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De novo transcriptome assembly databases for the butterfly orchid Phalaenopsis equestris
Niu, Shan-Ce; Xu, Qing; Zhang, Guo-Qiang; Zhang, Yong-Qiang; Tsai, Wen-Chieh; Hsu, Jui-Ling; Liang, Chieh-Kai; Luo, Yi-Bo; Liu, Zhong-Jian
2016
发表期刊SCIENTIFIC DATA
卷号3
摘要Orchids are renowned for their spectacular flowers and ecological adaptations. After the sequencing of the genome of the tropical epiphytic orchid Phalaenopsis equestris, we combined Illumina HiSeq2000 for RNA-Seq and Trinity for de novo assembly to characterize the transcriptomes for 11 diverse P. equestris tissues representing the root, stem, leaf, flower buds, column, lip, petal, sepal and three developmental stages of seeds. Our aims were to contribute to a better understanding of the molecular mechanisms driving the analysed tissue characteristics and to enrich the available data for P. equestris. Here, we present three databases. The first dataset is the RNA-Seq raw reads, which can be used to execute new experiments with different analysis approaches. The other two datasets allow different types of searches for candidate homologues. The second dataset includes the sets of assembled unigenes and predicted coding sequences and proteins, enabling a sequence-based search. The third dataset consists of the annotation results of the aligned unigenes versus the Nonredundant (Nr) protein database, Kyoto Encyclopaedia of Genes and Genomes (KEGG) and Clusters of Orthologous Groups (COG) databases with low e-values, enabling a name-based search.
学科领域Multidisciplinary Sciences
DOI10.1038/sdata.2016.83
收录类别SCI
语种英语
WOS关键词EXPRESSION ANALYSIS ; FLOWER BUDS ; FAMILY ; GENERATION ; EPIPHYTISM ; PROTEINS ; ESTS
WOS研究方向Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号WOS:000390232700001
出版者NATURE PORTFOLIO
文献子类Article; Data Paper
出版地BERLIN
EISSN2052-4463
作者邮箱luoyb@ibcas.ac.cn ; liuzj@sinicaorchid.org
作品OA属性Green Published, gold
引用统计
被引频次:18[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.ibcas.ac.cn/handle/2S10CLM1/25038
专题系统与进化植物学国家重点实验室
作者单位1.[Niu, Shan-Ce
2.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China
3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
4.[Xu, Qing
5.Zhang, Guo-Qiang
6.Zhang, Yong-Qiang
7.Hsu, Jui-Ling
8.Natl Orchid Conservat Ctr China, Shenzhen Key Lab Orchid Conservat & Utilizat, Shenzhen 518114, Peoples R China
9.Orchid Conservat & Res Ctr Shenzhen, Shenzhen 518114, Peoples R China
10.[Tsai, Wen-Chieh
11.Natl Cheng Kung Univ, Inst Trop Plant Sci, Tainan 701, Taiwan
12.Natl Cheng Kung Univ, Orchid Res & Dev Ctr, Tainan 701, Taiwan
13.Natl Cheng Kung Univ, Dept Life Sci, Tainan 701, Taiwan
14.Tsinghua Univ, Grad Sch Shenzhen, Ctr Biotechnol & BioMed, Shenzhen 518055, Peoples R China
15.South China Agr Univ, Coll Forestry & Landscape Architecture, Guangzhou 510640, Guangdong, Peoples R China
16.Fujian Agr & Forestry Univ, Coll Arts, Coll Landscape Architecture, Fuzhou 350002, Peoples R China
推荐引用方式
GB/T 7714
Niu, Shan-Ce,Xu, Qing,Zhang, Guo-Qiang,et al. De novo transcriptome assembly databases for the butterfly orchid Phalaenopsis equestris[J]. SCIENTIFIC DATA,2016,3.
APA Niu, Shan-Ce.,Xu, Qing.,Zhang, Guo-Qiang.,Zhang, Yong-Qiang.,Tsai, Wen-Chieh.,...&Liu, Zhong-Jian.(2016).De novo transcriptome assembly databases for the butterfly orchid Phalaenopsis equestris.SCIENTIFIC DATA,3.
MLA Niu, Shan-Ce,et al."De novo transcriptome assembly databases for the butterfly orchid Phalaenopsis equestris".SCIENTIFIC DATA 3(2016).
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