A draft physical map of a D-genome cotton species (Gossypium raimondii)
ur Rahman, Mehboob
AffiliationPlant Genome Mapping Laboratory, University of Georgia, Athens, GA, 30605, USA
Department of Ecology, Evolution, & Organismal Biology, Iowa State University, Ames, IA 50011, USA
Arizona Genomics Institute, School of Plant Sciences and BIO5 Institute for Collaborative Research, University of Arizona, Tucson, AZ 85721, USA
National Institute for Biotechnology & Genetic Engineering (NIBGE), Faisalabad, Pakistan
Life Sciences & Biotechnology Institute, Mississippi State University, Mississippi State, MS 39762 USA
Department of Plant Biology, University of Georgia, Athens, GA, 30602, USA
School of Agriculture and Food Sciences, Zhejiang Forestry University, Lin'an, Hangzhou, Zhejiang, 311300, China
Department of Plant and Microbiology, College of Natural Resources, University of California, Berkeley, CA, USA
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CitationLin et al. BMC Genomics 2010, 11:395 http://www.biomedcentral.com/1471-2164/11/395
Rights© 2010 Lin et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0)
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AbstractBACKGROUND:Genetically anchored physical maps of large eukaryotic genomes have proven useful both for their intrinsic merit and as an adjunct to genome sequencing. Cultivated tetraploid cottons, Gossypium hirsutum and G. barbadense, share a common ancestor formed by a merger of the A and D genomes about 1-2 million years ago. Toward the long-term goal of characterizing the spectrum of diversity among cotton genomes, the worldwide cotton community has prioritized the D genome progenitor Gossypium raimondii for complete sequencing.RESULTS:A whole genome physical map of G. raimondii, the putative D genome ancestral species of tetraploid cottons was assembled, integrating genetically-anchored overgo hybridization probes, agarose based fingerprints and 'high information content fingerprinting' (HICF). A total of 13,662 BAC-end sequences and 2,828 DNA probes were used in genetically anchoring 1585 contigs to a cotton consensus genetic map, and 370 and 438 contigs, respectively to Arabidopsis thaliana (AT) and Vitis vinifera (VV) whole genome sequences.CONCLUSION:Several lines of evidence suggest that the G. raimondii genome is comprised of two qualitatively different components. Much of the gene rich component is aligned to the Arabidopsis and Vitis vinifera genomes and shows promise for utilizing translational genomic approaches in understanding this important genome and its resident genes. The integrated genetic-physical map is of value both in assembling and validating a planned reference sequence.
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