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SNP marker segregation patterns in the microspore-derived (MD) population, each of which result from single male meiosis in a near-allohexaploid Brassica F1 hybrid, allowed us to infer detailed meiotic behaviour in this hybrid.
Analyses of genome-wide RAD marker segregation patterns in the two families suggested SNP discovery on all 29 Atlantic salmon chromosome pairs, and highlighted the dearth of male recombination.
Unique marker segregation patterns were included in the set of map bins if they met one of two criteria: (1) at least three independent markers were inferred to have the pattern independently, or (2) the pattern was inferred from at least one marker with at least 20 SNPs such that the mean of the estimated probabilities of the inferred SNP phases was greater than 0.9.
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The marker segregation pattern demonstrated that the isolated spores were the result of meiotic recombination (Figure 2).
Parental genotypes and progeny genotypes were deduced from their initial calls and from the marker segregation pattern.
Therefore, the study only used the SLAF markers which segregation patterns were aa × bb for genetic map construction.
Since a haploid population was used in this study, only the SLAF markers whose segregation patterns were aa × bb were used for genetic map construction.
Given that the map population is DH, the study only used those SLAF markers whose segregation patterns were aa × bb for genetic map construction.
Since the F2 population was derived from two fully homozygous parents with a genotype of aa or bb, so only the SLAF markers with segregation patterns of aa × bb were used for genetic map construction.
However, the actual filtering of such SNPs requires a deep understanding of the performance of SNP markers, genetic segregation patterns and familiarity with the many tools and parameters in GenomeStudio® (GS).
The consistence between marker genotypes and segregation patterns suggest that sd1 is the underlying gene of qPH1.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com