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| Map Set Name: |
F2: G. hirsutum race "Palmeri" x G. barbadense Acc. "K101" |
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| Abbreviated Name: |
cotton_GhpalmerixK101 |
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| Accession ID: |
1 |
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| Species: |
Gossypium (cotton) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 January, 2004 |
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Description:
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We report genetic maps for diploid (D) and tetraploid (AtDt) Gossypium genomes composed of sequence-tagged sites (STS) that foster structural, functional, and evolutionary genomic studies. The maps include, respectively, 2584 loci at 1.72-cM ( approximately 600 kb) intervals based on 2007 probes (AtDt) and 763 loci at 1.96-cM ( approximately 500 kb) intervals detected by 662 probes (D). Both diploid and tetraploid cottons exhibit negative crossover interference; i.e., double recombinants are unexpectedly abundant. We found no major structural changes between Dt and D chromosomes, but confirmed two reciprocal translocations between At chromosomes and several inversions. Concentrations of probes in corresponding regions of the various genomes may represent centromeres, while genome-specific concentrations may represent heterochromatin. Locus duplication patterns reveal all 13 expected homeologous chromosome sets and lend new support to the possibility that a more ancient polyploidization event may have predated the A-D divergence of 6-11 million years ago. Identification of SSRs within 312 RFLP sequences plus direct mapping of 124 SSRs and exploration for CAPS and SNPs illustrate the "portability" of these STS loci across populations and detection systems useful for marker-assisted improvement of the world's leading fiber crop. These data provide new insights into polyploid evolution and represent a foundation for assembly of a finished sequence of the cotton genome. |
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| Map Set Name: |
BC1: ((Guazuncho2 x VH8-4602) x Guazuncho2 |
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| Abbreviated Name: |
cotton_Guazuncho2xVH8-BC1 |
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| Accession ID: |
2 |
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| Species: |
Gossypium (cotton) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 June, 2004 |
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Description:
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Microsatellite [simple-sequence repeat (SSR)] markers were developed and positioned on the genetic map of tetraploid cotton. Three hundred and ninety-two unique microsatellite sequences, all but two containing a (CA/GT) repeat, were isolated, and the deduced primers were used to screen for polymorphism between the Gossypium hirsutum and G. barbadense parents of the mapping population analyzed in our laboratory. The observed rate of polymorphism was 56%. The 204 polymorphic SSRs revealed 261 segregating bands, which ultimately gave rise to 233 mapped loci. The updated status of our genetic map is now of 1,160 loci and 5,519 cM, with an average distance between two loci of 4.8 cM. The presence of a total of 466 microsatellite loci, with an average distance of 12 cM between two SSR loci, now provides wide coverage of the genome of tetraploid cotton and thus represents a powerful means for the production of a consensus map and for the effective tracking of QTLs.
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| Map Set Name: |
BC2: ((Guazuncho2 x VH8-4602) x Guazuncho2) |
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| Abbreviated Name: |
cotton_Guazuncho2xVH8-BC2 |
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| Accession ID: |
8 |
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| Species: |
Gossypium (cotton) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 January, 2005 |
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Description:
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Cotton fiber properties are essential predictors of yarn performance. The suite of fiber quality traits that collectively affect the utility of the fiber for the textile industry include the length, the strength, the fineness and the color. These properties have been shown to be moderately to highly heritable. In an attempt to overcome the limitations of conventional breeding we undertook a marker-assisted selection program aimed at introgressing fiber quality QTLs from Gossypium barbadense L. into G. hirsutum L. We describe the QTL analysis of 11 fiber properties measured on three phenotypic data sets. The three populations studied were the 1st (BC1) and 2nd (BC2 and BC2S1) backcross generations derived from the cross between 'Guazuncho 2', G. hirsutum, and 'VH8', G. barbadense. Collectively we detected 80 QTLs, of which 50 surpassed the permutation-based LOD thresholds (3.2-5.7). The most economically important traits, length (two correlated properties), strength, fineness (four properties), and color (two properties) were influenced by 15, 12, 21, and 16 QTLs, respectively, that could be detected in one or more populations. As expected, for the majority of QTLs, the favorable alleles came from the G. barbadense parent. Altogether one third (26) of the QTLs confirmed the map position and phenotypic effect of QTLs reported in the literature also detected in interspecific G. hirsutum x G. barbadense populations. Cases of colocalization of QTLs for different traits were more frequent than isolated positioning. Taking these QTL-rich chromosomal regions into consideration, 19 regions on 15 different chromosomes, were identified as target regions for the marker-assisted introgression strategy. |
