Pseudomon-1 RNA motif

The Pseudomon-1 RNA motif is a conserved RNA identified by bioinformatics.[1] It is used by most species whose genomes have been sequenced and that are classified within the genus Pseudomonas, and is also present in Azotobacter vinelandii, a closely related species. It is presumed to function as a non-coding RNA. Pseudomon-1 RNAs consistently have a downstream rho-independent transcription terminator.

Pseudomon-1 RNA
Consensus secondary structure of Pseudomon-1 RNAs
Identifiers
SymbolPseudomon-1
RfamRF01719
Other data
RNA typesRNA
Domain(s)Pseudomonas'
PDB structuresPDBe

The intergenic region containing Pseudomon-1 RNAs were also detected later by an independent study based on deep sequencing and called SPA0122[2] The genes surrounding this region suggest a similarity to Spot 42 RNA,[2] but the Pseudomonas RNA functions to regulate the AlgC enzyme[3] Based on this information, the new name ErsA for the RNA was adopted.[3] Negatively regulates major porin oprD expression responsible for uptake of carbapenem antibiotics, by base pairing with oprD 5'UTR (leading to increased bacterial resistance to meropenem).[4] ErsA positively regulates amrZ mRNA and contributes to biofilm formation and motility.[5]

References
  1. Weinberg Z, Wang JX, Bogue J, Yang J, Corbino K, Moy RH, Breaker RR (March 2010). "Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes". Genome Biology. 11 (3): R31. doi:10.1186/gb-2010-11-3-r31. PMC 2864571. PMID 20230605.
  2. Ferrara S, Brugnoli M, De Bonis A, Righetti F, Delvillani F, Dehò G, Horner D, Briani F, Bertoni G (May 2012). "Comparative profiling of Pseudomonas aeruginosa strains reveals differential expression of novel unique and conserved small RNAs". PLOS One. 7 (5): e36553. doi:10.1371/journal.pone.0036553. PMC 3349714. PMID 22590564.
  3. Ferrara S, Carloni S, Fulco R, Falcone M, Macchi R, Bertoni G (January 2015). "Post-transcriptional regulation of the virulence-associated enzyme AlgC by the σ(22) -dependent small RNA ErsA of Pseudomonas aeruginosa". Environmental Microbiology. 17 (1): 199–214. doi:10.1111/1462-2920.12590. PMID 25186153.
  4. Zhang YF, Han K, Chandler CE, Tjaden B, Ernst RK, Lory S (December 2017). "Probing the sRNA regulatory landscape of P. aeruginosa: post-transcriptional control of determinants of pathogenicity and antibiotic susceptibility". Molecular Microbiology. 106 (6): 919–937. doi:10.1111/mmi.13857. PMC 5738928. PMID 28976035.
  5. Falcone M, Ferrara S, Rossi E, Johansen HK, Molin S, Bertoni G (2018). "Pseudomonas aeruginosa Contributes to Biofilm Development and Motility through Post-transcriptional Modulation of AmrZ". Frontiers in Microbiology. 9: 238. doi:10.3389/fmicb.2018.00238. PMC 5819304. PMID 29497413.


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