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11.
Ibrokhim Y. Abdurakhmonov Sukumar Saha Jonnie N. Jenkins Zabardast T. Buriev Shukhrat E. Shermatov Brain E. Scheffler Alan E. Pepper John Z. Yu Russell J. Kohel Abdusattor Abdukarimov 《Genetica》2009,136(3):401-417
Cotton is the world’s leading cash crop, but it lags behind other major crops for marker-assisted breeding due to limited
polymorphisms and a genetic bottleneck through historic domestication. This underlies a need for characterization, tagging,
and utilization of existing natural polymorphisms in cotton germplasm collections. Here we report genetic diversity, population
characteristics, the extent of linkage disequilibrium (LD), and association mapping of fiber quality traits using 202 microsatellite
marker primer pairs in 335 G. hirsutum germplasm grown in two diverse environments, Uzbekistan and Mexico. At the significance threshold (r
2 ≥ 0.1), a genome-wide average of LD extended up to genetic distance of 25 cM in assayed cotton variety accessions. Genome
wide LD at r
2 ≥ 0.2 was reduced to ~5–6 cM, providing evidence of the potential for association mapping of agronomically important traits
in cotton. Results suggest linkage, selection, inbreeding, population stratification, and genetic drift as the potential LD-generating
factors in cotton. In two environments, an average of ~20 SSR markers was associated with each main fiber quality traits using
a unified mixed liner model (MLM) incorporating population structure and kinship. These MLM-derived significant associations
were confirmed in general linear model and structured association test, accounting for population structure and permutation-based
multiple testing. Several common markers, showing the significant associations in both Uzbekistan and Mexican environments,
were determined. Between 7 and 43% of the MLM-derived significant associations were supported by a minimum Bayes factor at
‘moderate to strong’ and ‘strong to very strong’ evidence levels, suggesting their usefulness for marker-assisted breeding
programs and overall effectiveness of association mapping using cotton germplasm resources.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. 相似文献
12.
Ibrokhim Y Abdurakhmonov Zabardast T Buriev Carla Jo Logan-Young Abdusattor Abdukarimov Alan E Pepper 《BMC plant biology》2010,10(1):119
Background
Phytochromes are a family of red/far-red photoreceptors that regulate a number of important developmental traits in cotton (Gossypium spp.), including plant architecture, fiber development, and photoperiodic flowering. Little is known about the composition and evolution of the phytochrome gene family in diploid (G. herbaceum, G. raimondii) or allotetraploid (G. hirsutum, G. barbadense) cotton species. The objective of this study was to obtain a preliminary inventory and molecular-evolutionary characterization of the phytochrome gene family in cotton. 相似文献13.
Ibrokhim Y Abdurakhmonov Eric J Devor Zabardast T Buriev Lingyan Huang Abdusalom Makamov Shukhrat E Shermatov Tohir Bozorov Fakhriddin N Kushanov Gafurjon T Mavlonov Abdusattor Abdukarimov 《BMC plant biology》2008,8(1):93