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Genome Wide SSR High Density Genetic Map Construction from an Interspecific Cross of Gossypium hirsutum × Gossypium tomentosum.

Khan MK, Chen H, Zhou Z, Ilyas MK, Wang X, Cai X, Wang C, Liu F, Wang K - Front Plant Sci (2016)

Bottom Line: In our map 49 segregation hotspots (SDR) were distributed across the genome with more on D sub-genome as compared to A genome.Two post-polyploidization reciprocal translocations of "A2/A3 and A4/A5" were suggested by seven pairs of duplicate loci.The map constructed through these studies is one of the three densest genetic maps in cotton however; this is the first dense genome wide SSR interspecific genetic map between G. hirsutum and G. tomentosum.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Cotton Biology Institute of Cotton Research, Chinese Academy of Agricultural SciencesAnyang, China; Plant Breeding and Genetics Division, Nuclear Institute for Agriculture and BiologyFaisalabad, Pakistan.

ABSTRACT
A high density genetic map was constructed using F2 population derived from an interspecific cross of G. hirsutum × G. tomentosum. The map consisted of 3093 marker loci distributed across all the 26 chromosomes and covered 4365.3 cM of cotton genome with an average inter-marker distance of 1.48 cM. The maximum length of chromosome was 218.38 cM and the minimum was 122.09 cM with an average length of 167.90 cM. A sub-genome covers more genetic distance (2189.01 cM) with an average inter loci distance of 1.53 cM than D sub-genome which covers a length of 2176.29 cM with an average distance of 1.43 cM. There were 716 distorted loci in the map accounting for 23.14% and most distorted loci were distributed on D sub-genome (25.06%), which were more than on A sub-genome (21.23%). In our map 49 segregation hotspots (SDR) were distributed across the genome with more on D sub-genome as compared to A genome. Two post-polyploidization reciprocal translocations of "A2/A3 and A4/A5" were suggested by seven pairs of duplicate loci. The map constructed through these studies is one of the three densest genetic maps in cotton however; this is the first dense genome wide SSR interspecific genetic map between G. hirsutum and G. tomentosum.

No MeSH data available.


Related in: MedlinePlus

The interspecific genetic map of the F2 population (CRI12-2 × G. tomentosum). Genetic linkage map of allotetraploid cotton presented as 13 each At and Dt sub-genome homeologous chromosomes. The names of loci are shown on the right, and the positions of the loci are shown, in Kosambi centiMorgan (cM), on the left. The newly developed primer's name are underlined and blue in color whereas, markers showing segregation distortion are indicated by asterisks (*P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001, *****P < 0.0005, ******P < 0.0001, *******P < 0.00005). The already anchored markers loci by other scientists are bold and red in color. For NBRI original names please see S2 Table.
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Figure 2: The interspecific genetic map of the F2 population (CRI12-2 × G. tomentosum). Genetic linkage map of allotetraploid cotton presented as 13 each At and Dt sub-genome homeologous chromosomes. The names of loci are shown on the right, and the positions of the loci are shown, in Kosambi centiMorgan (cM), on the left. The newly developed primer's name are underlined and blue in color whereas, markers showing segregation distortion are indicated by asterisks (*P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001, *****P < 0.0005, ******P < 0.0001, *******P < 0.00005). The already anchored markers loci by other scientists are bold and red in color. For NBRI original names please see S2 Table.

Mentions: All the mapped loci spanned 4365.30 cM with an average inter-marker distance of 1.48 cM (Table 2, Figure 2). The average length of chromosome in this map is 167.90 cM, containing an average number of 118.96 loci. Among At and Dt sub-genomes the chromosome Chr.19(D05) is the longest chromosome spanning 218.38 cM, with highest number of loci (215) on a chromosome; while shortest chromosome is Chr.17 (D03) covering a distance of 122.09 cM, containing 81 loci. On the other hand Chr.04 (A04) contains the minimum number of loci that is only 65 spanning a distance of 137.73 cM. The largest inter-marker distance is 2.47 cM on Chr.22 (D04) and the minimum is 1.02 cM on Chr.19 (D05) which is also the densest chromosome in terms of number of loci. The minimum marker interval is 0 cM and the biggest inter-loci gap is 16.3 cM on Chr.22 (D04); in total there are 29 gaps >10 cM with 20 and 9 gaps distributed on At and Dt sub-genomes, respectively.


