Evaluation of rRNA depletion methods for capturing the RNA virome from environmental surfaces
BMC Research Notes, 2023 Objective Metatranscriptomic analysis of RNA viromes on built-environment surfaces is hampered by low RNA yields and high abundance of rRNA. Therefore, we evaluated the quality of libraries, efficiency of rRNA depletion, and viral detection sensitivity ...
Yuh Shiwa +5 more
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Structure of the Ribosomal RNA Decoding Site Containing a Selenium-Modified Responsive Fluorescent Ribonucleoside Probe. [PDF]
, 2017 Comprehensive understanding of the structure-function relationship of RNA both in real time and at atomic level will have a profound impact in advancing our understanding of RNA functions in biology.
Boerneke, Mark A +3 more
core +1 more source
Comparison of DNA and RNA sequencing of total nucleic acids from human cervix for metagenomics
Scientific Reports, 2021 Although metagenomics and metatranscriptomics are commonly used to identify bacteria and viruses in human samples, few studies directly compare these strategies.
Laila Sara Arroyo Mühr +4 more
doaj +1 more source
COLOMBOS v2.0 : an ever expanding collection of bacterial expression compendia [PDF]
, 2013 The COLOMBOS database (http://www.colombos.net) features comprehensive organism-specific cross-platform gene expression compendia of several bacterial model organisms and is supported by a fully interactive web portal and an extensive web API.
Bianco, Luca +11 more
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In planta Transcriptome Analysis of Pseudomonas syringae
Bio-Protocol, 2018 Profiling bacterial transcriptome in planta is challenging due to the low abundance of bacterial RNA in infected plant tissues. Here, we describe a protocol to profile transcriptome of a foliar bacterial pathogen, Pseudomonas syringae pv.
Tatsuya Nobori, Kenichi Tsuda
doaj +1 more source
cDNA-RNA subtractive hybridization reveals increased expression of mycocerosic acid synthase in intracellular Mycobacterium bovis BCG. [PDF]
, 2001 Identifying genes that are differentially expressed by Mycobacterium bovis BCG after phagocytosis by macrophages will facilitate the understanding of the molecular mechanisms of host cell-intracellular pathogen interactions. To identify such genes a cDNA-
Centre Gunnels Wood +7 more
core +3 more sources
A blue light receptor that mediates RNA binding and translational regulation [PDF]
, 2019 Sensory photoreceptor proteins underpin light-dependent adaptations in nature and enable the optogenetic control of organismal behavior and physiology.
Bittl, Robert +9 more
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Large-scale and significant expression from pseudogenes in Sodalis glossinidius – a facultative bacterial endosymbiont [PDF]
, 2020 The majority of bacterial genomes have high coding efficiencies, but there are some genomes of intracellular bacteria that have low gene density. The genome of the endosymbiont Sodalis glossinidius contains almost 50 % pseudogenes containing mutations ...
Beynon, R +9 more
core +2 more sources
Structural Biology of Bacterial RNA Polymerase
Biomolecules, 2015 Since its discovery and characterization in the early 1960s (Hurwitz, J. The discovery of RNA polymerase. J. Biol. Chem. 2005, 280, 42477–42485), an enormous amount of biochemical, biophysical and genetic data has been collected on bacterial RNA ...
Katsuhiko S. Murakami
doaj +1 more source
Salmonella produce microRNA-like RNA fragment Sal-1 in the infected cells to facilitate intracellular survival. [PDF]
, 2017 Salmonella have developed a sophisticated machinery to evade immune clearance and promote survival in the infected cells. Previous studies were mostly focused on either bacteria itself or host cells, the interaction mechanism of host-pathogen awaits ...
Chen, Xi +11 more
core +2 more sources