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Development of a 63K SNP Array for Cotton and High-Density Mapping of Intraspecific and Interspecific Populations of Gossypium spp.

Hulse-Kemp AM, Lemm J, Plieske J, Ashrafi H, Buyyarapu R, Fang DD, Frelichowski J, Giband M, Hague S, Hinze LL, Kochan KJ, Riggs PK, Scheffler JA, Udall JA, Ulloa M, Wang SS, Zhu QH, Bag SK, Bhardwaj A, Burke JJ, Byers RL, Claverie M, Gore MA, Harker DB, Islam MS, Jenkins JN, Jones DC, Lacape JM, Llewellyn DJ, Percy RG, Pepper AE, Poland JA, Mohan Rai K, Sawant SV, Singh SK, Spriggs A, Taylor JM, Wang F, Yourstone SM, Zheng X, Lawley CT, Ganal MW, Van Deynze A, Wilson IW, Stelly DM - G3 (Bethesda) (2015)

Bottom Line: Hutchinson and Lee.The produced intraspecific genetic map is the first saturated map that associates into 26 linkage groups corresponding to the number of cotton chromosomes for a cross between two G. hirsutum lines.The CottonSNP63K array, cluster file and associated marker sequences constitute a major new resource for the global cotton research community.

View Article: PubMed Central - PubMed

Affiliation: Department of Soil & Crop Sciences, Texas A&M University, College Station, Texas 77843 Interdisciplinary Degree Program in Genetics, Texas A&M University, College Station, Texas 77843.

No MeSH data available.


Frequency distribution of the number of crossovers. Numbers of crossovers detected for each F2 individual per chromosome (0 to >8) are displayed chromatically for each linkage group, which are organized by genetic size (longest at top, shortest at bottom). (A) Distribution of crossovers in the intraspecific mapping population. (B) Distribution of crossovers in the interspecific mapping population.
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fig8: Frequency distribution of the number of crossovers. Numbers of crossovers detected for each F2 individual per chromosome (0 to >8) are displayed chromatically for each linkage group, which are organized by genetic size (longest at top, shortest at bottom). (A) Distribution of crossovers in the intraspecific mapping population. (B) Distribution of crossovers in the interspecific mapping population.

Mentions: The high density of markers mapped in this study allowed the identification of almost all of the recombination events present in each F2 individual. We calculated the number of crossovers per F2 using all markers in both the intraspecific and interspecific linkage maps. In the intraspecific map, the number of crossovers across all chromosomes of an individual varied from 44 to 97, with an average of 67.5, ignoring two individuals with an abnormally high number of crossovers on a couple of linkage groups. These individuals were ignored; although they showed a normal number of crossovers across most chromosomes, they had much higher than two-times the number of crossovers as all other samples for one or more linkage groups. One individual had 34 crossovers on Chr13 and another individual had 24, 34, and 38 crossovers on Chr05, Chr19, and Chr14, respectively. An average of 2.65 crossovers per linkage group occurred across all individuals. Distribution of crossovers in the intraspecific population across linkage groups is shown in Figure 8A.


Development of a 63K SNP Array for Cotton and High-Density Mapping of Intraspecific and Interspecific Populations of Gossypium spp.

Hulse-Kemp AM, Lemm J, Plieske J, Ashrafi H, Buyyarapu R, Fang DD, Frelichowski J, Giband M, Hague S, Hinze LL, Kochan KJ, Riggs PK, Scheffler JA, Udall JA, Ulloa M, Wang SS, Zhu QH, Bag SK, Bhardwaj A, Burke JJ, Byers RL, Claverie M, Gore MA, Harker DB, Islam MS, Jenkins JN, Jones DC, Lacape JM, Llewellyn DJ, Percy RG, Pepper AE, Poland JA, Mohan Rai K, Sawant SV, Singh SK, Spriggs A, Taylor JM, Wang F, Yourstone SM, Zheng X, Lawley CT, Ganal MW, Van Deynze A, Wilson IW, Stelly DM - G3 (Bethesda) (2015)

Frequency distribution of the number of crossovers. Numbers of crossovers detected for each F2 individual per chromosome (0 to >8) are displayed chromatically for each linkage group, which are organized by genetic size (longest at top, shortest at bottom). (A) Distribution of crossovers in the intraspecific mapping population. (B) Distribution of crossovers in the interspecific mapping population.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
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getmorefigures.php?uid=PMC4478548&req=5

fig8: Frequency distribution of the number of crossovers. Numbers of crossovers detected for each F2 individual per chromosome (0 to >8) are displayed chromatically for each linkage group, which are organized by genetic size (longest at top, shortest at bottom). (A) Distribution of crossovers in the intraspecific mapping population. (B) Distribution of crossovers in the interspecific mapping population.
Mentions: The high density of markers mapped in this study allowed the identification of almost all of the recombination events present in each F2 individual. We calculated the number of crossovers per F2 using all markers in both the intraspecific and interspecific linkage maps. In the intraspecific map, the number of crossovers across all chromosomes of an individual varied from 44 to 97, with an average of 67.5, ignoring two individuals with an abnormally high number of crossovers on a couple of linkage groups. These individuals were ignored; although they showed a normal number of crossovers across most chromosomes, they had much higher than two-times the number of crossovers as all other samples for one or more linkage groups. One individual had 34 crossovers on Chr13 and another individual had 24, 34, and 38 crossovers on Chr05, Chr19, and Chr14, respectively. An average of 2.65 crossovers per linkage group occurred across all individuals. Distribution of crossovers in the intraspecific population across linkage groups is shown in Figure 8A.

Bottom Line: Hutchinson and Lee.The produced intraspecific genetic map is the first saturated map that associates into 26 linkage groups corresponding to the number of cotton chromosomes for a cross between two G. hirsutum lines.The CottonSNP63K array, cluster file and associated marker sequences constitute a major new resource for the global cotton research community.

View Article: PubMed Central - PubMed

Affiliation: Department of Soil & Crop Sciences, Texas A&M University, College Station, Texas 77843 Interdisciplinary Degree Program in Genetics, Texas A&M University, College Station, Texas 77843.

No MeSH data available.