A physical map of the Chinese chestnut ( Castanea mollissima ) genome and its integration with the genetic map
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ORIGINAL PAPER
A physical map of the Chinese chestnut (Castanea mollissima) genome and its integration with the genetic map Guang-Chen Fang & Barbara P. Blackmon & Margaret E. Staton & C. Dana Nelson & Thomas L. Kubisiak & Bode A. Olukolu & David Henry & Tatyana Zhebentyayeva & Christopher A. Saski & Chun-Huai Cheng & Megan Monsanto & Stephen Ficklin & Michael Atkins & Laura L. Georgi & Abdelali Barakat & Nicholas Wheeler & John E. Carlson & Ronald Sederoff & Albert G. Abbott Received: 22 May 2012 / Revised: 5 September 2012 / Accepted: 8 October 2012 / Published online: 8 November 2012 # The Author(s) 2012. This article is published with open access at Springerlink.com
Abstract Three Chinese chestnut bacterial artificial chromosome (BAC) libraries were developed and used for physical map construction. Specifically, high information content
fingerprinting was used to assemble 126,445 BAC clones into 1,377 contigs and 12,919 singletons. Integration of the dense Chinese chestnut genetic map with the physical map was
Communicated by D. Grattapaglia Guang-Chen Fang and Barbara P. Blackmon contributed equally to this study. Thomas L. Kubisiak—retired. Electronic supplementary material The online version of this article (doi:10.1007/s11295-012-0576-6) contains supplementary material, which is available to authorized users. G.-C. Fang USDA APHIS BRS, 920 Main Campus Drive, Suite 200, Raleigh, NC 27606, USA e-mail: [email protected] B. P. Blackmon : M. E. Staton (*) : C. A. Saski : M. Atkins Clemson University Genomics Institute, Clemson University, BRC, 105 Collings Street, Clemson, SC 29634, USA e-mail: [email protected] B. P. Blackmon e-mail: [email protected] C. A. Saski e-mail: [email protected] M. Atkins e-mail: [email protected] C. D. Nelson : T. L. Kubisiak Southern Institute of Forest Genetics, U.S. Forest Service, 23332 Success Road, Saucier, MS 39574, USA C. D. Nelson e-mail: [email protected]
T. L. Kubisiak e-mail: [email protected] B. A. Olukolu Department of Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA e-mail: [email protected] D. Henry Piedmont Technical College, 620 North Emerald Road, Greenwood, SC 29648, USA e-mail: [email protected] T. Zhebentyayeva : A. G. Abbott Department of Genetics and Biochemistry, Clemson University, 100 Jordan Hall, Clemson, SC 29634, USA
T. Zhebentyayeva e-mail: [email protected] A. G. Abbott e-mail: [email protected]
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achieved via high-throughput hybridization using overgo probes derived from sequence-based genetic markers. A total of 1,026 probes were anchored to the physical map including 831 probes corresponding to 878 expressed sequence tagbased markers. Within the physical map, three BAC contigs were anchored to the three major fungal blight-resistant quantitative trait loci on chestnut linkage groups B, F, and G. A subset of probes corresponding to orthologous genes in poplar showed only a limited amount of conserved gene order between the poplar and chestnut genomes. The integrated genetic and physical map of Chinese ch
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