cellular and Infection Microbiology, 2022
BackgroundKlebsiella pneumoniae liver abscess (KPLA) combined with extrahepatic migratory infection (EMI) is defined as invasive KPLA (IKPLA) and is associated with a poor prognosis. The mechanism of IKPLA formation is yet to be elucidated. In this study,
Zhijie Zhang, Hairui Wang, Yawen Guo, Zhaoyu Liu, Zhihui Chang   +4 more
doaj   +1 more source