Genomic discovery of the hypsin gene and biosynthetic pathways for terpenoids in Hypsizygus marmoreus

Byoungnam Min, Seunghwan Kim, Youn Lee Oh, Won Sik Kong, Hongjae Park, Heejung Cho, Kab Yeul Jang, Jeong Gu Kim, In-Geol Choi

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

BACKGROUND: Hypsizygus marmoreus (Beech mushroom) is a popular ingredient in Asian cuisine. The medicinal effects of its bioactive compounds such as hypsin and hypsiziprenol have been reported, but the genetic basis or biosynthesis of these components is unknown.

RESULTS: In this study, we sequenced a reference strain of H. marmoreus (Haemi 51,987-8). We evaluated various assembly strategies, and as a result the Allpaths and PBJelly produced the best assembly. The resulting genome was 42.7 Mbp in length and annotated with 16,627 gene models. A putative gene (Hypma_04324) encoding the antifungal and antiproliferative hypsin protein with 75% sequence identity with the previously known N-terminal sequence was identified. Carbohydrate active enzyme analysis displayed the typical feature of white-rot fungi where auxiliary activity and carbohydrate-binding modules were enriched. The genome annotation revealed four terpene synthase genes responsible for terpenoid biosynthesis. From the gene tree analysis, we identified that terpene synthase genes can be classified into six clades. Four terpene synthase genes of H. marmoreus belonged to four different groups that implies they may be involved in the synthesis of different structures of terpenes. A terpene synthase gene cluster was well-conserved in Agaricomycetes genomes, which contained known biosynthesis and regulatory genes.

CONCLUSIONS: Genome sequence analysis of this mushroom led to the discovery of the hypsin gene. Comparative genome analysis revealed the conserved gene cluster for terpenoid biosynthesis in the genome. These discoveries will further our understanding of the biosynthesis of medicinal bioactive molecules in this edible mushroom.

Original languageEnglish
Number of pages1
JournalBMC Genomics
Volume19
Issue number1
DOIs
Publication statusPublished - 2018 Nov 1

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Biosynthetic Pathways
Terpenes
Genetic Association Studies
Genome
Agaricales
Genes
Multigene Family
Carbohydrates
Fagus
Regulator Genes
Sequence Analysis
Fungi
terpene synthase
Enzymes
Proteins

Keywords

  • Beech mushroom
  • Fungal genome
  • Hypsin
  • Hypsiziprenol A9
  • Hypsizygus marmoreus
  • Marmorin
  • Secondary metabolism

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Cite this

Genomic discovery of the hypsin gene and biosynthetic pathways for terpenoids in Hypsizygus marmoreus. / Min, Byoungnam; Kim, Seunghwan; Oh, Youn Lee; Kong, Won Sik; Park, Hongjae; Cho, Heejung; Jang, Kab Yeul; Kim, Jeong Gu; Choi, In-Geol.

In: BMC Genomics, Vol. 19, No. 1, 01.11.2018.

Research output: Contribution to journalArticle

Min, Byoungnam ; Kim, Seunghwan ; Oh, Youn Lee ; Kong, Won Sik ; Park, Hongjae ; Cho, Heejung ; Jang, Kab Yeul ; Kim, Jeong Gu ; Choi, In-Geol. / Genomic discovery of the hypsin gene and biosynthetic pathways for terpenoids in Hypsizygus marmoreus. In: BMC Genomics. 2018 ; Vol. 19, No. 1.
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AU - Min, Byoungnam

AU - Kim, Seunghwan

AU - Oh, Youn Lee

AU - Kong, Won Sik

AU - Park, Hongjae

AU - Cho, Heejung

AU - Jang, Kab Yeul

AU - Kim, Jeong Gu

AU - Choi, In-Geol

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AB - BACKGROUND: Hypsizygus marmoreus (Beech mushroom) is a popular ingredient in Asian cuisine. The medicinal effects of its bioactive compounds such as hypsin and hypsiziprenol have been reported, but the genetic basis or biosynthesis of these components is unknown.RESULTS: In this study, we sequenced a reference strain of H. marmoreus (Haemi 51,987-8). We evaluated various assembly strategies, and as a result the Allpaths and PBJelly produced the best assembly. The resulting genome was 42.7 Mbp in length and annotated with 16,627 gene models. A putative gene (Hypma_04324) encoding the antifungal and antiproliferative hypsin protein with 75% sequence identity with the previously known N-terminal sequence was identified. Carbohydrate active enzyme analysis displayed the typical feature of white-rot fungi where auxiliary activity and carbohydrate-binding modules were enriched. The genome annotation revealed four terpene synthase genes responsible for terpenoid biosynthesis. From the gene tree analysis, we identified that terpene synthase genes can be classified into six clades. Four terpene synthase genes of H. marmoreus belonged to four different groups that implies they may be involved in the synthesis of different structures of terpenes. A terpene synthase gene cluster was well-conserved in Agaricomycetes genomes, which contained known biosynthesis and regulatory genes.CONCLUSIONS: Genome sequence analysis of this mushroom led to the discovery of the hypsin gene. Comparative genome analysis revealed the conserved gene cluster for terpenoid biosynthesis in the genome. These discoveries will further our understanding of the biosynthesis of medicinal bioactive molecules in this edible mushroom.

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KW - Marmorin

KW - Secondary metabolism

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