Whole genome de novo sequencing and genome annotation of the world popular cultivated edible mushroom, Lentinula edodes

Donghwan Shim; Sin-Gi Park; Kangmin Kim; Wonsil Bae; Gir Won Lee; Byeong-Suk Ha; Hyeon-Su Ro; Myungkil Kim; Rhim Ryoo; Sung-Keun Rhee; Ill-Sup Nou; Chang-Duck Koo; Chang Pyo Hong; Hojin Ryu

doi:10.1016/j.jbiotec.2016.02.032

Whole genome de novo sequencing and genome annotation of the world popular cultivated edible mushroom, Lentinula edodes

J Biotechnol. 2016 Apr 10:223:24-5. doi: 10.1016/j.jbiotec.2016.02.032. Epub 2016 Feb 26.

Authors

Donghwan Shim¹, Sin-Gi Park², Kangmin Kim³, Wonsil Bae⁴, Gir Won Lee², Byeong-Suk Ha⁵, Hyeon-Su Ro⁵, Myungkil Kim⁶, Rhim Ryoo⁶, Sung-Keun Rhee⁷, Ill-Sup Nou⁸, Chang-Duck Koo⁹, Chang Pyo Hong¹⁰, Hojin Ryu¹¹

Affiliations

¹ Department of Forest Genetic Resources, National Institute of Forest Science, Suwon 16631, Republic of Korea.
² Theragen Etex Bio Institute, Suwon 16229, Republic of Korea.
³ Division of Biotechnology, College of Environmental and Bioresource Sciences, Chonbuk National University, Iksan 54596, Republic of Korea.
⁴ Department of Biology, Chungbuk National University, Cheongju 28644, Republic of Korea.
⁵ Division of Applied Life Science and Research Institute of Life Sciences, Gyeongsang National University, Jinju 52828, Republic of Korea.
⁶ Division of Wood Chemistry & Microbiology, National Institute of Forest Science, Seoul 02455, Republic of Korea.
⁷ Department of Microbiology, Chungbuk National University, Cheongju 28644, Republic of Korea.
⁸ Department of Horticulture, Sunchon National University, Suncheon, Republic of Korea.
⁹ Department of Forest Science, Chungbuk National University, Cheongju 28644, Republic of Korea.
¹⁰ Theragen Etex Bio Institute, Suwon 16229, Republic of Korea. Electronic address: changpyo.hong@theragenetex.com.
¹¹ Department of Biology, Chungbuk National University, Cheongju 28644, Republic of Korea. Electronic address: hjryu96@gmail.com.

PMID: 26924240
DOI: 10.1016/j.jbiotec.2016.02.032

Abstract

Lentinula edodes, the popular shiitake mushroom, is one of the most important cultivated edible mushrooms. It is used as a food and for medicinal purposes. Here, we present the 46.1 Mb draft genome of L. edodes, comprising 13,028 predicted gene models. The genome assembly consists of 31 scaffolds. Gene annotation provides key information about various signaling pathways and secondary metabolites. This genomic information should help establish the molecular genetic markers for MAS/MAB and increase our understanding of the genome structure and function.

Keywords: Genome sequence; Lentinan; Lentinula edodes B17; Lignocellulolytic enzymes; Shiitake mushroom.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Genome Size
Genome, Fungal*
Molecular Sequence Annotation
Sequence Analysis, DNA / methods*
Shiitake Mushrooms / genetics*