Mechanism for stabilizing mRNAs involved in methanol-dependent methanogenesis of cold-adaptive Methanosarcina mazei zm-15

Appl Environ Microbiol. 2014 Feb;80(4):1291-8. doi: 10.1128/AEM.03495-13. Epub 2013 Dec 6.

Abstract

Methylotrophic methanogenesis predominates at low temperatures in the cold Zoige wetland in Tibet. To elucidate the basis of cold-adapted methanogenesis in these habitats, Methanosarcina mazei zm-15 was isolated, and the molecular basis of its cold activity was studied. For this strain, aceticlastic methanogenesis was reduced 7.7-fold during growth at 15°C versus 30°C. Methanol-derived methanogenesis decreased only 3-fold under the same conditions, suggesting that it is more cold adaptive. Reverse transcription-quantitative PCR (RT-qPCR) detected <2-fold difference in the transcript abundances of mtaA1, mtaB1, and mtaC1, the methanol methyltransferase (Mta) genes, in 30°C versus 15°C culture, while ackA and pta mRNAs, encoding acetate kinase (Ack) and phosphotransacetylase (Pta) in aceticlastic methanogenesis, were 4.5- and 6.8-fold higher in 30°C culture than in 15°C culture. The in vivo half-lives of mtaA1 and mtaC1B1 mRNAs were similar in 30°C and 15°C cultures. However, the pta-ackA mRNA half-life was significantly reduced in 15°C culture compared to 30°C culture. Using circularized RNA RT-PCR, large 5' untranslated regions (UTRs) (270 nucleotides [nt] and 238 nt) were identified for mtaA1 and mtaC1B1 mRNAs, while only a 27-nt 5' UTR was present in the pta-ackA transcript. Removal of the 5' UTRs significantly reduced the in vitro half-lives of mtaA1 and mtaC1B1 mRNAs. Remarkably, fusion of the mtaA1 or mtaC1B1 5' UTRs to pta-ackA mRNA increased its in vitro half-life at both 30°C and 15°C. These results demonstrate that the large 5' UTRs significantly enhance the stability of the mRNAs involved in methanol-derived methanogenesis in the cold-adaptive M. mazei zm-15.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • 5' Untranslated Regions
  • Cold Temperature
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal / chemistry
  • DNA, Ribosomal / genetics
  • Gene Expression Profiling
  • Methane / metabolism*
  • Methanol / metabolism*
  • Methanosarcina / genetics*
  • Methanosarcina / isolation & purification
  • Methanosarcina / metabolism*
  • Methanosarcina / radiation effects
  • Molecular Sequence Data
  • RNA Stability
  • RNA, Messenger / metabolism*
  • RNA, Ribosomal, 16S / genetics
  • Real-Time Polymerase Chain Reaction
  • Reverse Transcriptase Polymerase Chain Reaction
  • Sequence Analysis, DNA
  • Soil Microbiology
  • Tibet

Substances

  • 5' Untranslated Regions
  • DNA, Bacterial
  • DNA, Ribosomal
  • RNA, Messenger
  • RNA, Ribosomal, 16S
  • Methane
  • Methanol

Associated data

  • GENBANK/KF360007
  • GENBANK/KF360008
  • GENBANK/KF360009
  • GENBANK/KF360010
  • GENBANK/KF360011
  • GENBANK/KF360012
  • GENBANK/KF360013
  • GENBANK/KF360014
  • GENBANK/KF360015
  • GENBANK/KF360016
  • GENBANK/KF360017
  • GENBANK/KF360018
  • GENBANK/KF360019
  • GENBANK/KF360020
  • GENBANK/KF360021
  • GENBANK/KF360022
  • GENBANK/KF360023