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We infer phase changes within haploid offspring to be the result of recombination using the parental phase inferred during linkage map construction.
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Parental stress was recorded using the Parental Stress Index – Short Form questionnaire [ 12].
In addition, such a result would set the parental phase for the 2-copy parent as a [2+0] carrier.
For most markers, the parental phase in the Kanota and Ogle mapping parents was known, and +/- marker scores were converted to the scoring convention used by various software packages.
BS carried out the parental phase reconstruction.
However, the parental phase for 98 markers with segregating polymorphisms was unknown.
As controls we used the parental strains crossed to w1118.
We used the parental wild type inbred strain as controls.
First the parental phases must be determined from grand parental and/or progeny genotype information, either looking for their most probable phase, or building all possible phases and computing their probabilities.
Finally, the parental phases were partially reconstructed, allowing identification of recombination events that occurred in each meiosis [ 45].
Parental and offspring genotypes for the 36 informative SNPs in the ~1 Mb region on SSC4 were ordered using the PHASE software [ 10], separately for each trial.
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