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Title: Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica

Journal Article · · Nature Communications
DOI:https://doi.org/10.1038/ncomms3156· OSTI ID:1623920
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  1. Max-Planck Inst. for Molecular Genetics, Berlin-Dahlem (Germany); Humboldt Univ. of Berlin (Germany). Dept. of Crop and Animal Science. Section Phytomedicine
  2. HZI—Helmholtz Centre for Infection Research, Braunschweig (Germany). Environmental Microbiology Group; Bangor Univ., Wales (United Kingdom). School of Biological Sciences
  3. Consejo Superior de Investigaciones Cientificas (CSIC), Madrid (Spain). Inst. of Catalysis
  4. Consejo Superior de Investigaciones Cientificas (CSIC), Madrid (Spain). Inst. of Catalysis; Univ. of Sao Paulo (Brazil). Dept. de Quimica
  5. Helmholtz Centre for Environmental Research-UFZ, Leipzig (Germany). Dept. of Environmental Biotechnology
  6. Max-Planck Inst. for Molecular Genetics, Berlin-Dahlem (Germany)
  7. HZI—Helmholtz Centre for Infection Research, Braunschweig (Germany). Environmental Microbiology Group
  8. Consejo Superior de Investigaciones Cientificas (CSIC), Madrid (Spain). National Centre for Biotechnology. Proteomic Facility
  9. Univ. of Toronto, ON (Canada). The Banting and Best Dept. of Medical Research; Argonne National Lab. (ANL), Argonne, IL (United States). Midwest Center for Structural Genomics. Biosciences Division
  10. Argonne National Lab. (ANL), Argonne, IL (United States). Midwest Center for Structural Genomics. Biosciences Division; Univ. of Toronto, ON (Canada). C. H. Best Inst. Dept. of Chemical Engineering and Applied Chemistry
  11. Univ. of Toronto, ON (Canada). C. H. Best Inst. Dept. of Chemical Engineering and Applied Chemistry
  12. Argonne National Lab. (ANL), Argonne, IL (United States). Midwest Center for Structural Genomics. Biosciences Division; Argonne National Lab. (ANL), Argonne, IL (United States). Structural Biology Center. Biosciences Division
  13. Univ. of Toronto, ON (Canada). The Banting and Best Dept. of Medical Research
  14. Inst. for Coastal Marine Environment (IAMC), CNR, Messina (Italy). Lab. of Marine Molecular Microbiology
  15. Univ. of Pretoria (South Africa). Dept. of Biochemsitry
  16. UCM—Complutense University Madrid (Spain). Proteomics Unit
  17. Bangor Univ., Wales (United Kingdom). School of Biological Sciences
  18. Univ. of Toronto, ON (Canada). The Banting and Best Dept. of Medical Research; Argonne National Lab. (ANL), Argonne, IL (United States). Midwest Center for Structural Genomics. Biosciences Division; Univ. of Toronto, ON (Canada). C.H. Best Inst. Dept. of Chemical Engineering and Applied Chemistry
  19. Univ. of Toronto, ON (Canada). C.H. Best Inst. Dept. of Chemical Engineering and Applied Chemistry
+ Show Author Affiliations

Ubiquitous bacteria from the genus Oleispira drive oil degradation in the largest environment on Earth, the cold and deep sea. Here we report the genome sequence of Oleispira antarctica and show that compared with Alcanivorax borkumensis—the paradigm of mesophilic hydrocarbonoclastic bacteria—O. antarctica has a larger genome that has witnessed massive gene-transfer events. We identify an array of alkane monooxygenases, osmoprotectants, siderophores and micronutrient-scavenging pathways. We also show that at low temperatures, the main protein-folding machine Cpn60 functions as a single heptameric barrel that uses larger proteins as substrates compared with the classical double-barrel structure observed at higher temperatures. With 11 protein crystal structures, we further report the largest set of structures from one psychrotolerant organism. The most common structural feature is an increased content of surface-exposed negatively charged residues compared to their mesophilic counterparts. Our findings are relevant in the context of microbial cold-adaptation mechanisms and the development of strategies for oil-spill mitigation in cold environments.

Research Organization:
Argonne National Laboratory (ANL), Argonne, IL (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division; European Union (EU); Genome Canada; National Institutes of Health (NIH); German Research Foundation (DFG)
Grant/Contract Number:
AC02-06CH11357; 226977; 266473; 245226; 287589; 2009-OGI-ABC-1405; GM074942; GM094585
OSTI ID:
1623920
Journal Information:
Nature Communications, Vol. 4, Issue 1; ISSN 2041-1723
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English

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Cited By (22)

Living at the Frontiers of Life: Extremophiles in Chile and Their Potential for Bioremediation journal October 2018
The structure of the hexameric atrazine chlorohydrolase AtzA journal February 2015
Enzymes from Marine Polar Regions and Their Biotechnological Applications journal September 2019
Giant flagellins form thick flagellar filaments in two species of marine γ-proteobacteria journal November 2018
Estimating the success of enzyme bioprospecting through metagenomics: current status and future trends: Enzyme bioprospecting by metagenomics journal August 2015
Grand Challenges in Marine Biotechnology: Overview of Recent EU-Funded Projects book May 2018
Environmental switching during biofilm development in a cold seep system and functional determinants of species sorting journal January 2016
An overview of siderophores for iron acquisition in microorganisms living in the extreme journal July 2016
Effects of a Simulated Acute Oil Spillage on Bacterial Communities from Arctic and Antarctic Marine Sediments journal November 2019
Vying over spilt oil journal February 2014
Bacterial Community Response in Deep Faroe-Shetland Channel Sediments Following Hydrocarbon Entrainment With and Without Dispersant Addition journal May 2018
Metaproteomics and metabolomics analyses of chronically petroleum‐polluted sites reveal the importance of general anaerobic processes uncoupled with degradation journal August 2015
The environment shapes microbial enzymes: five cold-active and salt-resistant carboxylesterases from marine metagenomes journal September 2014
Bacterial population and biodegradation potential in chronically crude oil-contaminated marine sediments are strongly linked to temperature journal June 2015
Single-cell genomics reveals features of a Colwellia species that was dominant during the Deepwater Horizon oil spill journal July 2014
Bacterial communities versus anthropogenic disturbances in the Antarctic coastal marine environment journal June 2019
Implementing Morpholino-Based Nucleic Acid Sensing on a Portable Surface Plasmon Resonance Instrument for Future Application in Environmental Monitoring journal September 2018
Intracellular Metabolic Changes of Rhodococcus sp. LH During the Biodegradation of Diesel Oil journal September 2018
Ecosystem function and services provided by the deep sea posted_content November 2013
Prospects for harnessing biocide resistance for bioremediation and detoxification journal May 2018
Genome and proteome analysis of P seudomonas chloritidismutans  AW-1 T that grows on n -decane with chlorate or oxygen as electron acceptor : Proteogenomics of journal June 2015
Discovery, Molecular Mechanisms, and Industrial Applications of Cold-Active Enzymes journal September 2016

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