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Insights into papaya genome organization based on BAC end sequence analysis

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Item Summary

Title: Insights into papaya genome organization based on BAC end sequence analysis
Authors: Lai, Chun Wan Jeffrey
Keywords: Papaya -- Genome mapping
Issue Date: 2006
Abstract: Papaya is a major tree-fruit plant grown mainly in tropical and subtropical regions. A BAC library was end sequenced and the resulting 50,661 BAC-end sequences were analyzed bioinformatically. A total of 7,456 SSRs were identified among 5,452 BESs. Sixteen percent of BESs contain plant repeat homologies. BESs lacking plant repeats revealed 6,769 (19.1%) Arabidopsis cDNA homologies. BESs without plant repeat and Arabidopsis cDNA homology contained 1,124 (3.2%) RefSeq and 644 (1.8%) non-redundant protein sequence homologies. Low-copy papaya BES pairs (9,038) were compared to Arabidopsis, poplar, and rice genome sequences. A total of 53 BES pairs were mapped to Arabidopsis, 167 to poplar and 11 to rice. Low rate of co-mapping papaya BES pairs to Arabidopsis confirms the recent genome rearrangement in Arabidopsis. Poplar exhibited highest level of co-linearity with papaya and can be a reference genome for papaya genomic studies.
Description: Thesis (M.S.)--University of Hawaii at Manoa, 2006.
Includes bibliographical references (leaves 69-79).
ix, 79 leaves, bound ill. 29 cm
URI/DOI: http://hdl.handle.net/10125/20736
Rights: All UHM dissertations and theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission from the copyright owner.
Appears in Collections:M.S. - Molecular Biosciences and Bioengineering



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