Use of segment-based microarray in the analysis of global gene expression in response to various environmental stresses in the cyanobacterium Anabaena sp. PCC 7120.
We prepared microarrays that contain genomic sequences of a heterocyst-forming filamentous cyanobacterium Anabaena sp. PCC 7120. The complete genome of this cyanobacterium codes for about 5,368 protein-coding genes in the main chromosome of 6.4 Mbp. In total, 2,407 DNA segments were selected from the sequencing clones, and amplified by PCR, then spotted on glass slides in duplicate. These microarrays differ from the widely used commercial or custom-made ones for other microorganisms in that each DNA segment was 3-4 kbp long, and contained about 3-4 predicted genes on average. This feature, however, did not decrease the usefulness of the microarrays, since we were able to detect a number of potentially novel genes that are induced in response to nitrogen deprivation, low temperature and drought. In addition, we found some genomic regions in which dozens of contiguous genes are simultaneously regulated. These results suggest that these segment-based microarrays are useful especially for such large genomes as Anabaena, for which the number of genes exceeds either technical or practical limitations.
Sato
Naoki
N
Department of Biochemistry and Molecular Biology, Faculty of Science, Saitama University, Saitama 338-8570, Japan. naokisat@molbiol.saitama-u.ac.jp
Ohmori
Masayuki
M
Ikeuchi
Masahiko
M
Tashiro
Kousuke
K
Wolk
C Peter
CP
Kaneko
Takakazu
T
Okada
Katsuhiko
K
Tsuzuki
Mikio
M
Ehira
Shigeki
S
Katoh
Hiroshi
H
Okamoto
Shinobu
S
Yoshimura
Hidehisa
H
Fujisawa
Takatomo
T
Kamei
Ayako
A
Yoshihara
Shizue
S
Narikawa
Rei
R
Hamano
Takashi
T
Tabata
Satoshi
S
Kuhara
Satoshi
S
D017033:Anabaena / Q000235:genetics* / Q000378:metabolism / Q000502:physiology; D003080:Cold Temperature; D004190:Disasters; D015964:Gene Expression Regulation, Bacterial / Q000502:physiology*; D016680:Genome, Bacterial; D009584:Nitrogen / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods
D009584:Nitrogen