Results 31 to 40 of about 445,040 (271)
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling [PDF]
PLoS Comput Biol. 2014 Oct 30;10(10):e1003907, 2014 Noncoding RNAs are integral to a wide range of biological processes, including translation, gene regulation, host-pathogen interactions and environmental sensing. While genomics is now a mature field, our capacity to identify noncoding RNA elements in bacterial and archaeal genomes is hampered by the difficulty of de novo identification.
arxiv +1 more source
Bacterial small RNAs in the Genus Rickettsia [PDF]
BMC Genomics, 2015 Rickettsia species are obligate intracellular Gram-negative pathogenic bacteria and the etiologic agents of diseases such as Rocky Mountain spotted fever (RMSF), Mediterranean spotted fever, epidemic typhus, and murine typhus. Genome sequencing revealed that R. prowazekii has ~25 % non-coding DNA, the majority of which is thought to be either "junk DNA"
Casey L. C. Schroeder +8 more
openaire +3 more sources
PLoS ONE, 2019 Sputum often contains large amounts of contaminating bacterial DNA that, if not eliminated during RNA isolation, may interfere with gene expression studies. During RNA isolation only repeated DNase treatment can effectively remove contaminating bacterial
Csilla Paska +3 more
doaj +1 more source
Identification of host cytosolic sensors and bacterial factors regulating the type I interferon response to Legionella pneumophila. [PDF]
PLoS Pathogens, 2009 Legionella pneumophila is a gram-negative bacterial pathogen that replicates in host macrophages and causes a severe pneumonia called Legionnaires' Disease. The innate immune response to L. pneumophila remains poorly understood.
Kathryn M Monroe +2 more
doaj +1 more source
RNA‐Seq for Bacterial Gene Expression [PDF]
Current Protocols in Nucleic Acid Chemistry, 2018 AbstractRNA sequencing (RNA‐seq) has become the preferred method for global quantification of bacterial gene expression. With the continued improvements in sequencing technology and data analysis tools, the most labor‐intensive and expensive part of an RNA‐seq experiment is the preparation of sequencing libraries, which is also essential for the ...
Poulsen, Line Dahl, Vinther, Jeppe
openaire +3 more sources
Viruses, 2020 In this study, we describe the biological function of the phage-encoded protein RNA polymerase alpha subunit cleavage protein (Rac), a predicted Gcn5-related acetyltransferase encoded by phiKMV-like viruses.
Pieter-Jan Ceyssens +13 more
doaj +1 more source
Prediction of Novel Bacterial Small RNAs From RIL-Seq RNA–RNA Interaction Data
Frontiers in Microbiology, 2021 The genomic revolution and subsequent advances in large-scale genomic and transcriptomic technologies highlighted hidden genomic treasures. Among them stand out non-coding small RNAs (sRNAs), shown to play important roles in post-transcriptional ...
Amir Bar +3 more
doaj +1 more source
The bacterial enhancer-dependent RNA polymerase [PDF]
Biochemical Journal, 2016 Transcription initiation is highly regulated in bacterial cells, allowing adaptive gene regulation in response to environment cues. One class of promoter specificity factor called sigma54 enables such adaptive gene expression through its ability to lock the RNA polymerase down into a state unable to melt out promoter DNA for transcription initiation ...
Vidya C. Darbari +6 more
openaire +5 more sources
Host A-to-I RNA editing signatures in intracellular bacterial and single-strand RNA viral infections
Frontiers in Immunology, 2023 BackgroundMicrobial infection is accompanied by remodeling of the host transcriptome. Involvement of A-to-I RNA editing has been reported during viral infection but remains to be elucidated during intracellular bacterial infections.ResultsHerein we ...
Zhi-Yuan Wei +30 more
doaj +1 more source
Screening Genome Sequences for Known RNA Genes and Motifs [PDF]
, 2015 This methods paper presents computational protocols for the identification of non-coding RNA genes or RNA motifs within genomic sequences. An application to bacterial small RNA is proposed.
arxiv +1 more source