title: Genomic structure of the cyanobacterium Synechocystis sp. PCC 6803 strain GT-S.
abstract: Synechocystis sp. PCC 6803 is the most popular cyanobacterial strain, serving as a standard in the research fields of photosynthesis, stress response, metabolism and so on. A glucose-tolerant (GT) derivative of this strain was used for genome sequencing at Kazusa DNA Research Institute in 1996, which established a hallmark in the study of cyanobacteria. However, apparent differences in sequences deviating from the database have been noticed among different strain stocks. For this reason, we analysed the genomic sequence of another GT strain (GT-S) by 454 and partial Sanger sequencing. We found 22 putative single nucleotide polymorphisms (SNPs) in comparison to the published sequence of the Kazusa strain. However, Sanger sequencing of 36 direct PCR products of the Kazusa strains stored in small aliquots resulted in their identity with the GT-S sequence at 21 of the 22 sites, excluding the possibility of their being SNPs. In addition, we were able to combine five split open reading frames present in the database sequence, and to remove the C-terminus of an ORF. Aside from these, two of the Insertion Sequence elements were not present in the GT-S strain. We have thus become able to provide an accurate genomic sequence of Synechocystis sp. PCC 6803 for future studies on this important cyanobacterial strain.
authors.affiliation: Department of Life Sciences, Graduate School of Arts and Sciences, University of Tokyo, Komaba 3-8-1, Meguro-ku, Tokyo 153-8902, Japan.
authors.forename: Naoyuki
authors.initials: N
authors.lastname: Tajima
authors.forename: Shusei
authors.initials: S
authors.lastname: Sato
authors.forename: Fumito
authors.initials: F
authors.lastname: Maruyama
authors.forename: Takakazu
authors.initials: T
authors.lastname: Kaneko
authors.forename: Naobumi V
authors.initials: NV
authors.lastname: Sasaki
authors.forename: Ken
authors.initials: K
authors.lastname: Kurokawa
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Ohta
authors.forename: Yu
authors.initials: Y
authors.lastname: Kanesaki
authors.forename: Hirofumi
authors.initials: H
authors.lastname: Yoshikawa
authors.forename: Satoshi
authors.initials: S
authors.lastname: Tabata
authors.forename: Masahiko
authors.initials: M
authors.lastname: Ikeuchi
authors.forename: Naoki
authors.initials: N
authors.lastname: Sato
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000235:genetics; D002874:Chromosome Mapping; D000458:Cyanobacteria / Q000145:classification / Q000235:genetics; D004251:DNA Transposable Elements; D030541:Databases, Genetic; D016680:Genome, Bacterial / Q000235:genetics*; D008969:Molecular Sequence Data; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D012015:Reference Standards; D017422:Sequence Analysis, DNA; D013045:Species Specificity; D046939:Synechocystis / Q000145:classification* / Q000235:genetics*
chemical_list: D001426:Bacterial Proteins; D004251:DNA Transposable Elements