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Enrichment of an intraspecific genetic map of upland cotton by developing markers using parental RAD sequencing.

Wang H, Jin X, Zhang B, Shen C, Lin Z - DNA Res. (2015)

Bottom Line: A genetic map including 1,013 loci was constructed using these results and 506 loci previously published for this population.Here, the development of markers using parental RAD sequencing was effective, and a high-density intraspecific genetic map was constructed.This map can be used for molecular marker-assisted selection in cotton.

View Article: PubMed Central - PubMed

Affiliation: National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, Hubei, China.

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The distribution of 562 markers on the A2 and D5 genomes. (a) Analysis of homology between the AT and A2 genomes; (b) analysis of homology between the DT and D5 genomes.
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DSU047F8: The distribution of 562 markers on the A2 and D5 genomes. (a) Analysis of homology between the AT and A2 genomes; (b) analysis of homology between the DT and D5 genomes.

Mentions: The sequences of 562 markers (the sequences of SRAPs were not available) mapped on chromosomes of the upland cotton genetic map in this study were used to BLASTN with the diploid A2 genome of G. arboretum and the D5 genome of G. raimondii, using an E-value cut-off of 1e−10. After analysis, the homology and collinearity between the AT genome and the A2 genome were high, except for Chr2 and Ga2, Chr5 and Ga10, and Chr10 and Ga9 (Fig. 8a; Supplementary Table S6a). In the current study, four unassembled scaffolds of the A2 genome were anchored by our map. HAU-DJ-S078 matched on scaffold7300, NAU2687 on scaffold3678, HAU-DJ-S168 on scaffold1365, and NBRI_HQ527767 on scaffold4507. Results showed that the homology and collinearity between the DT genome and the D5 genome were high on every chromosome (Fig. 8b; Supplementary Table S6b).Figure 8.


Enrichment of an intraspecific genetic map of upland cotton by developing markers using parental RAD sequencing.

Wang H, Jin X, Zhang B, Shen C, Lin Z - DNA Res. (2015)

The distribution of 562 markers on the A2 and D5 genomes. (a) Analysis of homology between the AT and A2 genomes; (b) analysis of homology between the DT and D5 genomes.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4401325&req=5

DSU047F8: The distribution of 562 markers on the A2 and D5 genomes. (a) Analysis of homology between the AT and A2 genomes; (b) analysis of homology between the DT and D5 genomes.
Mentions: The sequences of 562 markers (the sequences of SRAPs were not available) mapped on chromosomes of the upland cotton genetic map in this study were used to BLASTN with the diploid A2 genome of G. arboretum and the D5 genome of G. raimondii, using an E-value cut-off of 1e−10. After analysis, the homology and collinearity between the AT genome and the A2 genome were high, except for Chr2 and Ga2, Chr5 and Ga10, and Chr10 and Ga9 (Fig. 8a; Supplementary Table S6a). In the current study, four unassembled scaffolds of the A2 genome were anchored by our map. HAU-DJ-S078 matched on scaffold7300, NAU2687 on scaffold3678, HAU-DJ-S168 on scaffold1365, and NBRI_HQ527767 on scaffold4507. Results showed that the homology and collinearity between the DT genome and the D5 genome were high on every chromosome (Fig. 8b; Supplementary Table S6b).Figure 8.

Bottom Line: A genetic map including 1,013 loci was constructed using these results and 506 loci previously published for this population.Here, the development of markers using parental RAD sequencing was effective, and a high-density intraspecific genetic map was constructed.This map can be used for molecular marker-assisted selection in cotton.

View Article: PubMed Central - PubMed

Affiliation: National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, Hubei, China.

Show MeSH