The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb

Liang Yan; Xiao Wang; Hui Liu; Yang Tian; Jinmin Lian; Ruijuan Yang; Shumei Hao; Xuanjun Wang; Shengchao Yang; Qiye Li; Shuai Qi; Ling Kui; Moses Okpekum; Xiao Ma; Jiajin Zhang; Zhaoli Ding; Guojie Zhang; Wen Wang; Yang Dong; Jun Sheng

doi:10.1016/j.molp.2014.12.011

The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb

Liang Yan, Xiao Wang, Hui Liu, Yang Tian, Jinmin Lian, Ruijuan Yang, Shumei Hao, Xuanjun Wang, Shengchao Yang, Qiye Li, Shuai Qi, Ling Kui, Moses Okpekum, Xiao Ma, Jiajin Zhang, Zhaoli Ding, Guojie Zhang, Wen Wang, Yang Dong, Jun Sheng

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242 引用（Scopus）

摘要

Dendrobium officinale Kimura et Migo is a traditional Chinese orchid herb that has both ornamental value and a broad range of therapeutic effects. Here, we report the first de novo assembled 1.35 Gb genome sequences for D. officinale by combining the second-generation Illumina Hiseq 2000 and third-generation PacBio sequencing technologies. We found that orchids have a complete inflorescence gene set and have some specific inflorescence genes. We observed gene expansion in gene families related to fungus symbiosis and drought resistance. We analyzed biosynthesis pathways of medicinal components of D. officinale and found extensive duplication of SPS and SuSy genes, which are related to polysaccharide generation, and that the pathway of D. officinale alkaloid synthesis could be extended to generate 16-epivellosimine. The D. officinale genome assembly demonstrates a new approach to deciphering large complex genomes and, as an important orchid species and a traditional Chinese medicine, the D. officinale genome will facilitate future research on the evolution of orchid plants, as well as the study of medicinal components and potential genetic breeding of the dendrobe.

源语言	英语
页（从-至）	922-934
页数	13
期刊	Molecular Plant
卷	8
期	6
DOI	https://doi.org/10.1016/j.molp.2014.12.011
出版状态	已出版 - 1 6月 2015
已对外发布	是

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Yan, L., Wang, X., Liu, H., Tian, Y., Lian, J., Yang, R., Hao, S., Wang, X., Yang, S., Li, Q., Qi, S., Kui, L., Okpekum, M., Ma, X., Zhang, J., Ding, Z., Zhang, G., Wang, W., Dong, Y., & Sheng, J. (2015). The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb. Molecular Plant, 8(6), 922-934. https://doi.org/10.1016/j.molp.2014.12.011

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title = "The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb",

abstract = "Dendrobium officinale Kimura et Migo is a traditional Chinese orchid herb that has both ornamental value and a broad range of therapeutic effects. Here, we report the first de novo assembled 1.35 Gb genome sequences for D. officinale by combining the second-generation Illumina Hiseq 2000 and third-generation PacBio sequencing technologies. We found that orchids have a complete inflorescence gene set and have some specific inflorescence genes. We observed gene expansion in gene families related to fungus symbiosis and drought resistance. We analyzed biosynthesis pathways of medicinal components of D. officinale and found extensive duplication of SPS and SuSy genes, which are related to polysaccharide generation, and that the pathway of D. officinale alkaloid synthesis could be extended to generate 16-epivellosimine. The D. officinale genome assembly demonstrates a new approach to deciphering large complex genomes and, as an important orchid species and a traditional Chinese medicine, the D. officinale genome will facilitate future research on the evolution of orchid plants, as well as the study of medicinal components and potential genetic breeding of the dendrobe.",

keywords = "Dendrobium officinale, genome, Illunima, orchid plant, PacBio",

author = "Liang Yan and Xiao Wang and Hui Liu and Yang Tian and Jinmin Lian and Ruijuan Yang and Shumei Hao and Xuanjun Wang and Shengchao Yang and Qiye Li and Shuai Qi and Ling Kui and Moses Okpekum and Xiao Ma and Jiajin Zhang and Zhaoli Ding and Guojie Zhang and Wen Wang and Yang Dong and Jun Sheng",

