Mitochondrial mismatch analysis is insensitive to the mutational process

Mismatch distributions are histograms showing the pattern of nucleotide (or restriction) site differences between pairs of individuals in a sample. They can be used to test hypotheses about the history of population size and subdivision (if selective neutrality is assumed) or about selection (if a constant population size is assumed). Previous work has assumed that mutations never strike the same site twice, an assumption that is called the model of infinite sites. Fortunately, the results are surprisingly robust even when this assumption is violated. We show here that (1) confidence regions inferred using the infinite- sites model differ little from those inferred using a model of finite sites with uniform site-specific mutation rates, and (2) even when site- specific mutation rates follow a gamma distribution, confidence regions are little changed until the gamma shape parameter falls well below its plausible range, to roughly 0.01. In addition, we evaluate and reject the proposition that mismatch waves are produced by pooling data from several subdivisions of a structured population.      

Cytoplasmic male sterility and fertility restoration in wheat are not associated with rearrangements of mitochondrial DNA in the gene regions for cob,coxII, or coxI

In comparing the genetic organization and exploring the molecular basis of cytoplasmic male sterility (CMS) in wheat, mitochondrial DNAs (mtDNA) from Triticum aestivum, T. timopheevi, CMS alloplasmic wheat with T. aestivum nucleus and T. timopheevi mitochondria, and fertility-restored lines were compared by hybridization analysis with specific probes for three gene regions: CoxII, cob, and coxI. Minor differences between T. aestivum- and T. timopheevi-derived sources were found for gene regions for coxII and cob. For coxI, there are significant differences between T. timopheevi-derived mtDNAs and T. aestivum mtDNA extending beyond an 8 kb distance. All T. timopheevi-derived mtDNA sources have a chimeric gene region (orf256) with part of the upstream coxI gene region, including some coxI-coding region, preceding coxI. The part of orf256 that does not include any of coxI and the 3-flanking region of CMS coxI are not found in T. aestivum mtDNA. Neither orf256 nor the CMS 3-flanking region of coxI are found in T. timopheevi or T. aestivum chloroplastic or nuclear DNA. There do not appear to be DNA sequence differences for the three gene regions studied that are related to either CMS or fertility-restored states.     

Offspring sex ratios correlate with pair-male condition in a cooperatively breeding fairy-wren

We examined sex allocation patterns in island and mainland populationsof cooperatively breeding white-winged fairy-wrens. The markeddifferences in social structure between island and mainlandpopulations, in addition to dramatic plumage variation amongmales both within and between populations, provided a uniquesituation in which we could investigate different predictionsfrom sex allocation theory in a single species. First, we testthe repayment (local resource enhancement) hypothesis by askingwhether females biased offspring sex ratios in relation to theassistance they derived from helpers. Second, we test the malequality (attractiveness) hypothesis, which suggests that femalesmated to attractive high-quality males should bias offspringsex ratios in favor of males. Finally, we test the idea thatfemales in good condition should bias offspring sex ratios towardmales because they are able to allocate more resources to offspring,whereas females in poor condition should have increased benefitsfrom producing more female offspring (Trivers-Willard hypothesis).We used molecular sexing techniques to assess total offspringsex ratios of 86 breeding pairs over 2 years. Both offspringand first brood sex ratios were correlated with the pair-male'sbody condition such that females increased the proportion ofmales in their brood in relation to the body condition (masscorrected for body size) of their social partner. This relationwas both significant and remarkably similar in both years ofour study and in both island and mainland populations. Althoughconfidence of paternity can be low in this and other fairy-wrenspecies, we show how this finding might be consistent with themale quality (attractiveness) hypothesis with respect to malecondition. There was no support for the repayment hypothesis;the presence of helpers had no effect on offspring sex ratios.There was weak support for both the male quality (attractiveness)hypothesis with respect to plumage color and the maternal conditionhypothesis, but their influence on offspring sex ratios wasnegligible after controlling for the effects of pair-male condition.