Comparative Gene Expression Profiling of Cotton Lines for Seed Quality Traits

Deependra Bhatta, Tennessee State University


Cotton (Gossypium spp.) is regarded as the world’s third important oilseed crop while being abundant source of protein. However, development of genomic resources related to these two seed traits is limited for this important crop. Chromosomal substitution (CS) lines with most of the background of G. hirsutum (Upland cotton) and foreground (a chromosome or segments) of Pima cotton (G. barbadense) have been released. Single Sequence Repeat (SSR) markers were widely used to confirm introgressions in CS-B lines after standardizing PCR protocols. Among 16 of the microsatellite markers reported for oil-seed traits and protein seed traits and in this study used, 10 were polymorphic between two of the parental lines (TM-1 and 3-79), conforming introgression in five of the CS-B lines. For expression analyses, RNA extraction procedure was optimized to yield high quality RNAs from cottonseeds. Gene expression in TM-1, 3-79 and CS-B17 lines was targeted, when protein and oil trait relevant RNAs are expected to be abundant. Through differential expression protocol of GenHunter, three anchor and eight arbitrary primers combinations were used. The total of 64 differentially expressed genes were identified at 28, 35 and 42 Days Post Anthesis (DPA).

Subject Area


Recommended Citation

Deependra Bhatta, "Comparative Gene Expression Profiling of Cotton Lines for Seed Quality Traits" (2016). ETD Collection for Tennessee State University. Paper AAI10158687.