Data Descriptor: Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data

Jianwei - Zhang, Ling Ling Chen, Shuai Sun, David A Kudrna, Dario Copetti, Weiming Li, Ting Mu, Wen Biao Jiao, Feng Xing, Seunghee Lee, Jayson Talag, Jia Ming Song, Bogu Du, Weibo Xie, Meizhong Luo, Carlos Ernesto Maldonado, Jose Luis Goicoechea, Lizhong Xiong, Changyin Wu, Yongzhong XingDao Xiu Zhou, Sibin Yu, Yu Zhao, Gongwei Wang, Yeisoo Yu, Yijie Luo, Beatriz Elena Padilla Hurtado, Ann Danowitz, Rod A Wing, Qifa Zhang

Research output: Contribution to journalArticle

12 Scopus citations

Abstract

Over the past 30 years, we have performed many fundamental studies on two Oryza sativa subsp. indica varieties, Zhenshan 97 (ZS97) and Minghui 63 (MH63). To improve the resolution of many of these investigations, we generated two reference-quality reference genome assemblies using the most advanced sequencing technologies. Using PacBio SMRT technology, we produced over 108 (ZS97) and 174 (MH63) Gb of raw sequence data from 166 (ZS97) and 209 (MH63) pools of BAC clones, and generated ∼97 (ZS97) and ∼74 (MH63) Gb of paired-end whole-genome shotgun (WGS) sequence data with Illumina sequencing technology. With these data, we successfully assembled two platinum standard reference genomes that have been publicly released. Here we provide the full sets of raw data used to generate these two reference genome assemblies. These data sets can be used to test new programs for better genome assembly and annotation, aid in the discovery of new insights into genome structure, function, and evolution, and help to provide essential support to biological research in general.

Original languageEnglish (US)
Article number160076
JournalScientific data
Volume3
DOIs
StatePublished - Sep 13 2016

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ASJC Scopus subject areas

  • Education
  • Library and Information Sciences
  • Computer Science Applications
  • Information Systems
  • Statistics, Probability and Uncertainty
  • Statistics and Probability
  • Medicine(all)

Cite this

Zhang, J. ., Chen, L. L., Sun, S., Kudrna, D. A., Copetti, D., Li, W., Mu, T., Jiao, W. B., Xing, F., Lee, S., Talag, J., Song, J. M., Du, B., Xie, W., Luo, M., Maldonado, C. E., Goicoechea, J. L., Xiong, L., Wu, C., ... Zhang, Q. (2016). Data Descriptor: Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data. Scientific data, 3, [160076]. https://doi.org/10.1038/sdata.2016.76