Open Access

A database for orphan genes in Poaceae

  • Authors:
    • Chensong Yao
    • Hanwei Yan
    • Xiaodan Zhang
    • Rongfu Wang
  • View Affiliations

  • Published online on: August 9, 2017     https://doi.org/10.3892/etm.2017.4918
  • Pages: 2917-2924
  • Copyright: © Yao et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

Orphan genes refer to a group of protein‑coding genes lacking recognizable homologs in the other organisms. Extensive studies have demonstrated that numerous newly sequenced genomes contain a significant number of orphan genes, which have important roles in plant's responses to the environment. Due to a lack of phylogenetic conservation, the origin of orphan genes and their functions are currently not well defined. In the present study, a Poaceae orphan genes database (POGD; http://bioinfo.ahau.edu.cn/pogd) was established to serve as a user‑friendly web interface for entry browsing, searching and downloading orphan genes from various plants. Four Poaceae species, including Brachypodium distachyon, Oryza sativa, Sorghum bicolor and Zea mays, are included in the current version of POGD. The database provides gene descriptions (chromosome strands, physical location), gene product records (protein length, isoelectric point, molecular weight as well as gene and protein sequences) and functional annotations (cellular role, gene ontology category, subcellular localization prediction). Basic Local Alignment Search Tool and comparative analyses were also provided on the website. POGD will serve as a comprehensive and reliable repository, which will help uncover regulatory mechanisms of orphan genes and may assist in the development of comparative genomics in plant biology.

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October-2017
Volume 14 Issue 4

Print ISSN: 1792-0981
Online ISSN:1792-1015

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Spandidos Publications style
Yao C, Yan H, Zhang X and Wang R: A database for orphan genes in Poaceae. Exp Ther Med 14: 2917-2924, 2017.
APA
Yao, C., Yan, H., Zhang, X., & Wang, R. (2017). A database for orphan genes in Poaceae. Experimental and Therapeutic Medicine, 14, 2917-2924. https://doi.org/10.3892/etm.2017.4918
MLA
Yao, C., Yan, H., Zhang, X., Wang, R."A database for orphan genes in Poaceae". Experimental and Therapeutic Medicine 14.4 (2017): 2917-2924.
Chicago
Yao, C., Yan, H., Zhang, X., Wang, R."A database for orphan genes in Poaceae". Experimental and Therapeutic Medicine 14, no. 4 (2017): 2917-2924. https://doi.org/10.3892/etm.2017.4918