Insights into papaya genome organization based on BAC end sequence analysis

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dc.contributor.authorLai, Chun Wan Jeffrey
dc.date.accessioned2011-07-22T00:05:58Z
dc.date.available2011-07-22T00:05:58Z
dc.date.issued2006
dc.descriptionThesis (M.S.)--University of Hawaii at Manoa, 2006.
dc.descriptionIncludes bibliographical references (leaves 69-79).
dc.descriptionix, 79 leaves, bound ill. 29 cm
dc.description.abstractPapaya 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.
dc.identifier.urihttp://hdl.handle.net/10125/20736
dc.language.isoen-US
dc.relationTheses for the degree of Master of Science (University of Hawaii at Manoa). Molecular Biosciences and Bioengineering; no. 4090
dc.rightsAll 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.
dc.subjectPapaya -- Genome mapping
dc.titleInsights into papaya genome organization based on BAC end sequence analysis
dc.typeThesis
dc.type.dcmiText

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