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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.
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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.
Among 103 newly analyzed markers, 25 markers showed a segregation pattern distorted from the 1 2 1 Mendelian ratio in the F2 population, based on chi-square goodness of fit at the 0.05 probability level (Additional file 2: Table S2).
A RAD marker is a segregation pattern of alleles at a locus used in the construction of the linkage map.
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.
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