Texas A&M gene study aimed at enhanced cotton fiber breeding
This study, he said, will be used to advance research efforts toward cloning and molecular characterization of the genes and trait locations important for fiber quality and yield. Also, the study will develop a "golden" standard genome sequence for Upland cotton from the sequences previously generated by this and other cotton research programs.
Zhang said if they can decipher the molecular basis of cotton fiber quality and yield, a gene-based advanced and efficient cotton breeding program could be developed.
In this new study, the team will further phenotype the 200 lines and parents for the seven major fiber quality and yield component traits in replicated field trials for two years at two additional locations in the U.S. Cotton Belt - Lubbock and Saint Joseph, La. - using the high volume instrument.
This will allow the genetic variation of the traits to be measured accurately and the genes controlling the traits to be mapped reliably, he said.
Zhang said more than 800 fiber samples will be collected from the field trials of the 200 lines. The samples can be phenotyped in five major fiber quality component traits within an eight-hour day using the high volume machine.
Using the Restriction site-Associated DNA sequencing technology that they established in their lab, they will genotype the 200 lines and parents and a panel of 50-100 cotton breeding or germplasm lines widely used in the U.S. cotton breeding programs.
The sequencing and fiber quality and yield data will be analyzed to identify single nucleotide polymorphism, or SNP, markers across the cotton genome, construct a high-density SNP marker map for cotton, map the genes controlling the fiber traits and develop DNA toolkits for enhanced cotton breeding.
Furthermore, since a panel of 50-100 cotton breeding or germplasm lines widely used in the U.S. cotton breeding programs will be sequenced using the same technology, the toolkits developed in the project can be quickly transferred to and used by their and other cotton breeding programs.
When the study is complete, Zhang and his team expect to have a high-density genetic map for cotton that consists of more than 10,000 genomic SNPs and more than 2,000 "10-days past anthesis" fiber expressed gene SNPs, yielding a marker density map four-fold higher than those of existing cotton genetic maps.
The resultant genetic map of this project will be combined with the physical map and genome sequence of cotton previously developed, he said. Together, these are expected to provide comprehensive and integrated platforms and tools for advanced cotton genetics research and enhanced cotton breeding.
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