Diversity and prevalence of ANTAR RNAs across actinobacteria.
ANTAR protein
Actinobacteria
RNA regulatory system
Structured RNA
Journal
BMC microbiology
ISSN: 1471-2180
Titre abrégé: BMC Microbiol
Pays: England
ID NLM: 100966981
Informations de publication
Date de publication:
29 05 2021
29 05 2021
Historique:
received:
26
11
2020
accepted:
18
05
2021
entrez:
30
5
2021
pubmed:
31
5
2021
medline:
15
12
2021
Statut:
epublish
Résumé
Computational approaches are often used to predict regulatory RNAs in bacteria, but their success is limited to RNAs that are highly conserved across phyla, in sequence and structure. The ANTAR regulatory system consists of a family of RNAs (the ANTAR-target RNAs) that selectively recruit ANTAR proteins. This protein-RNA complex together regulates genes at the level of translation or transcriptional elongation. Despite the widespread distribution of ANTAR proteins in bacteria, their target RNAs haven't been identified in certain bacterial phyla such as actinobacteria. Here, by using a computational search model that is tuned to actinobacterial genomes, we comprehensively identify ANTAR-target RNAs in actinobacteria. These RNA motifs lie in select transcripts, often overlapping with the ribosome binding site or start codon, to regulate translation. Transcripts harboring ANTAR-target RNAs majorly encode proteins involved in the transport and metabolism of cellular metabolites like sugars, amino acids and ions; or encode transcription factors that in turn regulate diverse genes. In this report, we substantially diversify and expand the family of ANTAR RNAs across bacteria. These findings now provide a starting point to investigate the actinobacterial processes that are regulated by ANTAR.
Sections du résumé
BACKGROUND
Computational approaches are often used to predict regulatory RNAs in bacteria, but their success is limited to RNAs that are highly conserved across phyla, in sequence and structure. The ANTAR regulatory system consists of a family of RNAs (the ANTAR-target RNAs) that selectively recruit ANTAR proteins. This protein-RNA complex together regulates genes at the level of translation or transcriptional elongation. Despite the widespread distribution of ANTAR proteins in bacteria, their target RNAs haven't been identified in certain bacterial phyla such as actinobacteria.
RESULTS
Here, by using a computational search model that is tuned to actinobacterial genomes, we comprehensively identify ANTAR-target RNAs in actinobacteria. These RNA motifs lie in select transcripts, often overlapping with the ribosome binding site or start codon, to regulate translation. Transcripts harboring ANTAR-target RNAs majorly encode proteins involved in the transport and metabolism of cellular metabolites like sugars, amino acids and ions; or encode transcription factors that in turn regulate diverse genes.
CONCLUSION
In this report, we substantially diversify and expand the family of ANTAR RNAs across bacteria. These findings now provide a starting point to investigate the actinobacterial processes that are regulated by ANTAR.
Identifiants
pubmed: 34051745
doi: 10.1186/s12866-021-02234-x
pii: 10.1186/s12866-021-02234-x
pmc: PMC8164766
doi:
Substances chimiques
Bacterial Proteins
0
RNA, Bacterial
0
RNA-Binding Proteins
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
159Subventions
Organisme : The Wellcome Trust DBT India Alliance
ID : IA/I/14/2/501521
Organisme : Science and Engineering Research Board
ID : ECR/2016/001593
Organisme : Human Frontier Science Program
ID : RGY0077/2019
Organisme : Department of Atomic Energy, Government of India and National Centre for Biological Sciences - TIFR
ID : 12-R&D-TFR-5.04-0800
Organisme : Indian Council of Medical Research (IN)
ID : ISRM/11(18)/2019
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