Results 31 to 40 of about 7,727 (208)

Metatranscriptomic analyses of honey bee colonies [PDF]

Frontiers in Genetics, 2015
Honey bees face numerous biotic threats from viruses to bacteria, fungi, protists, and mites. Here we describe a thorough analysis of microbes harbored by worker honey bees collected from field colonies in geographically distinct regions of Turkey. Turkey is one of the World's most important centers of apiculture, harboring five subspecies of Apis ...
Tozkar, Cansu Özge, EVANS, Jay D., Kence, Meral, Kence, Aykut, HUANG, Qiang   +4 more
openaire   +4 more sources

The Colorectal Cancer Microbiota Alter Their Transcriptome To Adapt to the Acidity, Reactive Oxygen Species, and Metabolite Availability of Gut Microenvironments

mSphere, 2023
The gut microbiome is implicated in the pathology of colorectal cancer (CRC). However, the mechanisms by which the microbiota actively contribute to disease onset and progression remain elusive.
Matthew T. F. Lamaudière, Ramesh Arasaradnam, Gareth D. Weedall, Igor Y. Morozov   +3 more
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

Directed Culturing of Microorganisms Using Metatranscriptomics [PDF]

mBio, 2011
ABSTRACT The vast majority of bacterial species remain uncultured, and this severely limits the investigation of their physiology, metabolic capabilities, and role in the environment. High-throughput sequencing of RNA transcripts (RNA-seq) allows the investigation of the diverse physiologies from uncultured ...
Lindsey Bomar, Michele Maltz, Sophie Colston, Joerg Graf   +3 more
openaire   +3 more sources

Resistance Breeding of Common Bean Shapes the Physiology of the Rhizosphere Microbiome

Frontiers in Microbiology, 2019
The taxonomically diverse rhizosphere microbiome contributes to plant nutrition, growth and health, including protection against soil-borne pathogens.
Lucas William Mendes, Lucas William Mendes, Miriam Gonçalves de Chaves, Mariley de Cassia Fonseca, Rodrigo Mendes, Jos M. Raaijmakers, Jos M. Raaijmakers, Siu Mui Tsai   +7 more
doaj   +1 more source

Taxonomy of anaerobic digestion microbiome reveals biases associated with the applied high throughput sequencing strategies [PDF]

, 2018
In the past few years, many studies investigated the anaerobic digestion microbiome by means of 16S rRNA amplicon sequencing. Results obtained from these studies were compared to each other without taking into consideration the followed procedure for ...
Angelidaki, Irini, Campanaro, Stefano, Kougias, Panagiotis G., Treu, Laura, Zhu, Xinyu   +4 more
core   +3 more sources

Dinucleotide distance histograms for fast detection of rRNA in metatranscriptomic sequences [PDF]

, 2013
With the advent of metatranscriptomics it has now become possible to study the dynamics of microbial communities. The analysis of environmental RNA-Seq data implies several challenges for the development of efficient tools in bioinformatics.
, Daniel, Rolf, Klingenberg, Heiner, Lingner, Thomas, Martinjak, Robin, Meinicke, Peter   +5 more
core   +1 more source

Metatranscriptomics by In Situ RNA Stabilization Directly and Comprehensively Revealed Episymbiotic Microbial Communities of Deep-Sea Squat Lobsters

mSystems, 2020
Shinkaia crosnieri is an invertebrate that inhabits an area around deep-sea hydrothermal vents in the Okinawa Trough in Japan by harboring episymbiotic microbes as the primary nutrition.
Kaori Motoki, Tomo-o Watsuji, Yoshihiro Takaki, Ken Takai, Wataru Iwasaki   +4 more
doaj   +1 more source

Sixteen Novel Mycoviruses Containing Positive Single-Stranded RNA, Double-Stranded RNA, and Negative Single-Stranded RNA Genomes Co-Infect a Single Strain of Rhizoctonia zeae

Journal of Fungi, 2023
In the present study, sixteen novel RNA mycoviruses co-infecting a single strain of Rhizoctonia zeae (strain D40) were identified and molecularly characterized using metatranscriptome sequencing combined with a method for rapid amplification of cDNA ends.
Siwei Li, Zhihao Ma, Xinyi Zhang, Yibo Cai, Chenggui Han, Xuehong Wu   +5 more
doaj   +1 more source

Use of Metatranscriptomics in Microbiome Research [PDF]

Bioinformatics and Biology Insights, 2016
The human intestinal microbiome is a microbial ecosystem that expresses as many as 100 times more genes than the human host, thereby constituting an important component of the human holobiome, which contributes to multiple health and disease processes.
Stavros Bashiardes, Gili Zilberman-Schapira, Eran Elinav   +2 more
openaire   +4 more sources