Transcriptome Analysis of a Cultivar of Green Perilla (<I>Perilla frutescens</I>) Using Genetic Similarity with Other Plants via Public Databases

• TANIGAKI Yusuke

  Department of Mechanical Engineering, Graduate School of Engineering, Osaka Prefecture University

• HIGASHI Takanobu

  Department of Applied Life Sciences, Graduate School of Life and Environmental Sciences, Osaka Prefecture University

• NAGANO Atsushi J.

  Faculty of Agriculture, Ryukoku University JST CREST Center for Ecological Research, Kyoto University

• HONJO Mie N.

  Center for Ecological Research, Kyoto University

• FUKUDA Hirokazu

  Department of Mechanical Engineering, Graduate School of Engineering, Osaka Prefecture University JST PRESTO

Bibliographic Information

Other Title

• Transcriptome Analysis of a Cultivar of Green Perilla (Perilla frutescens) Using Genetic Similarity with Other Plants via Public Databases

Abstract

Improving the yield and quality of crops is imperative within agriculture. Both traits depend on gene expression and metabolic activities that are affected by environmental factor, and are therefore complex and variable. Transcriptome analysis is a helpful method to understand gene expression profiles in vivo; however, most crops are in fact cultivars for which there is little genetic information. In this study, we determined gene expression profiles of Perilla frutescens var. crispa f. viridis, a cultivar of green perilla. We compared the transcriptome gene sequence of P. frutescens in leaves and roots after 7, 14, and 35 d of growth with the gene sequences of other plants in public databases. Green perilla showed the highest similarity to Mimulus guttatus (Lamiales). Genetic information for approximately 13,000 genes was evaluated, and many of these genes have been classified into the organism's biological processes using Gene Ontology analysis. De novo-based gene expression levels and other plants-based gene expression levels were similar in 90% of genes. Results suggest that information from public databases can assist in analyzing the genetic information of cultivars. This method will be a platform for providing rapid and cost-effective options for use in commercial agriculture.

Journal

• Environment Control in Biology

  Environment Control in Biology 55 (2), 77-83, 2017

  Japanese Society of Agricultural, Biological and Environmental Engineers and Scientists

Keywords

• agriculture
• cultivar
• <I>Perilla frutescens</I>
• transcriptome analysis

Details

• CRID: 1390282680237279872
• NII Article ID: 130005607981
• NII Book ID: AA12029220
• DOI: 10.2525/ecb.55.77
• ISSN: 18830986
• ISSN: 1880554X
• NDL BIB ID: 028154706
• Web Site: https://ndlsearch.ndl.go.jp/books/R000000004-I028154706
• Web Site: https://www.jstage.jst.go.jp/article/ecb/55/2/55_77/_pdf
• Text Lang: en
• Data Source:
  • JaLC
  • NDL
  • Crossref
  • CiNii Articles
  • KAKEN
• Abstract License Flag: Disallowed