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Please use this identifier to cite or link to this item:
http://krishi.icar.gov.in/jspui/handle/123456789/57458
Title: | Stable SNP Allele Associations With High Grain Zinc Content in Polished Rice (Oryza sativa L.) Identified Based on ddRAD Sequencing |
Other Titles: | Not Available |
Authors: | P. Madhu Babu, C. N. Neeraja, Santosha Rathod, K. Suman, G. Anurag Uttam, Navjeet Chakravartty, V. B. R. Lachagari, U. Chaitanya, L. V. Subbrarao and S.R.Voleti |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR::Indian Institute of Rice Research |
Published/ Complete Date: | 2020-08-11 |
Project Code: | ICAR CRP Biofortification and BT/AGR/Rice Bioforti/PH-II/2010 |
Keywords: | Rice, grain zinc, stable donors, ddRAD sequencing, SNP, candidate genes |
Publisher: | Frontiers |
Citation: | Babu PM, Neeraja CN, Rathod S,Suman K, Uttam GA, Chakravartty N,Lachagari VBR, Chaitanya U, Rao LVSand Voleti SR (2020) Stable SNP Allele Associations With High Grain Zinc Content in Polished Rice (Oryza sativa L.) Identified Based on ddRAD Sequencing. Front. Genet. 11:763. |
Series/Report no.: | Not Available; |
Abstract/Description: | Polished rice is widely consumed staple food across the globe, however, it contains limited nutrients especially iron (Fe) and zinc (Zn). To identify promising genotypes for grain Zn, a total of 40 genotypes consisting 20 rice landraces, and 20 released high yielding rice varieties were evaluated in three environments (wet seasons 2014, 2015 and 2016) for nine traits including days to 50% flowering (DFF), plant height (PH), panicle length (PL), total number of tillers (TNT), single plant yield (SPY), Fe and Zn in brown (IBR, ZBR) and polished rice (IPR, ZPR). Additive Main Effect and Multiplicative Interaction (AMMI), Genotype and Genotype × Environment Interaction (GGE) analyses identified genotypes G22 (Edavankudi Pokkali), G17 (Taraori Basmati), G27 (Chittimuthyalu) and G26 (Kalanamak) stable for ZPR and G8 (Savitri) stable for SPY across three environments. Significant negative correlation between yield and grain Zn was reaffirmed. Regression analysis indicated the contribution of traits toward ZPR and SPY and also desirable level of grain Zn in brown rice. A total of 39,137 polymorphic single nucleotide polymorphisms (SNPs) were obtained through double digest restriction site associated DNA (dd-RAD) sequencing of 40 genotypes. Association analyses with nine phenotypic traits revealed 188 stable SNPs with six traits across three environments. ZPR was associated with SNPs located in three putative candidate genes (LOC_Os03g47980, LOC_Os07g47950 and LOC_Os07g48050) on chromosomes 3 and 7. The genomic region of chromosome 7 co localized with reported genomic regions (rMQTL7.1) and OsNAS3 candidate gene. SPY was found to be associated with 12 stable SNPs located in 11 putative candidate genes on chromosome 1, 6, and 12. Characterization of rice landraces and varieties in terms of stability for their grain Zn and yield identified promising donors and recipients along with genomic regions in the present study to be deployed rice Zn biofortification breeding program. |
Description: | Not Available |
ISSN: | Not Available |
Type(s) of content: | Research Paper |
Sponsors: | ICAR CRP Biofortification and BT/AGR/Rice Bioforti/PH-II/2010 |
Language: | English |
Name of Journal: | Frontiers in Genetics |
NAAS Rating: | 9.26 |
Impact Factor: | 3.789 |
Volume No.: | 11 |
Page Number: | 763 |
Name of the Division/Regional Station: | Biotechnology Section |
Source, DOI or any other URL: | https://doi.org/10.3389/fgene.2020.00763 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/57458 |
Appears in Collections: | CS-IIRR-Publication |
Files in This Item:
File | Description | Size | Format | |
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Madhubabu et al 2020 SNP40.pdf | 5.18 MB | Adobe PDF | View/Open |
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