Construction of a 10,000-Marker Ultradense Genetic Recombination Map of Potato: Providing a Framework for Accelerated Gene Isolation and a Genomewide Physical Map
- 1 June 2006
- journal article
- Published by Oxford University Press (OUP) in Genetics
- Vol. 173 (2), 1075-1087
- https://doi.org/10.1534/genetics.106.055871
Abstract
An ultradense genetic linkage map with >10,000 AFLP loci was constructed from a heterozygous diploid potato population. To our knowledge, this is the densest meiotic recombination map ever constructed. A fast marker-ordering algorithm was used, based on the minimization of the total number of recombination events within a given marker order in combination with genotyping error-detection software. This resulted in "skeleton bin maps," which can be viewed as the most parsimonious marker order. The unit of distance is not expressed in centimorgans but in "bins." A bin is a position on the genetic map with a unique segregation pattern that is separated from adjacent bins by a single recombination event. Putative centromeres were identified by a strong clustering of markers, probably due to cold spots for recombination. Conversely, recombination hot spots resulted in large intervals of up to 15 cM without markers. The current level of marker saturation suggests that marker density is proportional to physical distance and independent of recombination frequency. Most chromatids (92%) recombined once or never, suggesting strong chiasma interference. Absolute chiasma interference within a chromosome arm could not be demonstrated. Two examples of contig construction and map-based cloning have demonstrated that the marker spacing was in accordance with the expected physical distance: approximately one marker per BAC length. Currently, the markers are used for genetic anchoring of a physical map of potato to deliver a sequence-ready minimal tiling path of BAC contigs of specific chromosomal regions for the potato genome sequencing consortium (http://www.potatogenome.net).Keywords
This publication has 51 references indexed in Scilit:
- Resistance Quantitative Trait Loci Originating from Solanum sparsipilum Act Independently on the Sex Ratio of Globodera pallida and Together for Developing a Necrotic ReactionMolecular Plant-Microbe Interactions®, 2005
- Comparative genomics enabled the isolation of the R3a late blight resistance gene in potatoThe Plant Journal, 2005
- Interval Mapping of Quantitative Trait Loci for Resistance to Late Blight [Phytophthora infestans (Mont.) de Bary], Height and Maturity in a Tetraploid Population of Potato (Solanum tuberosum subsp. tuberosum)Genetics, 2004
- Chromosome-Wide Control of Meiotic Crossing over in C. elegansCurrent Biology, 2003
- A comprehensive genetic map of the mouse genomeNature, 1996
- Chromosome landing: a paradigm for map-based gene cloning in plants with large genomesTrends in Genetics, 1995
- AFLP: a new technique for DNA fingerprintingNucleic Acids Research, 1995
- A Comprehensive Human Linkage Map with Centimorgan DensityScience, 1994
- Chiasma and recombination data in plants: are they compatible?Trends in Genetics, 1993
- Identification of markers linked to disease-resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations.Proceedings of the National Academy of Sciences, 1991