文献类型： 外文期刊

作者： Chen, You-Yi ¹ ; Sun, Ye ² ; Li, Chung-, I ³ ; Lin, Shao-Ting ⁴ ; Zheng, Hao-Chen ⁶ ; Zhang, Zhe-Bin ⁶ ; Lee, Bing-Ru ⁶ ; Hsieh, Chun-Lin ⁶ ; Hsiao, Yu-Yun ⁷ ; Chow, Chi-Nga ⁸ ; Yang, Chien-Wen ⁴ ; Chang, Wen-Chi ⁸ ; Chen, Heming ⁹ ; Yang, Feng-Xi ⁹ ; Zhu, Gen-Fa ⁹ ; Zheng, Qinyao ¹⁰ ; Zhou, Cheng-Yuan ¹⁰ ; Zhao, Zhuang ¹⁰ ; Ai, Ye ¹⁰ ; Wang, Lin-Ying ¹⁰ ; Chen, Deqiang ¹² ; He, Xin ¹² ; Huang, Ming-Zhong ¹² ; Peng, Dong-Hui ¹⁰ ; Yu, Hao ¹³ ; Lan, Siren ¹⁰ ; Liu, Zhong-Jian ¹⁰ ; Wu, Wei-Sheng ⁶ ; Tsai, Wen-Chieh ⁴ ;

作者机构： 1.Natl Chiayi Univ, Dept Agron, Chaiyi 600, Taiwan

2.Jiangsu Lixiahe Dist Inst Agr Sci, Yangzhou 225007, Peoples R China

3.Natl Cheng Kung Univ, Dept Stat, Tainan 701, Taiwan

4.Natl Cheng Kung Univ, Grad Program Translat Agr Sci, Tainan, Taiwan

5.Acad Sinica, Tainan, Taiwan

6.Natl Cheng Kung Univ, Dept Elect Engn, Tainan 701, Taiwan

7.Natl Cheng Kung Univ, Orchid Res & Dev Ctr, Tainan 701, Taiwan

8.Natl Cheng Kung Univ, Inst Trop Plant Sci & Microbiol, Tainan 701, Taiwan

9.Guangdong Acad Agr, Inst Environm Hort, Guangdong Key Lab Ornamental Plant Germplasm Innov, Guangzhou 510640, Peoples R China

10.Fujian Agr & Forestry Univ, Coll Landscape Architecture, Natl Forestry & Grassland Adm Orchid Conservat & U, Key Lab, Fuzhou 350002, Fujian, Peoples R China

11.Fujian Agr & Forestry Univ, Coll Landscape Architecture, Int Orchid Res Ctr, Fuzhou 350002, Fujian, Peoples R China

12.Fujian Agr & Forestry Univ, Coll Forestry, Fuzhou 350002, Peoples R China

13.Natl Univ Singapore, Dept Biol Sci, Singapore 117543, Singapore

14.Natl Cheng Kung Univ, Dept Life Sci, Tainan 701, Taiwan

15.Natl Cheng Kung Univ, Univ Ctr Biosci & Biotechnol, Tainan 701, Taiwan

关键词： Orchid; OrchidBase; Cymbidium; Whole-genome sequencing; Genome; Transcriptome

期刊名称：BMC PLANT BIOLOGY （ 影响因子：4.8； 五年影响因子：5.4 ）

ISSN： 1471-2229

年卷期： 2025 年 25 卷 1 期

页码：

收录情况： SCI

摘要： BackgroundOrchids are well-known for their rich diversity of species as well as wide range habitats. Their floral structures are so unique in angiosperms that many of orchids are economically and culturally important in human society. Orchids pollination strategy and evolutionary trajectory are also fantastic human for centuries. Previously, OrchidBase was created not only for storage and management of orchid genomic and transcriptomic information including Apostasia shenzhenica, Dendrobium catenatum, Phalaenopsis equestris, and two species of Platanthera that belong to three different subfamilies of Orchidaceae, but explored orchid genetic sequences for their function. The OrchidBase offers an opportunity for the plant science community to compare orchid genomes and transcriptomes, and retrieve orchid sequences for further study.DescriptionRecently, three whole-genome sequences of the Epidendroideae species, Cymbidium sinense, C. ensifolium and C. goeringii, were sequenced de novo, assembled, and analyzed. In addition, the systemic transcriptomes of these three species have been established. We included these datasets to develop a new version of OrchidBase 6.0. Furthermore, four new analytical methods, namely regulation, updated transcriptome, advanced BLAST, and domain search, were developed for orchid genome analyses.ConclusionOrchidBase 6.0 extended genetic information to that of eight orchid species and created new tools for an expanded community curation in response to the ever-increasing volume and complexity of data.