Genome Wide SSR High Density Genetic Map Construction from an Interspecific Cross of Gossypium hirsutum × Gossypium tomentosum.

Khan MK, Chen H, Zhou Z, Ilyas MK, Wang X, Cai X, Wang C, Liu F, Wang K - Front Plant Sci (2016)

The interspecific genetic map of the F2 population (CRI12-2 × G. tomentosum). Genetic linkage map of allotetraploid cotton presented as 13 each At and Dt sub-genome homeologous chromosomes. The names of loci are shown on the right, and the positions of the loci are shown, in Kosambi centiMorgan (cM), on the left. The newly developed primer's name are underlined and blue in color whereas, markers showing segregation distortion are indicated by asterisks (*P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001, *****P < 0.0005, ******P < 0.0001, *******P < 0.00005). The already anchored markers loci by other scientists are bold and red in color. For NBRI original names please see S2 Table.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4829609&req=5

Figure 2: The interspecific genetic map of the F2 population (CRI12-2 × G. tomentosum). Genetic linkage map of allotetraploid cotton presented as 13 each At and Dt sub-genome homeologous chromosomes. The names of loci are shown on the right, and the positions of the loci are shown, in Kosambi centiMorgan (cM), on the left. The newly developed primer's name are underlined and blue in color whereas, markers showing segregation distortion are indicated by asterisks (*P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001, *****P < 0.0005, ******P < 0.0001, *******P < 0.00005). The already anchored markers loci by other scientists are bold and red in color. For NBRI original names please see S2 Table.
Mentions: All the mapped loci spanned 4365.30 cM with an average inter-marker distance of 1.48 cM (Table 2, Figure 2). The average length of chromosome in this map is 167.90 cM, containing an average number of 118.96 loci. Among At and Dt sub-genomes the chromosome Chr.19(D05) is the longest chromosome spanning 218.38 cM, with highest number of loci (215) on a chromosome; while shortest chromosome is Chr.17 (D03) covering a distance of 122.09 cM, containing 81 loci. On the other hand Chr.04 (A04) contains the minimum number of loci that is only 65 spanning a distance of 137.73 cM. The largest inter-marker distance is 2.47 cM on Chr.22 (D04) and the minimum is 1.02 cM on Chr.19 (D05) which is also the densest chromosome in terms of number of loci. The minimum marker interval is 0 cM and the biggest inter-loci gap is 16.3 cM on Chr.22 (D04); in total there are 29 gaps >10 cM with 20 and 9 gaps distributed on At and Dt sub-genomes, respectively.

Bottom Line: In our map 49 segregation hotspots (SDR) were distributed across the genome with more on D sub-genome as compared to A genome.Two post-polyploidization reciprocal translocations of "A2/A3 and A4/A5" were suggested by seven pairs of duplicate loci.The map constructed through these studies is one of the three densest genetic maps in cotton however; this is the first dense genome wide SSR interspecific genetic map between G. hirsutum and G. tomentosum.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Cotton Biology Institute of Cotton Research, Chinese Academy of Agricultural SciencesAnyang, China; Plant Breeding and Genetics Division, Nuclear Institute for Agriculture and BiologyFaisalabad, Pakistan.

ABSTRACT
A high density genetic map was constructed using F2 population derived from an interspecific cross of G. hirsutum × G. tomentosum. The map consisted of 3093 marker loci distributed across all the 26 chromosomes and covered 4365.3 cM of cotton genome with an average inter-marker distance of 1.48 cM. The maximum length of chromosome was 218.38 cM and the minimum was 122.09 cM with an average length of 167.90 cM. A sub-genome covers more genetic distance (2189.01 cM) with an average inter loci distance of 1.53 cM than D sub-genome which covers a length of 2176.29 cM with an average distance of 1.43 cM. There were 716 distorted loci in the map accounting for 23.14% and most distorted loci were distributed on D sub-genome (25.06%), which were more than on A sub-genome (21.23%). In our map 49 segregation hotspots (SDR) were distributed across the genome with more on D sub-genome as compared to A genome. Two post-polyploidization reciprocal translocations of "A2/A3 and A4/A5" were suggested by seven pairs of duplicate loci. The map constructed through these studies is one of the three densest genetic maps in cotton however; this is the first dense genome wide SSR interspecific genetic map between G. hirsutum and G. tomentosum.

No MeSH data available.


Related in: MedlinePlus