Distribution of Microsatellites in the Genome ofMedicago truncatula: A Resource of Genetic Markers That Integrate Genetic and Physical Maps

Genetics - Tập 172 Số 4 - Trang 2541-2555 - 2006
Jeong-Hwan Mun1, Dong-Jin Kim1, Hong Kyu Choi1, John Gish1, Frédéric Debellé2, Joanne Mudge3, Roxanne Denny3, Gabriella Endré4, Oliver Saurat2, Anne-Marie Dudez2, G. B. Kiss4,5, Bruce A. Roe5, Nevin D. Young3, Albert Vandenberg1
1Department of Plant Pathology, University of California, Davis, California, 95616
2Laboratoire des Interactions Plantes-Microorganismes, INRA-CNRS, 31326 Castanet-Tolosan Cedex, France
3Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota, 55108
4Biological Research Center, Institute of Genetics, H-6701 Szeged, Hungary
5Institute of Genetics, Agricultural Biotechnology Center, 2100 Godollo, Hungary and

Tóm tắt

AbstractMicrosatellites are tandemly repeated short DNA sequences that are favored as molecular-genetic markers due to their high polymorphism index. Plant genomes characterized to date exhibit taxon-specific differences in frequency, genomic location, and motif structure of microsatellites, indicating that extant microsatellites originated recently and turn over quickly. With the goal of using microsatellite markers to integrate the physical and genetic maps of Medicago truncatula, we surveyed the frequency and distribution of perfect microsatellites in 77 Mbp of gene-rich BAC sequences, 27 Mbp of nonredundant transcript sequences, 20 Mbp of random whole genome shotgun sequences, and 49 Mbp of BAC-end sequences. Microsatellites are predominantly located in gene-rich regions of the genome, with a density of one long (i.e., ≥20 nt) microsatellite every 12 kbp, while the frequency of individual motifs varied according to the genome fraction under analysis. A total of 1,236 microsatellites were analyzed for polymorphism between parents of our reference intraspecific mapping population, revealing that motifs (AT)n, (AG)n, (AC)n, and (AAT)n exhibit the highest allelic diversity. A total of 378 genetic markers could be integrated with sequenced BAC clones, anchoring 274 physical contigs that represent 174 Mbp of the genome and composing an estimated 70% of the euchromatic gene space.

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Thông tin xuất bản

Genetics

Tập 172 Số 4

2541-2555

Thông tin tác giả