Advertisement

Proteomic Insights of Psychrophiles

  • Jun Kawamoto
  • Tatsuo KuriharaEmail author
  • Nobuyoshi Esaki
Chapter

Abstract

Proteomics is a comprehensive quantification and identification of proteins synthesized in the target of interests and, based on their whole genome sequences, provides a deep understanding of molecular basis for various biological processes that occur in the target. In the field of microbiology, proteomic studies have uncovered the molecular basis for metabolic systems, infection to host cells, stress adaptation, and so on. As for studies on psychrophiles, proteomics is also a powerful approach to quantitatively identify the proteins involved in their cold adaptation. In this chapter, we review various isolates from cold environments and research on their proteomics to understand how psychrophiles adapt to their cold habitats widely spread over the surface of the Earth. In order to highlight the growing of the proteomic studies on psychrophiles, we also discuss the proteomics of the next era, which has been developed by the combination of next-generation DNA sequencing technologies and high-throughput mass spectrometry.

References

  1. Bakermans C, Tollaksen SL, Giometti CS, Wilkerson C, Tiedje JM, Thomashow MF (2007) Proteomic analysis of Psychrobacter cryohalolentis K5 during growth at subzero temperatures. Extremophiles 11:343–354CrossRefPubMedGoogle Scholar
  2. Brigulla M, Hoffmann T, Krisp A, Volker A, Bremer E, Volker U (2003) Chill induction of the SigB-dependent general stress response in Bacillus subtilis and its contribution to low-temperature adaptation. J Bacteriol 185:4305–4314CrossRefPubMedPubMedCentralGoogle Scholar
  3. De Maayer P, Anderson D, Cary C, Cowan DA (2014) Some like it cold: understanding the survival strategies of psychrophiles. EMBO Rep 15:508–517CrossRefPubMedPubMedCentralGoogle Scholar
  4. Goodchild A, Saunders NF, Ertan H, Raftery M, Guilhaus M, Curmi PM, Cavicchioli R (2004) A proteomic determination of cold adaptation in the Antarctic archaeon, Methanococcoides burtonii. Mol Microbiol 53:309–321CrossRefPubMedGoogle Scholar
  5. Goodchild A, Raftery M, Saunders NF, Guilhaus M, Cavicchioli R (2005) Cold adaptation of the Antarctic archaeon, Methanococcoides burtonii assessed by proteomics using ICAT. J Proteome Res 4:473–480CrossRefPubMedGoogle Scholar
  6. Kawamoto J, Kurihara T, Kitagawa M, Kato I, Esaki N (2007) Proteomic studies of an Antarctic cold-adapted bacterium, Shewanella livingstonensis Ac10, for global identification of cold-inducible proteins. Extremophiles 11:819–826CrossRefPubMedGoogle Scholar
  7. Koch HG, Moser M, Muller M (2003) Signal recognition particle-dependent protein targeting, universal to all kingdoms of life. Rev Physiol Biochem Pharmacol 146:55–94CrossRefPubMedGoogle Scholar
  8. Pagani I, Liolios K, Jansson J, Chen IM, Smirnova T, Nosrat B, Markowitz VM, Kyrpides NC (2012) The genomes online database (GOLD) v. 4: status of genomic and metagenomic projects and their associated meta-data. Nucl Acids Res 40:D571–D579CrossRefPubMedGoogle Scholar
  9. Park J, Kawamoto J, Esaki N, Kurihara T (2012) Identification of cold-inducible inner membrane proteins of the psychrotrophic bacterium, Shewanella livingstonensis Ac10, by proteomic analysis. Extremophiles 16:227–236CrossRefPubMedGoogle Scholar
  10. Parlitz R, Eitan A, Stjepanovic G, Bahari L, Bange G, Bibi E, Sinning I (2007) Escherichia coli signal recognition particle receptor FtsY contains an essential and autonomous membrane-binding amphipathic helix. J Biol Chem 282:32176–32184CrossRefPubMedGoogle Scholar
  11. Pereira-Medrano AG, Margesin R, Wright PC (2012) Proteome characterization of the unsequenced psychrophile Pedobacter cryoconitis using 15N metabolic labeling, tandem mass spectrometry, and a new bioinformatic workflow. Proteomics 12:775–789CrossRefPubMedGoogle Scholar
  12. Seo JB, Kim HS, Jung GY, Nam MH, Chung JH, Kim JY, Yoo JS, Kim CW, Kwon O (2004) Psychrophilicity of Bacillus psychrosaccharolyticus: a proteomic study. Proteomics 4:3654–3659CrossRefPubMedGoogle Scholar
  13. Suzuki Y, Haruki M, Takano K, Morikawa M, Kanaya S (2004) Possible involvement of an FKBP family member protein from a psychrotrophic bacterium Shewanella sp. SIB1 in cold-adaptation. Eur J Biochem 271:1372–1381CrossRefPubMedGoogle Scholar
  14. Williams TJ, Burg DW, Raftery MJ, Poljak A, Guilhaus M, Pilak O, Cavicchioli R (2010) Global proteomic analysis of the insoluble, soluble, and supernatant fractions of the psychrophilic archaeon Methanococcoides burtonii. Part I: The effect of growth temperature. J Proteome Res 9:640–652CrossRefPubMedGoogle Scholar
  15. Zheng S, Ponder MA, Shih JY, Tiedje JM, Thomashow MF, Lubman DM (2007) A proteomic analysis of Psychrobacter articus 273-4 adaptation to low temperature and salinity using a 2-D liquid mapping approach. Electrophoresis 28:467–488CrossRefPubMedGoogle Scholar

Copyright information

© Springer International Publishing AG 2017

Authors and Affiliations

  • Jun Kawamoto
    • 1
  • Tatsuo Kurihara
    • 1
    Email author
  • Nobuyoshi Esaki
    • 1
  1. 1.Institute for Chemical ResearchKyoto UniversityUjiJapan

Personalised recommendations