Results 21 to 30 of about 5,063 (236)

Discovery of Staphylococcus aureus small RNAs highly expressed during human chronic infection [PDF]

mBio
Understanding bacterial gene expression in natural environments remains challenging because most regulatory networks are inferred from in vitro models that poorly capture in situ environmental conditions. Here, we present NEMO (network transcriptomics of
Paul Briaud, Julia Schumacher, Marvin Whiteley   +2 more
doaj   +2 more sources

The metatranscriptomes of root caries and sound root surface biofilms [PDF]

Journal of Oral Microbiology, 2017
There is limited knowledge of bacterial metabolism in root caries lesions. The aim of this study was to describe the bacterial metatranscriptomes associated with root caries and sound root surfaces using an RNA-seq analysis approach.
Thuy Do, Naile Dame-Teixeira, Clarissa C.F. Parolo, Marisa Maltz, Aradhna Tugnait, Deirdre Devine   +5 more
doaj   +2 more sources

Whole Community Metatranscriptomes and Lipidomes Reveal Diverse Responses Among Antarctic Phytoplankton to Changing Ice Conditions

Frontiers in Marine Science, 2021
The transition from winter to spring represents a major shift in the basal energy source for the Antarctic marine ecosystem from lipids and other sources of stored energy to sunlight.
Jeff S. Bowman, Benjamin A. S. Van Mooy, Daniel P. Lowenstein, Helen F. Fredricks, Colleen M. Hansel, Rebecca Gast, James R. Collins, James R. Collins, Nicole Couto, Hugh W. Ducklow   +9 more
doaj   +2 more sources

Metatranscriptomes-based sequence similarity networks uncover genetic signatures within parasitic freshwater microbial eukaryotes

Microbiome
Background Microbial eukaryotes play a crucial role in biochemical cycles and aquatic trophic food webs. Their taxonomic and functional diversity are increasingly well described due to recent advances in sequencing technologies.
Arthur Monjot, Jérémy Rousseau, Lucie Bittner, Cécile Lepère   +3 more
doaj   +2 more sources

Multiple hypervariable markers improve mycobiome classification in metatranscriptome and metagenome data [PDF]

Communications Biology
Profiling the taxonomic and functional composition of mycobiome using metagenomic and metatranscriptomic sequencing is advancing our understanding of fungal functions in ecosystems.
Haihua Wang, Steven H. Wu, Kaile Zhang, Ko-Hsuan Chen, Rytas Vilgalys, Hui-Ling Liao   +5 more
doaj   +2 more sources

Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

Biotechnology for Biofuels, 2018
Background Although anaerobic digestion for biogas production is used worldwide in treatment processes to recover energy from carbon-rich waste such as cellulosic biomass, the activities and interactions among the microbial populations that perform ...
Yangyang Jia, Siu-Kin Ng, Hongyuan Lu, Mingwei Cai, Patrick K. H. Lee   +4 more
doaj   +2 more sources

Time‐series metatranscriptomes reveal conserved patterns between phototrophic and heterotrophic microbes in diverse freshwater systems

Limnology and Oceanography, 2019
Microbial communities form the base of food webs in freshwater ecosystems, yet the interactions within these diverse assemblages are poorly understood. Based on evidence showing that primary production and respiration follow diurnal trends in lakes, we ...
A. Linz, F. Aylward, S. Bertilsson, K. McMahon   +3 more
semanticscholar   +2 more sources

Deep learning coupled with scalable domain-specific structural validation expands RNA virus discovery from metatranscriptomes [PDF]

Nature Communications
The discovery of RNA viruses from metatranscriptomic data remains challenging due to extreme sequence divergence and length heterogeneity, ranging from massive polyproteins to short assembly artifacts.
Gaoyang Luo, Zelin Zang, Ling Yuan, Jingbo Zhou, Ao Dong, Yufei Huang, Stan Z. Li, Feng Ju   +7 more
doaj   +2 more sources

Dynamic marine viral infections and major contribution to photosynthetic processes shown by spatiotemporal picoplankton metatranscriptomes

Nature Communications, 2019
Here, Sieradzki et al. use metatranscriptomics to study active community-wide viral infections at three coastal California sites throughout a year, identify potential viral hosts, and show that viruses can contribute a substantial amount to photosystem ...
Ella T. Sieradzki, J. Cesar Ignacio-Espinoza, David M. Needham, Erin B. Fichot, Jed A. Fuhrman   +4 more
doaj   +2 more sources

Preparation method shapes the recovery and ecological interpretation of DNA and RNA soil viral communities [PDF]

Nature Communications
Deciphering viral ecology in soils is challenging due to soil’s high physicochemical and microbial community complexity. To enhance detection of DNA and RNA viruses, we applied different preparation methods to soils collected from a grassland field ...
Josué A. Rodríguez-Ramos, Amy E. Zimmerman, Ruonan Wu, Sheryl L. Bell, Trinidad D. Alfaro, Nicholas J. Reichart, Kirsten S. Hofmockel, William C. Nelson   +7 more
doaj   +2 more sources