Genome analysis of Hibiscus syriacus provides insights of polyploidization and indeterminate flowering in woody plants

Yong Min Kim, Seungill Kim, Namjin Koo, Ah Young Shin, Seon In Yeom, Eunyoung Seo, Seong Jin Park, Won Hee Kang, Myung Shin Kim, Jieun Park, Insu Jang, Pan Gyu Kim, Iksu Byeon, Min Seo Kim, Jin Hyuk Choi, Gunhwan Ko, Ji Hye Hwang, Tae Jin Yang, Sang Bong Choi, Je Min LeeKi Byung Lim, Jungho Lee, Ik Young Choi, Beom Seok Park, Suk Yoon Kwon, Doil Choi, Ryan W. Kim

Research output: Contribution to journalArticlepeer-review

50 Scopus citations

Abstract

Hibiscus syriacus (L.) (rose of Sharon) is one of the most widespread garden shrubs in the world. We report a draft of the H. syriacus genome comprised of a 1.75 Gb assembly that covers 92% of the genome with only 1.7% (33 Mb) gap sequences. Predicted gene modeling detected 87,603 genes, mostly supported by deep RNA sequencing data. To define gene family distribution among relatives of H. syriacus, orthologous gene sets containing 164,660 genes in 21,472 clusters were identified by OrthoMCL analysis of five plant species, including H. syriacus, Arabidopsis thaliana, Gossypium raimondii, Theobroma cacao and Amborella trichopoda. We inferred their evolutionary relationships based on divergence times among Malvaceae plant genes and found that gene families involved in flowering regulation and disease resistance were more highly divergent and expanded in H. syriacus than in its close relatives, G. raimondii (DD) and T. cacao. Clustered gene families and gene collinearity analysis revealed that two recent rounds of whole-genome duplication were followed by diploidization of the H. syriacus genome after speciation. Copy number variation and phylogenetic divergence indicates that WGDs and subsequent diploidization led to unequal duplication and deletion of flowering-related genes in H. syriacus and may affect its unique floral morphology.

Original languageEnglish
Pages (from-to)71-80
Number of pages10
JournalDNA Research
Volume24
Issue number1
DOIs
StatePublished - 1 Feb 2017

Keywords

  • Diploidization
  • Hibiscus syriacus
  • Homeolog
  • Multivoltinism
  • Whole Genome Duplication

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