Genome-wide identification and localization of chalcone synthase family in soybean (Glycine max [L]Merr)

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DOI

https://doi.org/10.1186/s12870-018-1569-x

Language of the publication
English
Date
2018-12-04
Type
Article
Author(s)
  • Anguraj Vadivel, Arun Kumaran
  • Krysiak, Kevin
  • Tian, Gang
  • Dhaubhadel, Sangeeta
Publisher
Springer Nature

Alternative title

Genome-wide identification and localization of chalcone synthase family in soybean (Glycine max [L]Merr)

Abstract

Background: Soybean is a paleopolyploid that has undergone two whole genome duplication events. Gene duplication is a type of genomic change that can lead to novel functions of pre-existing genes. Chalcone synthase (CHS) is the plant-specific type III polyketide synthase that catalyzes the first committed step in (iso)flavonoid biosynthesis in plants. Results: Here we performed a genome-wide search of CHS genes in soybean, and identified 21 GmCHS loci containing 14 unique GmCHS (GmCHS1-GmCHS14) that included 5 newly identified GmCHSs (GmCHS10-GmCHS14). Furthermore, 3 copies of GmCHS3 and 2 copies of GmCHS4 were found in soybean. Analysis of gene structure of GmCHSs revealed the presence of a single intron in protein-coding regions except for GmCHS12 that contained 3 introns. Even though GmCHS genes are located on 8 different chromosomes, a large number of these genes are present on chromosome 8 where they form 3 distinct clusters. Expression analysis of GmCHS genes revealed tissue-specific expression pattern, and that some GmCHS isoforms localize in the cytoplasm and the nucleus while other isoforms are restricted to cytoplasm only. Conclusion: Overall, we have identified 21 GmCHS loci with 14 unique GmCHS genes in the soybean genome. Their gene structures and genomic organization together with the spatio-temporal expression and protein localization suggest their importance in the production of downstream metabolites such as (iso)flavonoids and their derived phytoalexins.

Subject

  • Agriculture

Keywords

  • chalcone synthase,
  • isoflavonoids,
  • flavonoids,
  • gene duplication,
  • gene expression,
  • soybean,
  • gene family

Peer review

Yes

Open access level

Gold

Identifiers

ISSN
1471-2229

Article

Journal title
BMC Plant Biology
Journal volume
18

Citation(s)

Anguraj Vadivel, A. K., Krysiak, K., Tian, G., & Dhaubhadel, S. (2018). Genome-wide identification and localization of chalcone synthase family in soybean (Glycine max [L]Merr). BMC Plant Biology, 18. https://doi.org/10.1186/s12870-018-1569-x

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