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| Map Set Name: |
F2: G. hirsutum 'Handan208' x G. barbadense 'Pima90' 2005 |
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| Abbreviated Name: |
Handan208 x Pima90 (2005) |
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| Accession ID: |
10 |
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| Species: |
Gossypium (cotton) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 April, 2005 |
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Description:
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Tetraploid cotton is one of the most extensively cultivated species. Two tetraploid species, Gossypium hirsutum L. and G. barbadense L., dominate the worlds cotton production. To better understand the genetic basis of cotton fibre traits for the improvement of fibre quality, a genetic linkage map of tetraploid cotton was constructed using sequence-related amplified polymorphisms (SRAPs), simple sequence repeats (SSRs) and random amplified polymorphic DNAs (RAPDs). A total of 238 SRAP primer combinations, 368 SSR primer pairs and 600 RAPD primers were used to screen polymorphisms between G. hirsutum cv. Handan208 and G. barbadense cv. Pima90 which revealed 749 polymorphic loci in total (205 SSRs, 107 RAPDs and 437 SRAPs). Sixty-nine F2 progeny from the interspecific cross of Handan208 x Pima90 were genotyped with the 749 polymorphic markers. A total of 566 loci were assembled into 41 linkage groups with at least three loci in each group. Twenty-eight linkage groups were assigned to corresponding chromosomes by SSR markers with known chromosome locations. The map covered 5141.8 cM with a mean interlocus space of 9.08 cM. A χ2 test for significance of deviations from the expected ratio (1 : 2 : 1 or 3 : 1) identified 135 loci (18.0%) with skewed segregation, most of which had an excess of maternal parental alleles. In total, 13 QTL associated with fibre traits were detected, among which two QTL were for fibre strength, four for fibre length and seven for micronaire value. These QTL were on nine linkage groups explaining 16.1828.92% of the trait variation. Six QTL were located in the A subgenome, six QTL in the D subgenome and one QTL in an unassigned linkage group. There were three QTL for micronaire value clustered on LG1, which would be very useful for improving this trait by molecular marker-assisted selection. |
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| Map Set Name: |
RIL_2005: TM-1 (G. hirsutum (AD1)) x 3-79 (G. barbadense (AD2)) |
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| Abbreviated Name: |
MUSS_MUCS_TM1x3-79_RIL_2005 |
[ Download Map Set Data ] |
| Accession ID: |
3 |
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| Species: |
Gossypium (cotton) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 September, 2005 |
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Description:
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A new set of microsatellites, or simple (SSR) and complex (CSR) markers with di-, tri-, tetra-, and pentanucleotide sequence repeats were developed from approximately 14,000 consensus sequences of the Gossypium arboreum L. fiber data base EST (http://cfgc.ucdavis.edu/ssr). Microsatellites were developed using 1,557 EST-containing SSRs (=10bp) and 5,794 EST-containing CSRs (=12bp) sequences. From a total of 1,232 EST-derived SSR (MUSS) and CSR (MUCS) primer-pairs, 1,019 (83%) of the DNA markers successfully amplified PCR products from a survey panel of six Gossypium species, of which 202 (19.8%) were polymorphic between the species G. hirsutum and G. barbadense using electrophoretic separation on an agarose gel system. Genetic map position and chromosomal location on the tetraploid cotton were assigned for some polymorphic markers. These fiber loci were mapped to 19 chromosomes and 11 linkage groups. New microsatellite loci were designated MUSS and MUCS: M for microsatellite, U last name of principal investigator, SS for simple sequences, and CS for complex sequence repeats. The information provided here includes: description, primers sequence, map and chromosomal location, and polymorphic data for the 1,232 MUSS and MUCS markers from the panel of six Gossypium species. |
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Contact:
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Mauricio Ulloa |
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