Open Access Research article

A draft physical map of a D-genome cotton species (Gossypium raimondii)

Lifeng Lin16, Gary J Pierce1, John E Bowers16, James C Estill16, Rosana O Compton1, Lisa K Rainville1, Changsoo Kim1, Cornelia Lemke1, Junkang Rong17, Haibao Tang18, Xiyin Wang1, Michele Braidotti3, Amy H Chen1, Kristen Chicola1, Kristi Collura3, Ethan Epps1, Wolfgang Golser3, Corrinne Grover2, Jennifer Ingles1, Santhosh Karunakaran1, Dave Kudrna3, Jaime Olive1, Nabila Tabassum4, Eareana Um1, Marina Wissotski3, Yeisoo Yu3, Andrea Zuccolo3, Mehboob ur Rahman4, Daniel G Peterson15, Rod A Wing3, Jonathan F Wendel2 and Andrew H Paterson16*

Author Affiliations

1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA, 30605, USA

2 Department of Ecology, Evolution, & Organismal Biology, Iowa State University, Ames, IA 50011, USA

3 Arizona Genomics Institute, School of Plant Sciences and BIO5 Institute for Collaborative Research, University of Arizona, Tucson, AZ 85721, USA

4 National Institute for Biotechnology & Genetic Engineering (NIBGE), Faisalabad, Pakistan

5 Life Sciences & Biotechnology Institute, Mississippi State University, Mississippi State, MS 39762 USA

6 Department of Plant Biology, University of Georgia, Athens, GA, 30602, USA

7 School of Agriculture and Food Sciences, Zhejiang Forestry University, Lin'an, Hangzhou, Zhejiang, 311300, China

8 Department of Plant and Microbiology, College of Natural Resources, University of California, Berkeley, CA, USA

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BMC Genomics 2010, 11:395  doi:10.1186/1471-2164-11-395

Published: 22 June 2010

Additional files

Additional file 1:

The distribution of contigs sizes of the integrated assembly. Contig sizes were measured by the number of BACs contained in one contig. The majority of contigs contain between 3 and 25 BACs.

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Additional file 2:

Sources of the 46 highly repetitive probes. Probes with >100 BAC hits in the GR library and the locus from which the probes were derived.

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Additional file 3:

A consensus genetic-physical map of the cotton genome. The position of the 1585 genetically anchored physical map contigs on the consensus genetic map integrating the At, Dt and D genome genetic maps.

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Additional file 4:

GR chloroplast contig. Contig11556 is identified as a chloroplast contig, with BAC-end sequences and an overgo probe aligned to the GH chloroplast sequence.

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Additional file 5:

Gene ontology analysis result of the G. raimondii sequences. GO classification results generated from 13662 BAC-end sequences and 13661 random shotgun sequences, using Blast2Go at an ontology level of 2. (Details refer to additional file 6).

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Additional file 6:

G. raimondii preliminary gene ontology classification results. GO classification results generated from 13662 BAC-end sequences and 13661 random shotgun sequences, using Blast2Go at an ontology level of 2.

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