Physical mapping and microsynteny of Brassica rapa ssp. pekinensis genome corresponding to a 222 kbp gene-rich region of Arabidopsis chromosome 4 and partially duplicated on chromosome 5.

Molecular genetics and genomics : MGG ·Vol. 274 ·No. 6 ·2005-12-00 ·Pages 579-88

Park JY, Koo DH, Hong CP, Lee SJ, Jeon JW, Lee SH, Yun PY, Park BS, Kim HR, Bang JW, Plaha P, Bancroft I, Lim YP

Abstract

We constructed a bacterial artificial chromosome (BAC) library, designated as KBrH, from high molecular weight genomic DNA of Brassica rapa ssp. pekinensis (Chinese cabbage). This library, which was constructed using HindIII-cleaved genomic DNA, consists of 56,592 clones with average insert size of 115 kbp. Using a partially duplicated DNA sequence of Arabidopsis, represented by 19 and 9 predicted genes on chromosome 4 and 5, respectively, and BAC clones from the KBrH library, we studied conservation and microsynteny corresponding to the Arabidopsis regions in B. rapa ssp. pekinensis. The BAC contigs assembled according to the Arabidopsis homoeologues revealed triplication and rearrangements in the Chinese cabbage. In general, collinearity of genes in the paralogous segments was maintained, but gene contents were highly variable with interstitial losses. We also used representative BAC clones, from the assembled contigs, as probes and hybridized them on mitotic (metaphase) and/or meiotic (leptotene/pachytene/metaphase I) chromosomes of Chinese cabbage using bicolor fluorescence in situ hybridization. The hybridization pattern physically identified the paralogous segments of the Arabidopsis homoeologues on B. rapa ssp. pekinensis chromosomes. The homoeologous segments corresponding to chromosome 4 of Arabidopsis were located on chromosomes 2, 8 and 7, whereas those of chromosome 5 were present on chromosomes 6, 1 and 4 of B. rapa ssp. pekinensis.

MeSH Terms

Arabidopsis/genetics Brassica rapa/genetics Chromosome Mapping Chromosomes, Artificial, Bacterial Conserved Sequence/genetics Contig Mapping Evolution, Molecular Gene Library Genetic Linkage Genome, Plant In Situ Hybridization, Fluorescence

Authors & Affiliations

13 authors, click to expand affiliations / ORCID

Park J Y

Department of Horticulture, Chungnam National University, Kung-Dong 220, Yusong-Gu, Daejeon 305-764, South Korea.

Koo D H

Hong C P

Lee S J

Jeon J W

Lee S H

Yun P Y

Park B S

Kim H R

Bang J W

Plaha P

Bancroft I

Lim Y P

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Article Info

Journal

Molecular genetics and genomics : MGG

Abbr.

Mol Genet Genomics

ISSN

1617-4615

DOI

10.1007/s00438-005-0041-4

Published

2005-12-00

Epub

2005-00-09

Pages

579-88

Language

English

Region

Germany

NLM ID

101093320

Subset

External Links

PubMed source DOI: 10.1007/s00438-005-0041-4 View journal details

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Physical mapping and microsynteny of Brassica rapa ssp. pekinensis genome corresponding to a 222 kbp gene-rich region of Arabidopsis chromosome 4 and partially duplicated on chromosome 5.

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