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Exact(4)
The large chromosomal replacement described previously for ST239 [8] was reflected in the sequence data obtained here; distinct ST8-like and ST-30 like parent loci constitute the ST239 chromosome.
Second, it facilitates data-management; it is much more efficient to generate integrated loci first and use JoinMap 4.1 to convert them back to single parent loci when needed than to integrate loci at a later stage.
Focusing only on chained DA blocks, we still find significantly faster evolution in daughter compared with parent loci (FET: P = 0.002, OR = 23.69 [95% CI, 2.71 282.99]; see row five in table 3).
Because parent loci are less likely than daughter loci to have been affected by genomic rearrangements, we expect to see an enrichment of chained blocks near parent peptides compared with daughter peptides.
Similar(56)
Low alignment scores of these duplicates point to significant divergence from the parent locus.
Assuming co-occurrence on an alignment chain indicates duplication of the noncoding sequence with the gene, this finding suggests that the derived (i.e., daughter) noncoding sequence is more likely to diverge from the ancestral version than the copy that remains at the parent locus.
To create separate parental maps, integrated loci are automatically converted into single-parent loci in JoinMap 4.1.
For example, for an AA parent at locus j, a fraction p jr of its offspring will have genotype AA, while a fraction q jr of its offspring will have genotype Aa.
All polymorphic markers segregated in a 1 2 1 ratio in the progeny (heterozygous in the F1 parent), and locus segregation was tested for goodness of fit to expected Mendelian segregation ratios, in Chi tests (P ≤0.01).
Parent-specific locus genotype data sets were then integrated into one dataset in each LG using the Combine Groups for Mapping Integration Module, followed by locus ordering by the Regression Mapping Module of JoinMap.
The classical dominance model of heterosis explains the superiority of hybrid plants by the complementation of deleterious parental alleles by superior alleles of the second parent at many loci [3].
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