High-throughput pyrosequencing of the chloroplast genome of a highly neutral-lipid-producing marine pennate diatom, Fistulifera sp. strain JPCC DA0580

Tsuyoshi Tanaka, Yorikane Fukuda, Tomoko Yoshino, Yoshiaki Maeda, Masaki Muto, Mitsufumi Matsumoto, Shigeki Mayama, Tadashi Matsunaga

Research output: Contribution to journalArticle

27 Citations (Scopus)

Abstract

The chloroplast genome of the highly neutrallipid- producing marine pennate diatom Fistulifera sp. strain JPCC DA0580 was fully sequenced using high-throughput pyrosequencing. The general features and gene content were compared with three other complete diatom chloroplast genomes. The chloroplast genome is 134,918 bp with an inverted repeat of 13,330 bp and is slightly larger than the other diatom chloroplast genomes due to several low genedensity regions lacking similarity to the other diatom chloroplast genomes. Protein-coding genes were nearly identical to those from Phaeodactylum tricornutum. On the other hand, we found unique sequence variations in genes of photosystem II which differ from the consensus in other diatom chloroplasts. Furthermore, five functional unknown ORFs and a putative serine recombinase gene, serC2, are located in the low gene-density regions. SerC2 was also identified in the plasmids of another pennate diatom, Cylindrotheca fusiformis, and in the plastid genome of the diatom endosymbiont of Kryptoperidinium foliaceum. Exogenous plasmids might have been incorporated into the chloroplast genome of Fistulifera sp. by lateral gene transfer. Chloroplast genome sequencing analysis of this novel diatom provides many important insights into diatom evolution.

Original languageEnglish
Pages (from-to)223-229
Number of pages7
JournalPhotosynthesis Research
Volume109
Issue number1-3
DOIs
Publication statusPublished - 2011 Sep
Externally publishedYes

Fingerprint

Chloroplast Genome
Diatoms
Bacillariophyceae
Genes
triacylglycerols
Throughput
Lipids
genes
plasmids
Plasmids
Plastid Genomes
Cylindrotheca
chloroplast genome
Horizontal Gene Transfer
Phaeodactylum tricornutum
Recombinases
Photosystem II Protein Complex
endosymbionts
Chloroplasts
photosystem II

Keywords

  • Chloroplast genome
  • Diatom
  • Endosymbiosis
  • Lateral gene transfer
  • Next-generation DNA sequencing

ASJC Scopus subject areas

  • Plant Science
  • Cell Biology
  • Biochemistry

Cite this

High-throughput pyrosequencing of the chloroplast genome of a highly neutral-lipid-producing marine pennate diatom, Fistulifera sp. strain JPCC DA0580. / Tanaka, Tsuyoshi; Fukuda, Yorikane; Yoshino, Tomoko; Maeda, Yoshiaki; Muto, Masaki; Matsumoto, Mitsufumi; Mayama, Shigeki; Matsunaga, Tadashi.

In: Photosynthesis Research, Vol. 109, No. 1-3, 09.2011, p. 223-229.

Research output: Contribution to journalArticle

Tanaka, Tsuyoshi ; Fukuda, Yorikane ; Yoshino, Tomoko ; Maeda, Yoshiaki ; Muto, Masaki ; Matsumoto, Mitsufumi ; Mayama, Shigeki ; Matsunaga, Tadashi. / High-throughput pyrosequencing of the chloroplast genome of a highly neutral-lipid-producing marine pennate diatom, Fistulifera sp. strain JPCC DA0580. In: Photosynthesis Research. 2011 ; Vol. 109, No. 1-3. pp. 223-229.
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