NDLI: An overview of the apple genome through BAC end sequence analysis

Content Provider	Springer Nature Link
Author	Han, Yuepeng Korban, Schuyler S.
Copyright Year	2008
Abstract	The apple, Malus × domestica Borkh., is one of the most important fruit trees grown worldwide. A bacterial artificial chromosome (BAC)-based physical map of the apple genome has been recently constructed. Based on this physical map, a total of ∼2,100 clones from different contigs (overlapping BAC clones) have been selected and sequenced at both ends, generating 3,744 high-quality BAC end sequences (BESs) including 1,717 BAC end pairs. Approximately 8.5% of BESs contain simple sequence repeats (SSRs), most of which are AT/TA dimer repeats. Potential transposable elements are identified in ∼21% of BESs, and most of these elements are retrotransposons. About 11% of BESs have homology to the Arabidopsis protein database. The matched proteins cover a broad range of categories. The average GC content of the predicted coding regions of BESs is 42.4%; while, that of the whole BESs is 39%. A small number of BES pairs were mapped to neighboring chromosome regions of A. thaliana and Populus trichocarpa; whereas, no pairs are mapped to the Oryza sativa genome. The apple has a higher degree of synteny with the closely related Populus than with the distantly related Arabidopsis. BAC end sequencing can be used to anchor a small proportion of the apple genome to the Populus and possibly to the Arabidopsis genomes.
Starting Page	581
Ending Page	588
Page Count	8
File Format	PDF
ISSN	01674412
Journal	Plant Molecular Biology
Volume Number	67
Issue Number	6
e-ISSN	15735028
Language	English
Publisher	Springer Netherlands
Publisher Date	2008-06-03
Publisher Place	Dordrecht
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Apple Bacterial artificial chromosome BAC end sequences Simple sequence repeats Synteny Plant Pathology Biochemistry Plant Sciences
Content Type	Text
Resource Type	Article
Subject	Genetics Plant Science Medicine Agronomy and Crop Science

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