Rapid Bursts of \u3ci\u3eAndrogen-Binding Protein (Abp)\u3c/i\u3e Gene Duplication Occurred Independently in Diverse Mammals

Background The draft mouse (Mus musculus) genome sequence revealed an unexpected proliferation of gene duplicates encoding a family of secretoglobin proteins including the androgen-binding protein (ABP) α, β and γ subunits. Further investigation of 14 α-like (Abpa) and 13 β- or γ-like (Abpbg) undisrupted gene sequences revealed a rich diversity of developmental stage-, sex- and tissue-specific expression. Despite these studies, our understanding of the evolution of this gene family remains incomplete. Questions arise from imperfections in the initial mouse genome assembly and a dearth of information about the gene family structure in other rodents and mammals. Results Here, we interrogate the latest \u27finished\u27 mouse (Mus musculus) genome sequence assembly to show that the Abp gene repertoire is, in fact, twice as large as reported previously, with 30 Abpa and 34 Abpbg genes and pseudogenes. All of these have arisen since the last common ancestor with rat (Rattus norvegicus). We then demonstrate, by sequencing homologs from species within the Mus genus, that this burst of gene duplication occurred very recently, within the past seven million years. Finally, we survey Abp orthologs in genomes from across the mammalian clade and show that bursts of Abp gene duplications are not specific to the murid rodents; they also occurred recently in the lagomorph (rabbit, Oryctolagus cuniculus) and ruminant (cattle, Bos taurus) lineages, although not in other mammalian taxa. Conclusion We conclude that Abp genes have undergone repeated bursts of gene duplication and adaptive sequence diversification driven by these genes\u27 participation in chemosensation and/or sexual identification

Genetic conflict outweighs heterogametic incompatibility in the mouse hybrid zone?

<p>Abstract</p> <p>Background</p> <p>The <it>Mus musculus musculus/M. m. domesticus </it>contact zone in Europe is characterised by sharp frequency discontinuities for sex chromosome markers at the centre of wider clines in allozyme frequencies.</p> <p>Results</p> <p>We identify a triangular area (approximately 330 km²) where the <it>musculus </it>Y chromosome introgresses across this front for up to 22 km into <it>domesticus </it>territory. Introgression of the Y chromosome is accompanied by a perturbation of the census sex ratio: the sex ratio is significantly female biased in <it>musculus </it>localities and <it>domesticus </it>localities lacking Y chromosome introgression. In contrast, where the <it>musculus </it>Y is detected in <it>domesticus </it>localities, the sex ratio is close to parity, and significantly different from both classes of female biased localities. The geographic position of an abrupt cline in an X chromosome marker, and autosomal clines centred on the same position, seem unaffected by the <it>musculus </it>Y introgression.</p> <p>Conclusion</p> <p>We conclude that sex ratio distortion is playing a role in the geographic separation of speciation genes in this section of the mouse hybrid zone. We suggest that clines for genes involved in sex-ratio distortion have escaped from the centre of the mouse hybrid zone, causing a decay in the barrier to gene flow between the two house mouse taxa.</p

Rapid bursts of androgen-binding protein (Abp) gene duplication occurred independently in diverse mammals

<p>Abstract</p> <p>Background</p> <p>The draft mouse (<it>Mus musculus</it>) genome sequence revealed an unexpected proliferation of gene duplicates encoding a family of secretoglobin proteins including the androgen-binding protein (ABP) α, β and γ subunits. Further investigation of 14 α-like (<it>Abpa</it>) and 13 β- or γ-like (<it>Abpbg</it>) undisrupted gene sequences revealed a rich diversity of developmental stage-, sex- and tissue-specific expression. Despite these studies, our understanding of the evolution of this gene family remains incomplete. Questions arise from imperfections in the initial mouse genome assembly and a dearth of information about the gene family structure in other rodents and mammals.</p> <p>Results</p> <p>Here, we interrogate the latest 'finished' mouse (<it>Mus musculus</it>) genome sequence assembly to show that the <it>Abp </it>gene repertoire is, in fact, twice as large as reported previously, with 30 <it>Abpa </it>and 34 <it>Abpbg </it>genes and pseudogenes. All of these have arisen since the last common ancestor with rat (<it>Rattus norvegicus</it>). We then demonstrate, by sequencing homologs from species within the <it>Mus </it>genus, that this burst of gene duplication occurred very recently, within the past seven million years. Finally, we survey <it>Abp </it>orthologs in genomes from across the mammalian clade and show that bursts of <it>Abp </it>gene duplications are not specific to the murid rodents; they also occurred recently in the lagomorph (rabbit, <it>Oryctolagus cuniculus</it>) and ruminant (cattle, <it>Bos taurus</it>) lineages, although not in other mammalian taxa.</p> <p>Conclusion</p> <p>We conclude that <it>Abp </it>genes have undergone repeated bursts of gene duplication and adaptive sequence diversification driven by these genes' participation in chemosensation and/or sexual identification.</p

