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          Institute: MPI für molekulare Genetik     Collection: Department of Vertebrate Genomics     Display Documents



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ID: 407390.0, MPI für molekulare Genetik / Department of Vertebrate Genomics
Haplotype divergence in Beta vulgaris and microsynteny with sequenced plant genomes
Authors:Dohm, Juliane C.; Lange, Cornelia; Reinhardt, Richard; Himmelbauer, Heinz
Language:English
Date of Publication (YYYY-MM-DD):2009-01-01
Title of Journal:Plant Journal
Volume:57
Issue / Number:1
Start Page:14
End Page:26
Copyright:© 2009 Ingenta
Review Status:not specified
Audience:Experts Only
Abstract / Description:We characterized two overlapping sugar beet (Beta vulgaris) bacterial artificial chromosome (BAC) clones representing different haplotypes. A total of 254 kbp of the genomic sequence was determined, of which the two BACs share 92 kbp. Eleven of 15 genes discovered in the sequenced interval locate to the overlap region. The haplotypes differ in exons by 1% (nucleotide level) and in non-coding regions by 9% (6% mismatches, 3% gaps; alignable regions only). Large indels or high sequence divergence comprised 11% of either sequence. Of such indels, 68 and 45%, respectively, could be attributed to haplotype-specific integration of transposable elements. We identified novel repeat candidates by comparing the two BAC sequences to a set of genomic sugar beet sequences. Synteny was found with Arabidopsis chromosome 1 (At1), At2 and At4, Medicago chromosome 7, Vitis chromosome 15 and paralogous regions on poplar chromosomes II and XIV.
Free Keywords:Comparative plant genomics, Haplotype divergence, Microsynteny, Transposable elements, Genomic sequencing, Repeat detection
External Publication Status:published
Document Type:Article
Communicated by:Hans Lehrach
Affiliations:MPI für molekulare Genetik
Identifiers:ISSN:0960-7412
DOI:10.1111/j.1365-313X.2008.03665.x
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