Global transcriptomic analysis of Cyanothece 51142 reveals robust diurnal oscillation of central metabolic processes

被引:145
作者
Stoeckel, Jana [1 ]
Welsh, Eric A. [1 ]
Liberton, Michelle [1 ]
Kunnvakkam, Rangesh [2 ]
Aurora, Rajeev [2 ]
Pakrasi, Himadri B. [1 ]
机构
[1] Washington Univ, Dept Biol, St Louis, MO 63130 USA
[2] St Louis Univ, Sch Med, Dept Mol Microbiol & Immunol, St Louis, MO 63104 USA
关键词
circadian; cyanobacteria; microarray; nitrogen fixation; photosynthesis;
D O I
10.1073/pnas.0711068105
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Cyanobacteria are photosynthetic organisms and are the only prokaryotes known to have a circadian lifestyle. Unicellular diazotrophic cyanobacteria such as Cyanothece sp. ATCC 51142 produce oxygen and can also fix atmospheric nitrogen, a process exquisitely sensitive to oxygen. To accommodate such antagonistic processes, the intracellular environment of Cyanothece oscillates between aerobic and anaerobic conditions during a day-night cycle. This is accomplished by temporal separation of the two processes: photosynthesis during the day and nitrogen fixation at night. Although previous studies have examined periodic changes in transcript levels for a limited number of genes in Cyanothece and other unicellular diazotrophic cyanobacteria, a comprehensive study of transcriptional activity in a nitrogen-fixing cyanobacterium is necessary to understand the impact of the temporal separation of photosynthesis and nitrogen fixation on global gene regulation and cellular metabolism. We have examined the expression patterns of nearly 5,000 genes in Cyanothece 51142 during two consecutive diurnal periods. Our analysis showed that approximate to 30% of these genes exhibited robust oscillating expression profiles. Interestingly, this set included genes for almost all central metabolic processes in Cyanothece 51142. A transcriptional network of all genes with significantly oscillating transcript levels revealed that the majority of genes encoding enzymes in numerous individual biochemical pathways, such as glycolysis, oxidative pentose phosphate pathway, and glycogen metabolism, were coregulated and maximally expressed at distinct phases during the diurnal cycle. These studies provide a comprehensive picture of how a physiologically relevant diurnal light-dark cycle influences the metabolism in a photosynthetic bacterium.
引用
收藏
页码:6156 / 6161
页数:6
相关论文
共 31 条
[1]   A promoter-trap vector for clock-controlled genes in the cyanobacterium Synechocystis sp PCC 6803 [J].
Aoki, S ;
Kondo, T ;
Ishiura, M .
JOURNAL OF MICROBIOLOGICAL METHODS, 2002, 49 (03) :265-274
[2]   A network of genes regulated by light in cyanobacteria [J].
Aurora, Rajeev ;
Hihara, Yukako ;
Singh, Abhay K. ;
Pakrasi, Himadri B. .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2007, 11 (02) :166-185
[3]   Global gene expression patterns of Nostoc punctiforme in steady-state dinitrogen-grown heterocyst-containing cultures and at single time points during the differentiation of akinetes and hormogonia [J].
Campbell, Elsie L. ;
Summers, Michael L. ;
Christman, Harry ;
Martin, Miriam E. ;
Meeks, John C. .
JOURNAL OF BACTERIOLOGY, 2007, 189 (14) :5247-5256
[4]   Mutational analysis of intervening sequences connecting the binding sites for integration host factor, PepA, PurR, and RNA polymerase in the control region of the Eschetichia coli carAB operon, encoding carbamoylphosphate synthase [J].
Devroede, N ;
Huysveld, N ;
Charlier, D .
JOURNAL OF BACTERIOLOGY, 2006, 188 (09) :3236-3245
[5]   How fungi keep time:: circadian system in Neurospora and other fungi [J].
Dunlap, Jay C. ;
Loros, Jennifer J. .
CURRENT OPINION IN MICROBIOLOGY, 2006, 9 (06) :579-587
[6]   Terminal oxidases of cyanobacteria [J].
Hart, SE ;
Schlarb-Ridley, BG ;
Bendall, DS ;
Howe, CJ .
BIOCHEMICAL SOCIETY TRANSACTIONS, 2005, 33 :832-835
[7]   HETEROCYSTS [J].
HASELKORN, R .
ANNUAL REVIEW OF PLANT PHYSIOLOGY AND PLANT MOLECULAR BIOLOGY, 1978, 29 :319-344
[8]   Relationship between gene expression and observed intensities in DNA microarrays - a modeling study [J].
Held, G. A. ;
Grinstein, G. ;
Tu, Y. .
NUCLEIC ACIDS RESEARCH, 2006, 34 (09)
[9]   Neurons and networks in daily rhythms [J].
Herzog, Erik D. .
NATURE REVIEWS NEUROSCIENCE, 2007, 8 (10) :790-802
[10]   Modulation of environmental responses of plants by circadian clocks [J].
Hotta, Carlos T. ;
Gardner, Michael J. ;
Hubbard, Katharine E. ;
Baek, Seong Jin ;
Dalchau, Neil ;
Suhita, Dontamala ;
Dodd, Antony N. ;
Webb, Alex A. R. .
PLANT CELL AND ENVIRONMENT, 2007, 30 (03) :333-349