A high-resolution radiation hybrid map of chicken chromosome 5 and comparison with human chromosomes

BMC Genomics
F PitelAlain Vignal

Abstract

The resolution of radiation hybrid (RH) maps is intermediate between that of the genetic and BAC (Bacterial Artificial Chromosome) contig maps. Moreover, once framework RH maps of a genome have been constructed, a quick location of markers by simple PCR on the RH panel is possible. The chicken ChickRH6 panel recently produced was used here to construct a high resolution RH map of chicken GGA5. To confirm the validity of the map and to provide valuable comparative mapping information, both markers from the genetic map and a high number of ESTs (Expressed Sequence Tags) were used. Finally, this RH map was used for testing the accuracy of the chicken genome assembly for chromosome 5. A total of 169 markers (21 microsatellites and 148 ESTs) were typed on the ChickRH6 RH panel, of which 134 were assigned to GGA5. The final map is composed of 73 framework markers extending over a 1315.6 cR distance. The remaining 61 markers were placed alongside the framework markers within confidence intervals. The high resolution framework map obtained in this study has markers covering the entire chicken chromosome 5 and reveals the existence of a high number of rearrangements when compared to the human genome. Only two discrepancies were observed...Continue Reading

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Aug 10, 2006·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Anette RinkCraig W Beattie
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Methods Mentioned

BETA
PCR
genotyping
genotypings

Software Mentioned

EnsMart
BLASTN
ICCARE ( Interspecific Comparative Clustering and Annotation f...
Ensembl
ICCARE
Carthagene
Primer3
ICCARE ( Interactive Comparative Clustering and Annotation foR...
MapChart
BLAST

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