note = "Publisher Copyright: {\textcopyright} 2015 The Author.",

year = "2015",

month = jun,

day = "1",

doi = "10.1016/j.molp.2014.12.011",

language = "英语",

volume = "8",

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Yan, L, Wang, X, Liu, H, Tian, Y, Lian, J, Yang, R, Hao, S, Wang, X, Yang, S, Li, Q, Qi, S, Kui, L, Okpekum, M, Ma, X, Zhang, J, Ding, Z, Zhang, G, Wang, W, Dong, Y & Sheng, J 2015, 'The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb', Molecular Plant, 卷 8, 号码 6, 页码 922-934. https://doi.org/10.1016/j.molp.2014.12.011

TY - JOUR

T1 - The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb

AU - Yan, Liang

AU - Wang, Xiao

AU - Liu, Hui

AU - Tian, Yang

AU - Lian, Jinmin

AU - Yang, Ruijuan

AU - Hao, Shumei

AU - Wang, Xuanjun

AU - Yang, Shengchao

AU - Li, Qiye

AU - Qi, Shuai

AU - Kui, Ling

AU - Okpekum, Moses

AU - Ma, Xiao

AU - Zhang, Jiajin

AU - Ding, Zhaoli

AU - Zhang, Guojie

AU - Wang, Wen

AU - Dong, Yang

AU - Sheng, Jun

PY - 2015/6/1

Y1 - 2015/6/1

N2 - Dendrobium officinale Kimura et Migo is a traditional Chinese orchid herb that has both ornamental value and a broad range of therapeutic effects. Here, we report the first de novo assembled 1.35 Gb genome sequences for D. officinale by combining the second-generation Illumina Hiseq 2000 and third-generation PacBio sequencing technologies. We found that orchids have a complete inflorescence gene set and have some specific inflorescence genes. We observed gene expansion in gene families related to fungus symbiosis and drought resistance. We analyzed biosynthesis pathways of medicinal components of D. officinale and found extensive duplication of SPS and SuSy genes, which are related to polysaccharide generation, and that the pathway of D. officinale alkaloid synthesis could be extended to generate 16-epivellosimine. The D. officinale genome assembly demonstrates a new approach to deciphering large complex genomes and, as an important orchid species and a traditional Chinese medicine, the D. officinale genome will facilitate future research on the evolution of orchid plants, as well as the study of medicinal components and potential genetic breeding of the dendrobe.

AB - Dendrobium officinale Kimura et Migo is a traditional Chinese orchid herb that has both ornamental value and a broad range of therapeutic effects. Here, we report the first de novo assembled 1.35 Gb genome sequences for D. officinale by combining the second-generation Illumina Hiseq 2000 and third-generation PacBio sequencing technologies. We found that orchids have a complete inflorescence gene set and have some specific inflorescence genes. We observed gene expansion in gene families related to fungus symbiosis and drought resistance. We analyzed biosynthesis pathways of medicinal components of D. officinale and found extensive duplication of SPS and SuSy genes, which are related to polysaccharide generation, and that the pathway of D. officinale alkaloid synthesis could be extended to generate 16-epivellosimine. The D. officinale genome assembly demonstrates a new approach to deciphering large complex genomes and, as an important orchid species and a traditional Chinese medicine, the D. officinale genome will facilitate future research on the evolution of orchid plants, as well as the study of medicinal components and potential genetic breeding of the dendrobe.

KW - Dendrobium officinale

KW - genome

KW - Illunima

KW - orchid plant

KW - PacBio

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U2 - 10.1016/j.molp.2014.12.011

DO - 10.1016/j.molp.2014.12.011

M3 - 文章

C2 - 25825286

AN - SCOPUS:84930927271

SN - 1674-2052

VL - 8

SP - 922

EP - 934

JO - Molecular Plant

JF - Molecular Plant

IS - 6

ER -

The genome of dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb

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