Preprint Article Version 1 This version is not peer-reviewed

Characterization of the Common japonica-Originated Genomic Regions in the High Yielding Varieties Developed from Inter-Subspecific Crosses in Rice (Oryza sativa L.)

Version 1 : Received: 23 April 2020 / Approved: 24 April 2020 / Online: 24 April 2020 (07:37:40 CEST)
Version 2 : Received: 30 April 2020 / Approved: 30 April 2020 / Online: 30 April 2020 (03:18:24 CEST)
Version 3 : Received: 11 May 2020 / Approved: 12 May 2020 / Online: 12 May 2020 (05:56:38 CEST)

A peer-reviewed article of this Preprint also exists.

Seo, J.; Lee, S.-M.; Han, J.-H.; Shin, N.-H.; Lee, Y.K.; Kim, B.; Chin, J.H.; Koh, H.-J. Characterization of the Common Japonica-Originated Genomic Regions in the High-Yielding Varieties Developed from Inter-Subspecific Crosses in Temperate Rice (Oryza sativa L.). Genes 2020, 11, 562. Seo, J.; Lee, S.-M.; Han, J.-H.; Shin, N.-H.; Lee, Y.K.; Kim, B.; Chin, J.H.; Koh, H.-J. Characterization of the Common Japonica-Originated Genomic Regions in the High-Yielding Varieties Developed from Inter-Subspecific Crosses in Temperate Rice (Oryza sativa L.). Genes 2020, 11, 562.

Journal reference: Genes 2020, 11, 562
DOI: 10.3390/genes11050562

Abstract

The inter-subspecific crossing between indica and japonica subspecies in rice have been utilized to improve yield potential in temperate rice. In this study, a comparative study of the genomic regions in the eight high yielding varieties (HYVs) was conducted with those of the four non-HYV varieties. NGS mapping on the Nipponbare reference genome identified a total of 14 common genomic regions of japonica-originated alleles. Interestingly, the HYVs shared the japonica-originated genomic regions on the nine chromosomes, although they were developed from different breeding programs. A panel of 94 varieties was classified into four varietal groups with the 39 SNP markers from 39 genes residing the japonica-originated genomic regions and 16 additional trait-specific SNPs. As expected, the japonica originated genomic regions were present only in JAP and HYV groups with exceptions for Chr4-1 and Chr4-2. The Wx gene located within Chr6-1 was present in HYV and JAP variety groups, while the yield-related genes were conserved as indica alleles in HYVs. The japonica-originated genomic regions and alleles shared by HYVs can be employed in molecular breeding programs for further development of HYVs in rice.

Subject Areas

rice; yield; HYV; Tongil; indica; japonica; SNP; molecular breeding

Comments (0)

We encourage comments and feedback from a broad range of readers. See criteria for comments and our diversity statement.

Leave a public comment
Send a private comment to the author(s)
Views 0
Downloads 0
Comments 0
Metrics 0


×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.