Association genetics of the parameters related to nitrogen use efficiency in Brassica juncea L.
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Association genetics of the parameters related to nitrogen use efficiency in Brassica juncea L. Neha Gupta1 · Mehak Gupta1 · Javed Akhatar1 · Anna Goyal1 · Rimaljeet Kaur1 · Sanjula Sharma1 · Prinka Goyal1 · Archana Mukta1 · Navneet Kaur1 · Meenakshi Mittal1 · Mohini Prabha Singh1 · Baudh Bharti1 · V. K. Sardana1 · Surinder S. Banga1 Received: 31 March 2020 / Accepted: 23 September 2020 © Springer Nature B.V. 2020
Abstract Key message Genome wide association studies allowed prediction of 17 candidate genes for association with nitrogen use efficiency. Novel information obtained may provide better understanding of genomic controls underlying germplasm variations for this trait in Indian mustard. Abstract Nitrogen use efficiency (NUE) of Indian mustard (Brassica juncea (L.) Czern & Coss.) is low and most breeding efforts to combine NUE with crop performance have not succeeded. Underlying genetics also remain unexplored. We tested 92 SNP-genotyped inbred lines for yield component traits, N uptake efficiency (NUPEFF), nitrogen utilization efficiency 100 added (NUTEFF), nitrogen harvest index (NHI) and NUE for two years at two nitrogen doses ( No without added N and N @100 kg/ha). Genotypes IC-2489-88, M-633, MCP-632, HUJM 1080, GR-325 and DJ-65 recorded high NUE at low N. These also showed improved crop performance under high N. One determinate mustard genotype DJ-113 DT-3 revealed maximum NUTEFF. Genome wide association studies (GWAS) facilitated recognition of 17 quantitative trait loci (QTLs). Environment specificity was high. B-genome chromosomes (B02, B03, B05, B07 and B08) harbored many useful loci. We also used regional association mapping (RAM) to supplement results from GWAS. Annotation of the genomic regions around peak SNPs helped to predict several gene candidates for root architecture, N uptake, assimilation and remobilization. CAT9 (At1g05940) was consistently envisaged for both NUE and NUPEFF. Major N transporter genes, NRT1.8 and NRT3.1 were predicted for explaining variation for NUTEFF and NUPEFF, respectively. Most significant amino acid transporter gene, AAP1 appeared associated with NUE under limited N conditions. All these candidates were predicted in the regions of high linkage disequilibrium. Sequence information of the predicted candidate genes will permit development of molecular markers to aid breeding for high NUE. Keywords Indian mustard · morphological traits · nitrogen harvest index · marker trait associations · G × E interactions · N transporters
Introduction Neha Gupta and Mehak Gupta are equally contributed to this work. Electronic supplementary material The online version of this article (doi:https://doi.org/10.1007/s11103-020-01076-x) contains supplementary material, which is available to authorized users. * Surinder S. Banga [email protected] 1
Department of Plant Breeding and Genetics, Punjab Agricultural University, Punjab 141004 Ludhiana, India
Nitrogen (N) is a major component of membranes, proteins, enzymes, cofactors and other plant metabolites. It makes up approx
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