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Title: DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure

Abstract

Summary Methanosarcina barkeri can grow only under strictly anoxic conditions because enzymes in methane formation pathways of are very oxygen sensitive. However, it has been determined that M. barkeri can survive oxidative stress. To obtain further knowledge of cellular changes in M. barkeri in responsive to oxidative and other environmental stress, a first whole-genome M. barkeri oligonucleotide microarray was constructed according to the draft genome sequence that contains 5072 open reading frames (ORFs) and was used to investigate the global transcriptomic response of M. barkeri to oxidative stress and heat shock. The result showed that 552 genes in the M. barkeri genome were responsive to oxidative stress, while 177 genes responsive to heat-shock, respectively using a cut off of 2.5 fold change. Among them, 101 genes were commonly responsive to both environmental stimuli. In addition to various house-keeping genes, large number of functionally unknown genes (38-57% of total responsive genes) was regulated by both stress conditions. The result showed that the Hsp60 (GroEL) system, which was previously thought not present in archaea, was up-regulated and may play important roles in protein biogenesis in responsive to heat shock in M. barkeri. No gene encoding superoxide dismutase, catalase, nonspecific peroxidases or thioredoxinmore » reductase was differentially expressed when subjected to oxidative stress. Instead, significant downregulation of house-keeping genes and up-regulation of genes encoding transposase was found in responsive to oxidative stress, suggesting that M. barkeri may be adopting a passive protective mechanism by slowing down cellular activities to survive the stress rather than activating a means against oxidative stress.« less

Authors:
; ; ;
Publication Date:
Research Org.:
Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
889038
Report Number(s):
PNNL-SA-45291
Journal ID: ISSN 1367-5435; TRN: US200619%%335
DOE Contract Number:  
AC05-76RL01830
Resource Type:
Journal Article
Resource Relation:
Journal Name: Journal of Industrial Microbiology and Biotechnology, 33(9):784-790; Journal Volume: 33; Journal Issue: 9
Country of Publication:
United States
Language:
English
Subject:
03 NATURAL GAS; AIR; CATALASE; DNA; ENZYMES; GENES; METHANE; OLIGONUCLEOTIDES; OXIDOREDUCTASES; OXYGEN; PEROXIDASES; PROTEINS; SLOWING-DOWN; STIMULI; SUPEROXIDE DISMUTASE; microarray; responses; heat-shock; oxidative stress

Citation Formats

Zhang, Weiwen, Culley, David E., Nie, Lei, and Brockman, Fred J. DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure. United States: N. p., 2006. Web. doi:10.1007/s10295-006-0114-3.
Zhang, Weiwen, Culley, David E., Nie, Lei, & Brockman, Fred J. DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure. United States. doi:10.1007/s10295-006-0114-3.
Zhang, Weiwen, Culley, David E., Nie, Lei, and Brockman, Fred J. Sat . "DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure". United States. doi:10.1007/s10295-006-0114-3.
@article{osti_889038,
title = {DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure},
author = {Zhang, Weiwen and Culley, David E. and Nie, Lei and Brockman, Fred J.},
abstractNote = {Summary Methanosarcina barkeri can grow only under strictly anoxic conditions because enzymes in methane formation pathways of are very oxygen sensitive. However, it has been determined that M. barkeri can survive oxidative stress. To obtain further knowledge of cellular changes in M. barkeri in responsive to oxidative and other environmental stress, a first whole-genome M. barkeri oligonucleotide microarray was constructed according to the draft genome sequence that contains 5072 open reading frames (ORFs) and was used to investigate the global transcriptomic response of M. barkeri to oxidative stress and heat shock. The result showed that 552 genes in the M. barkeri genome were responsive to oxidative stress, while 177 genes responsive to heat-shock, respectively using a cut off of 2.5 fold change. Among them, 101 genes were commonly responsive to both environmental stimuli. In addition to various house-keeping genes, large number of functionally unknown genes (38-57% of total responsive genes) was regulated by both stress conditions. The result showed that the Hsp60 (GroEL) system, which was previously thought not present in archaea, was up-regulated and may play important roles in protein biogenesis in responsive to heat shock in M. barkeri. No gene encoding superoxide dismutase, catalase, nonspecific peroxidases or thioredoxin reductase was differentially expressed when subjected to oxidative stress. Instead, significant downregulation of house-keeping genes and up-regulation of genes encoding transposase was found in responsive to oxidative stress, suggesting that M. barkeri may be adopting a passive protective mechanism by slowing down cellular activities to survive the stress rather than activating a means against oxidative stress.},
doi = {10.1007/s10295-006-0114-3},
journal = {Journal of Industrial Microbiology and Biotechnology, 33(9):784-790},
number = 9,
volume = 33,
place = {United States},
year = {Sat Apr 08 00:00:00 EDT 2006},
month = {Sat Apr 08 00:00:00 EDT 2006}
}