title: A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium).
abstract: 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.
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602, USA.
authors.forename: Junkang
authors.initials: J
authors.lastname: Rong
authors.forename: Colette
authors.initials: C
authors.lastname: Abbey
authors.forename: John E
authors.initials: JE
authors.lastname: Bowers
authors.forename: Curt L
authors.initials: CL
authors.lastname: Brubaker
authors.forename: Charlene
authors.initials: C
authors.lastname: Chang
authors.forename: Peng W
authors.initials: PW
authors.lastname: Chee
authors.forename: Terrye A
authors.initials: TA
authors.lastname: Delmonte
authors.forename: Xiaoling
authors.initials: X
authors.lastname: Ding
authors.forename: Juan J
authors.initials: JJ
authors.lastname: Garza
authors.forename: Barry S
authors.initials: BS
authors.lastname: Marler
authors.forename: Chan-hwa
authors.initials: CH
authors.lastname: Park
authors.forename: Gary J
authors.initials: GJ
authors.lastname: Pierce
authors.forename: Katy M
authors.initials: KM
authors.lastname: Rainey
authors.forename: Vipin K
authors.initials: VK
authors.lastname: Rastogi
authors.forename: Stefan R
authors.initials: SR
authors.lastname: Schulze
authors.forename: Norma L
authors.initials: NL
authors.lastname: Trolinder
authors.forename: Jonathan F
authors.initials: JF
authors.lastname: Wendel
authors.forename: Thea A
authors.initials: TA
authors.lastname: Wilkins
authors.forename: T Dawn
authors.initials: TD
authors.lastname: Williams-Coplin
authors.forename: Rod A
authors.initials: RA
authors.lastname: Wing
authors.forename: Robert J
authors.initials: RJ
authors.lastname: Wright
authors.forename: Xinping
authors.initials: X
authors.lastname: Zhao
authors.forename: Linghua
authors.initials: L
authors.lastname: Zhu
authors.forename: Andrew H
authors.initials: AH
authors.lastname: Paterson
mesh_terms: D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics; D004171:Diploidy; D019143:Evolution, Molecular; D020440:Gene Duplication; D008040:Genetic Linkage; D005819:Genetic Markers; D018745:Genome, Plant; D003368:Gossypium / Q000235:genetics*; D018598:Minisatellite Repeats; D020641:Polymorphism, Single Nucleotide; D011123:Polyploidy; D011995:Recombination, Genetic; D016324:Sequence Tagged Sites
chemical_list: D018744:DNA, Plant; D005819:Genetic Markers