TY  - JOUR
AV  - public
A1  - Shaibu, A S
A1  - Sneller, C
A1  - Motagi, B N
A1  - Chepkoech, J
A1  - Chepngetich, M
A1  - Miko, Z L
A1  - Isa, A M
A1  - Ajeigbe, H A
A1  - Mohammed, S G
TI  - Genome-Wide Detection of SNP Markers Associated with Four Physiological Traits in Groundnut (Arachis hypogaea L.) Mini Core Collection
UR  - https://doi.org/10.3390/agronomy10020192
JF  - Agronomy (TSI)
SN  - 2073-4395
PB  - MDPI
N1  - We acknowledged the IGSS for some bioinformatics analysis and data interpretation. We also acknowledge the support of ICRISAT, Kano Station, Nigeria, for the ?eld phenotyping.
N2  - In order to integrate genomics in breeding and development of drought-tolerant groundnut genotypes, identification of genomic regions/genetic markers for drought surrogate traits is essential. We used 3249 diversity array technology sequencing (DArTSeq) markers for a genetic analysis of 125 ICRISAT groundnut mini core collection evaluated in 2015 and 2017 for genome-wide marker-trait association for some physiological traits and to determine the magnitude of linkage disequilibrium (LD). Marker-trait association (MTA) analysis, probability values, and percent variation modelled by the markers were calculated using the GAPIT package via the KDCompute interface. The LD analysis showed that about 36% of loci pairs were in significant LD (p < 0.05 and r2 > 0.2) and 3.14% of the pairs were in complete LD. The MTAs studies revealed 20 significant MTAs (p < 0.001) with 11 markers. Four MTAs were identified for leaf area index, 13 for canopy temperature, one for chlorophyll content and two for normalized difference vegetation index. The markers explained 20.8% to 6.6% of the phenotypic variation observed. Most of the MTAs identified on the A subgenome were also identified on the respective homeologous chromosome on the B subgenome. This could be due to a common ancestor of the A and B genome which explains the linkage detected between markers lying on different chromosomes. The markers identified in this study can serve as useful genomic resources to initiate marker-assisted selection and trait introgression of groundnut for drought tolerance after further validation.
KW  - DArTseq
KW  -  Groundnut
KW  -  Linkage disequilibrium
KW  -  Marker-assisted selection
KW  -  Marker-trait association
KW  -  Physiological traits
Y1  - 2020/02//
SP  - 2
ID  - icrisat11405
EP  - 14
VL  - 10
IS  - 2
ER  -