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