Progress 06/15/03 to 06/14/05
Outputs
1) Discovered for the first time about 84 EST-SSR primer pairs by data mining G. hirsutum EST-data base in tetraploid cotton. 2) Discovered about 300 EST-SSR markers by data mining g. arboretum EST-database. 3) Discovered the linkage association of the specific EST-SSR markers with lint development in cotton in a collaborative project with scientists from Uzbekistan. 4) Modified and improved SNP marker detection method using ABI 3100 system for cotton. 5) Discovered SNP markers associated with Cyclin-dependent Kinase A gene, an important gene associated with fiber development. We located this gene on the long arm of chromosome 16 in cotton using deletion method. 6) We identified about 100 SNPs associated with different fiber specific genes including Expansin genes and MYB genes. Twenty-five SNP markers from six Expansin genes have been assigned to different chromosomes. Expansin 1 to 6 gene was assigned to 20Lo 10Lo, 10Lo, 9Lo, 1Lo and 3Lo of TM-1 chromosome,
respectively. Currently work is in progress to use these SNP markers associated with candidate genes in molecular linkage map.
Impacts
This research will impact cotton breeders' efforts in producing high yielding, high quality cotton cultivars meeting textile industries need for high quality fiber as well as farmers' needs for higher income for their products. Thereby, maintain low cost of cotton products benefiting the consumers.
Publications
- No publications reported this period
|
Progress 01/01/04 to 12/31/04
Outputs
Objectives are to discover EST-SSR and SNP markers associated with fiber genes and identify their chromosomal locations. 133 SSR-containing consensus EST sequences were identified by analyzing 9,948 EST sequences from G. hirsutum. Primers were designed for 84 and tested for polymorphism among four cotton lines belonging to G. hirsutum and G. barbadense. About 1900 consensus and non-redundant sequences contain an SSR motif of at least 18- bp length from 38,598 sequences of G. arboretum in an EST database. We constructed 206 primer pairs from these non-redundant sequence and detected polymorphism among a few selected intra and inter specific cotton genotypes. This is the first report on PCR-based EST-SSR markers in cotton. More than 50% of these EST-SSRs are associated with fiber ESTs. We are making progress in development of a method using ABI 3100 for detection of SNP's in cotton. We also identified about 100 EST sequences of known functional genes as a target to
develop SNP markers in cotton.
Impacts
The improvement of cotton, the most important textile crop in the world, depends on the addition of new genes either through breeding or genetic engineering. Unfortunately, most traits of interest to producers are polygenic (Quantitative Trait Loci [QTLs]). Upland cotton (Gossypium hirsutum) lacks genomic maps that are useful for breeders. Through a multi-institutional effort, including the active participation of two1890 institutions, we will use datamining and various PCR-derived techniques to generate a minimum of 500 high quality, randomly distributed PCR, EST, SSR, SNP and AFLP markers that can be placed in an integrated, physical-fiber quality- QTL linkage map using intraspecific G. hirsutum RILs derived from parents with agronomically diverse characters.
Publications
- Qureshi, S.N., Saha, S., Kantety, R.V. and Jenkins, J.N. 2004. EST-SSR: A new class of genetic markers in cotton. The Journal of Cotton Science 8:112-123.
|
Progress 01/01/03 to 12/31/03
Outputs
Although a newly awarded grant, many of the primers for marker development have already been synthesized and all the QTL data has been recorded from the Recombinant Inbred Lines (RILs) in two different locations.
Impacts
The improvement of cotton, the most important textile crop in the world, depends on the addition of new genes either through breeding or genetic engineering. Unfortunately, most traits of interest to producers are polygenic (Quantitative Trait Loci [QTLs]). Upland cotton (Gossypium hirsutum) lacks genomic maps that are useful for breeders. Through a multi-institutional effort, including the active participation of two1890 institutions, we will use datamining and various PCR-derived techniques to generate a minimum of 500 high quality, randomly distributed PCR, EST, SSR, SNP and AFLP markers that can be placed in an integrated, physical-fiber quality- QTL linkage map using intraspecific G. hirsutum RILs derived from parents with agronomically diverse characters.
Publications
- No publications reported this period
|
|