Dataset Information

High-quality faba bean reference transcripts generated using PacBio and Illumina RNA-seq data.

ABSTRACT: The genome of faba bean was first published in 2023. To promote future molecular breeding studies, we improved the quality of the faba genome based on high-density genetic maps and the Illumina and Pacbio RNA-seq datasets. Two high-density genetic maps were used to conduct the scaffold ordering and orientation of faba bean, culminating in an increased length (i.e., 14.28 Mbp) of chromosomes and a decrease in the number of scaffolds by 45. In gene model mining and optimisation, the PacBio and Illumina RNA-seq datasets from 37 samples allowed for the identification and correction 121,606 transcripts, and the data facilitated a prediction of 15,640 alternative splicing events, 2,148 lncRNAs, and 1,752 fusion transcripts, thus allowing for a clearer understanding of the gene structures underlying the faba genome. Moreover, a total of 38,850 new genes including 56,188 transcripts were identified compared with the reference genome. Finally, the genetic data of the reference genome was integrated and a comprehensive and complete faba bean transcriptome sequence of 103,267 transcripts derived from 54,753 uni-genes was formed.

SUBMITTER: Zhao N

PROVIDER: S-EPMC11003973 | biostudies-literature | 2024 Apr

REPOSITORIES: biostudies-literature

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High-quality faba bean reference transcripts generated using PacBio and Illumina RNA-seq data.

Zhao Na N Zhou Enqiang E Miao Yamei Y Xue Dong D Wang Yongqiang Y Wang Kaihua K Gu Chunyan C Yao Mengnan M Zhou Yao Y Li Bo B Wang Xuejun X Wei Libin L

Scientific data 20240409 1

The genome of faba bean was first published in 2023. To promote future molecular breeding studies, we improved the quality of the faba genome based on high-density genetic maps and the Illumina and Pacbio RNA-seq datasets. Two high-density genetic maps were used to conduct the scaffold ordering and orientation of faba bean, culminating in an increased length (i.e., 14.28 Mbp) of chromosomes and a decrease in the number of scaffolds by 45. In gene model mining and optimisation, the PacBio and Ill ...[more]

PMID: 38594303

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High-quality faba bean reference transcripts generated using PacBio and Illumina RNA-seq data.

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High-quality faba bean reference transcripts generated using PacBio and Illumina RNA-seq data.

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