Characterization and linkage map assignments for 61 new horse microsatellite loci (<i>AHT49–109</i>)

Swinburne, June; Turner, Angela; Alexander, L. J.; Mickleson, J. R.; Binns, M. M.

doi:10.1046/j.1365-2052.2003.00951_1.x

Cited by 8 publications

(4 citation statements)

References 1 publication

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“…Identification of informative markers to reduce intervals and to improve coverage in the 17 chromosomes listed above should be an important consideration for future horse gene mapping research. This could be accomplished by targeted mapping of new polymorphic microsatellites on the IHRFP for which chromosome assignments are known from twopoint linkage analyses on the NRF resource Swinburne et al, 2003) or RH panel (Wagner et al, 2004) or by targeted development of markers using high resolution RH maps to identify genes within the regions, select BACs containing those genes and search for microsatellites within those BACs.…”

Section: Resultsmentioning

confidence: 99%

International equine gene mapping workshop report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources

Penedo

Millon

Bernoco³

et al. 2005

Cytogenet Genome Res

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A comprehensive male linkage map was generated by adding 359 new, informative microsatellites to the International Equine Gene Map half-sibling reference families and by combining genotype data from three independent mapping resources: a full sibling family created at the Animal Health Trust in Newmarket, United Kingdom, eight half-sibling families from Sweden and two half-sibling families from the University of California, Davis. Because the combined data were derived primarily from half-sibling families, only autosomal markers were analyzed. The map was constructed from a total of 766 markers distributed on the 31 equine chromosomes. It has a higher marker density than that of previously reported maps, with 626 markers linearly ordered and 140 other markers assigned to a chromosomal region. Fifty-nine markers (7%) failed to meet the criteria for statistical evidence of linkage and remain unassigned. The map spans 3,740 cM with an average distance of 6.3 cM between markers. Fifty-five percent of the intervals are ≤5 cM and only 3% ≧20 cM. The present map demonstrates the cohesiveness of the different data sets and provides a single resource for genome scan analyses and integration with the radiation hybrid map.

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Section: Resultsmentioning

confidence: 99%

International equine gene mapping workshop report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources

Penedo

Millon

Bernoco³

et al. 2005

Cytogenet Genome Res

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show abstract

“…To confirm the chromosomal localization, RH-mapping of a marker from the DEFB1 (AY170305) gene was also performed. Two-point mapping placed the marker at a distance of 24 cR to the known marker AHT082 (Swinburne et al, 2003) on ECA 27 with a two-point lod score of 11. Therefore, the RHmapping results confirmed the cytogenetic localization distal on ECA 27.…”

Section: Chromosomal Localizationmentioning

confidence: 99%

Sequence analysis of a 212 kb defensin gene cluster on ECA 27q17

Looft

Paul

Philipp³

et al. 2006

Gene

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“…Table 1 shows the sequence information of the 15 equine STRs, including their position on the genome, their accession numbers, and the length of their PCR products. To amplify 8 STRs (Table 2) by fluorescent dye UP-mPCR reaction, primers were selected [22][23][24][25] (Shanghai Generay Biotech and Beijing SBS Biotech, China) and dissolved in 10 mM Tris-HCl (pH 8.5). The eight pairs of primers (Table 2) were added to the pre-prepared Taq polymerase felt mixture (Taq polymerase 2X: polymerase 0.25 units/μL, nucleotide 0.4 mM, MgCl2 3.6 mM, KCl 50 mM in 20 mM Tris-HCl, pH 8.5).…”

Section: Pcrmentioning

confidence: 99%

“…Since mPCR has a unique pair of primers for each amplification fragment, increasing the concentration of sample and primer to increase the yield of the reaction on low-quality DNA samples not only improves the results, but also produces more by-products [21][22][23]. According to ISAG recommendations, 8 STR repeats are added to the 9 equine STRs, and a total of 17 microsatellites are used alphabetically [24][25][26][27]. The purpose of this study was to perform UP-mPCR using primers attached to fluorescent dyes on low-quality DNA samples extracted from longdegraded blood.…”

Section: Introductionmentioning

confidence: 99%

Combination of upstream primer-multuplex PCR (UP-mpcr) and capillary electrophoresis for equine genetic analysis

Munkhtogtokh,

Nyamgerel,

Zanabazar

et al. 2023

Mong. J. Agric. Sci.

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The purity and content of DNA extracted from the sample is important during PCR analysis. In the conditions of our country, there are many cases of working on samples that do not meet the requirements for some reason. In such cases, there is a need to further test and develop other sensitive methods. The upstream-primer multiplex PCR (UP-mPCR technique) is known for its high specificity and fidelity, and has been used for detecting multiple food borne pathogens, meat species testing and detecting different genetically modified organism (GMO) insertions in a plant genome. The purpose of this experiment is to apply the UP-mPCR method on DNA samples that do not meet the quality requirements, and to test it on domestically produced diagnostics.We combined UP-mPCR with fragment analysis on DNA capillary electrophoresis genetic analyzer by applying fluorescent labelled upstream primers which were tested by amplifying 8 STRs on 23 low-quality equine gDNA samples. These samples had formerly undergone unsuccessful testing by domestic equine genotyping 15-plex kit. Single trial of UP-mPCR on the same samples showed successful amplification and detection of amplicons from 4-6 STRs, and their alleles were genotyped. Combining UP-mPCR and DNA capillary electrophoresis can be helpful in extreme situations such as having limited amounts of sample, or a shortage of multiple fluorescent dye oligonucleotides. There is no former report about the same method as combining UP-mPCR with fragment analysis.

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Characterization and linkage map assignments for 61 new horse microsatellite loci (AHT49–109)

Cited by 8 publications

References 1 publication

International equine gene mapping workshop report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources

International equine gene mapping workshop report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources

Sequence analysis of a 212 kb defensin gene cluster on ECA 27q17

Combination of upstream primer-multuplex PCR (UP-mpcr) and capillary electrophoresis for equine genetic analysis

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