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Amino Acids

, Volume 30, Issue 2, pp 163–171 | Cite as

In silico assessment of gene function involved in cysteine biosynthesis in Arabidopsis: expression analysis of multiple isoforms of serine acetyltransferase

  • M. Noji
  • C. Goulart Kawashima
  • T. Obayashi
  • K. Saito
Article

Summary.

In plants, the inorganic sulfur is first fixed into cysteine by the cysteine biosynthetic pathway. This biosynthetic pathway of cysteine involves several enzymatic reactions. In Arabidopsis thaliana, multiple isoforms seem to participate in each enzymatic step for cysteine biosynthesis. To obtain more insights on the specific role of each isoform involved in the cysteine biosynthesis, in silico analysis of these isoforms using Arabidopsis expressed sequence tags (EST) database was carried out. This EST database analysis revealed distinct population distribution of ESTs among multiple isoforms, suggesting that each isoform has its particular expression pattern, presumably associated with its specific role in cysteine biosynthesis. As another in silico analysis, co-expression analysis of genes involved in sulfur metabolism in Arabidopsis was performed using a public transcriptome database of DNA microarrays. This co-expression analysis also suggested specific function and co-regulation of some isoform genes for cysteine biosynthesis by consideration on the clustering of co-expressed genes. From the results of sensitivity to feedback regulation, subcellular localization and expression of mRNA analyses, each serine acetyltransferase (SATase) isoform seems to have its specific role for cysteine biosynthesis. Similar expression patterns were observed between the experimental results of expression data for SATase isoforms and the in silico results of “digital northern” analysis using EST database.

Keywords: Cysteine biosynthesis – Serine acetyltransferase – In silico – Expressed sequence tags – Co-expression analysis 

Abbreviations

APS

adenosine 5′-phosphosulfate

SATase

serine acetyltransferase

ESTs

Expressed sequence tags

OAS

O-acetyl-l-serine

PAPS

3′-phosphoadenosine 5′-phosphosulfate

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Copyright information

© Springer-Verlag/Wien 2006

Authors and Affiliations

  • M. Noji
    • 1
  • C. Goulart Kawashima
    • 1
  • T. Obayashi
    • 1
    • 2
  • K. Saito
    • 1
    • 2
    • 3
  1. 1.Department of Molecular Biology and BiotechnologyGraduate School of Pharmaceutical Sciences, Chiba University, Inage-kuChibaJapan
  2. 2.Core Research for Evolutional Science and Technology, Japan Science and Technology AgencyKawaguchiJapan
  3. 3.RIKEN Plant Science CenterTsurumi-kuJapan

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