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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 representation of known repetitive elements in Gossypium hirsutum RAD sequences.
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DSU047F4: The representation of known repetitive elements in Gossypium hirsutum RAD sequences.

Mentions: The Gh-D-J data set consisted of 251,816 sequences totalling ≈85.76 Mb (mean length 340 bp, Fig. 3), of which 105,264 (38.14 Mb) sequences were shared (Table 1). The repetitive elements in the sequences, Gh-D-J, were evaluated using the RepeatMasker (http://www.repeatmasker.org/). The relative number of repetitive elements on the contigs was 4.76%, which is similar to results from PE RAD-seq studies in other plant genomes.17,38 The major classes of repetitive DNA elements belonged to Gypsy/DIRS1 and Ty1/Copia long-terminal repeat (LTR) retroelement families and simple repeats (Fig. 4). The GC dinucleotide content for Gh-D-J was ∼34.72%, which is similar to that of both Arabidopsis thaliana39and Theobroma cacao.39,40Table 1.


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 representation of known repetitive elements in Gossypium hirsutum RAD sequences.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

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

DSU047F4: The representation of known repetitive elements in Gossypium hirsutum RAD sequences.
Mentions: The Gh-D-J data set consisted of 251,816 sequences totalling ≈85.76 Mb (mean length 340 bp, Fig. 3), of which 105,264 (38.14 Mb) sequences were shared (Table 1). The repetitive elements in the sequences, Gh-D-J, were evaluated using the RepeatMasker (http://www.repeatmasker.org/). The relative number of repetitive elements on the contigs was 4.76%, which is similar to results from PE RAD-seq studies in other plant genomes.17,38 The major classes of repetitive DNA elements belonged to Gypsy/DIRS1 and Ty1/Copia long-terminal repeat (LTR) retroelement families and simple repeats (Fig. 4). The GC dinucleotide content for Gh-D-J was ∼34.72%, which is similar to that of both Arabidopsis thaliana39and Theobroma cacao.39,40Table 1.

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