scholarly journals Molecular and genetic dissection of the USDA rice mini-core collection using high-density SNP markers

Plant Science ◽  
2021 ◽  
Vol 308 ◽  
pp. 110910
Author(s):  
Jian-Min Song ◽  
Muhammad Arif ◽  
Yan Zi ◽  
Sing-Hoi Sze ◽  
Meiping Zhang ◽  
...  
Agronomy ◽  
2020 ◽  
Vol 10 (2) ◽  
pp. 192 ◽  
Author(s):  
Abdulwahab S. Shaibu ◽  
Clay Sneller ◽  
Babu N. Motagi ◽  
Jackline Chepkoech ◽  
Mercy Chepngetich ◽  
...  

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.


2013 ◽  
Vol 126 (8) ◽  
pp. 2003-2015 ◽  
Author(s):  
Hari D. Upadhyaya ◽  
Yi-Hong Wang ◽  
C. L. L. Gowda ◽  
Shivali Sharma

2014 ◽  
Vol 127 (6) ◽  
pp. 1461-1461
Author(s):  
Hari D. Upadhyaya ◽  
Yi-Hong Wang ◽  
C. L. L. Gowda ◽  
Shivali Sharma

PLoS ONE ◽  
2019 ◽  
Vol 14 (7) ◽  
pp. e0220066 ◽  
Author(s):  
Anumalla Mahender ◽  
Jauhar Ali ◽  
G. D. Prahalada ◽  
Ma. Anna Lynn Sevilla ◽  
C. H. Balachiranjeevi ◽  
...  

Genetika ◽  
2014 ◽  
Vol 46 (3) ◽  
pp. 775-788 ◽  
Author(s):  
Violeta Andjelkovic ◽  
Natalija Kravic ◽  
Vojka Babic ◽  
Dragana Ignjatovic-Micic ◽  
Zoran Dumanovic ◽  
...  

Global climate change, its impact on stable food production in the future and possibilities to overcome the problem are the major priorities for research. Breeding varieties with increase adaptability to changing environments, together with better tolerance/resistance to abiotic stress, pest and diseases are possible solution. Maize is one of the most important crops, with high grain yield reduction induced by drought stress. In the present study twenty-six maize landraces from drought tolerant mini-core collection were tested under optimal, drought, and a combination of drought and high density stresses in the field. Morphological traits, plant height, total number of leaves, leaf length, leaf width, anthesis-silking interval and grain yield were recorded for each entry in two replications in three experiments. Besides, drought tolerant indices were evaluated to test the ability to separate more drought tolerant accessions from those with less stress tolerance. Five stress tolerance indices, including stress tolerance index (STI), mean productivity (MP), geometric mean productivity (GMP), stress susceptibility (SSI), and stress tolerance (TOL) were calculated. Data analyses revealed that STI, MP and GMP had positive and significant correlations with grain yield under all conditions. Three-dimensional diagrams displayed assignment of landraces L25, L1, L14, L3, L26, L15 and L16 to group A, based on the stress tolerance index and achieved grain yield under optimal, drought stress, and a combination of drought and high density stress. A biplot analysis efficiently separated groups of landraces with different level of drought tolerance and grain yield. Based on all obtained results, maize landraces L25, L14, L1 and L3, as the most valuable source of drought tolerance, could be recommended for further use in breeding programs.


PLoS ONE ◽  
2017 ◽  
Vol 12 (2) ◽  
pp. e0172106 ◽  
Author(s):  
Jicun Li ◽  
Xiaobo Wang ◽  
Wenwen Song ◽  
Xinyang Huang ◽  
Jing Zhou ◽  
...  

BMC Genomics ◽  
2017 ◽  
Vol 18 (1) ◽  
Author(s):  
Paula A. M. R. Valdisser ◽  
Wendell J. Pereira ◽  
Jâneo E. Almeida Filho ◽  
Bárbara S. F. Müller ◽  
Gesimária R. C. Coelho ◽  
...  

Crop Science ◽  
2016 ◽  
Vol 56 (3) ◽  
pp. 1001-1008 ◽  
Author(s):  
Yan Liu ◽  
Yulin Jia ◽  
David Gealy ◽  
David M. Goad ◽  
Ana L. Caicedo ◽  
...  

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