Microsatellite marker panels for use in high-throughput genotyping of mouse crosses.
Several microsatellite genotyping panel sets have been developed that are polymorphic between C57BL/6J and CAST/Ei mice, or C57BL/6J and DBA/2J. One set of markers for each strain pair has an intermarker distance of approximately 20 cM, and a second set has an intermarker distance of 5 cM. The 20-cM set contains 105 markers for C57BL/6J x DBA/2J and 108 for C57BL/6J x CAST/Ei, divided into 13 panels. Each 5-cM set includes 350 markers arranged into 45 panels. A panel contains a number of primer pairs whose fluorescently labeled PCR products can be pooled together and separated on one lane of a polyacrylamide gel. The sets are arranged by the size of the PCR product and by the type of fluorescent dye; 5-cM sets are also arranged by chromosomal region. The 20-cM sets are most useful for full-genome scans, the 5-cM sets are useful for full-genome and/or for region-specific chromosome screens. Both sets were proven as useful tools for speed congenic development, quantitative trait loci (QTL) analysis and physical mapping. These panel sets provide a throughput of 1,536-2,304 mouse genotypes daily per one gel-based system. Whole genome scans of one animal require 13 or 48 gel lanes, with 20 cM or 5 cM density, respectively.
Iakoubova
O A
OA
Pfizer Global Research and Development Alameda Laboratories, Alameda 94502, Deltagen, Inc., Menlo Park, California 94025, USA. olga.iakoubova@wl.com
Olsson
C L
CL
Dains
K M
KM
Choi
J
J
Kalcheva
I
I
Bentley
L G
LG
Cunanan
M
M
Hillman
D
D
Louie
J
J
Machrus
M
M
West
D B
DB
D000818:Animals; D002874:Chromosome Mapping; D002875:Chromosomes / Q000235:genetics; D003433:Crosses, Genetic; D004247:DNA / Q000235:genetics; D005260:Female; D005838:Genotype; D008297:Male; D051379:Mice; D008810:Mice, Inbred C57BL; D008811:Mice, Inbred DBA; D018895:Microsatellite Repeats / Q000235:genetics*
D004247:DNA