Genetic Structure of the Western and Eastern African Sahel/Savannah Belt and the Role of Nomadic Pastoralists as Inferred from the Variation of D-loop mtDNA sequences

The objective of this study is to provide deeper knowledge of the maternal genetic structure and demographic history of the human population of the dynamic Sahel/Savannah belt, the extensive region lying between the Sahara and tropical rainforests, spanning from the Atlantic Ocean to the Red Sea coast. The study aims to confirm or disconfirm archaeological and linguistic data indicating that the region’s populations underwent diversification as a result of the spread of agropastoral food-producing subsistence lifestyles, over time dividing the region into separate areas of nomadic pastoralism on the one hand, and sedentary farming on the other. In order to perform both descriptive and coalescence analyses from the Sahel/Savannah belt’s entire region, including western and eastern rather than just central populations studied previously, we generated a new mtDNA dataset not only having almost 2,000 samples (875 of which were newly collected); but also encompassing whole mtDNA D-loop segment rather than only the previously studied HVS-1. While comparing our analyses with previous results from the Lake Chad Basin (central Sahel/Savannah Belt) we revealed similar intra-population diversity measures (i.e., lower values of measures in pastoralists than farmers). However, the new dataset pointed to significant differences in mating strategies between western as compared to the eastern pastoralists: our results suggest higher gene flow between the Arabic pastoralists and neighboring farmers in the eastern than between the Fulani pastoralists and their sedentary neighbors in the western part of the Sahel/Savannah Belt. The findings are discussed in the light of archaeological and linguistic data, allowing us to postulate that the genetic differentiation of Fulani pastoralists from the common western African agropastoral gene pool occurred at around the same time as the arrival of the Arabic pastoralists to eastern Africa. However, it seems that while the process of divergence of the Fulani pastoralists in the west was accompanied by a loss of Fulani females to other populations, the Arab pastoralists’ immigration to the Sahel/Savannah belt conversely resulted in some gain of local females into this Arab population

The Indo-European flyway: Opportunities and constraints reflected by Common Rosefinches breeding across Europe

Aim The configuration of the earth's landmasses influences global weather systems and spatiotemporal resource availability, thereby shaping biogeographical patterns and migratory routes of animals. Here, we aim to identify potential migratory barriers and corridors, as well as general migration strategies within the understudied Indo-European flyway.Location Europe, Central Asia.Major taxon studied Common rosefinches.Methods We used a combination of theoretical optimization modelling and empirical tracking of Common Rosefinches (Carpodacus erythrinus) breeding across a large latitudinal gradient in Europe. First, we identified optimal migration routes driven by wind and resource availability along the Indo-European flyway. Second, we tracked rosefinches from five breeding populations using light-level geolocators. Finally, we compared to what extent empirical tracks overlapped with the modelled optimal routes.ResultsIn autumn, theoretical wind driven migration routes formed a broad-front corridor connecting Europe and the Indian Subcontinent while the theoretical resource driven routes formed a distinct north-south divide. The latter pattern also reflected the rosefinch tracks with all but the most southerly breeding birds making a northern detour towards non-breeding sites in Pakistan and India. In spring, the resource availability model predicted a similar migratory divide, however, the southern route seemed relatively more favourable and closely matched with the optimal wind driven migration routes. Spring tracking data showed larger overlap with the modelled wind driven migration routes compared to the resource driven routes.Main conclusionsOptimal wind and resource driven migration routes along the Indo-European flyway are seasonally specific and to a large extend do not overlap with one another. Under these conditions, migratory birds adopt seasonally distinct migration strategies following energy minimization strategy in autumn, driven by resource availability, and time minimizing strategy in spring, driven by wind conditions. Our optimal migration models can be applied worldwide and used to validate against empirical data to explain large-scale biogeographic pattern of migratory animals.</p

Data from: Context-dependence of maternal effects: testing assumptions of optimal egg size, differential- and sex-allocation models

If offspring develop in adverse conditions, the maternal component of their phenotypic variation might increase due to the stronger dependence of offspring traits on parental investment. This should result in increased parental investment to individual offspring, as assumed by the model of optimal egg size. The opposite pattern, i.e., stronger dependence of offspring fitness on parental investment and consequently larger parental investment under good conditions is assumed by both the theory of differential allocation if attractive males provide material benefits, and reproductive compensation if they invest less into paternal care. Another influential idea is the Trivers-Willard model, which assumes sex-specific dependence of offspring fitness on parental investment. Here we tested these ideas by examining the effects of egg size on offspring fitness across many postnatal contexts in the Collared Flycatcher Ficedula albicollis. We employed a cross-fostering design that generated variation in egg size within nests and used brood means of fledgling mass as a functional measure of the quality of rearing conditions. Effects of egg size on three offspring traits, including lifetime reproductive success of recruits, were more pronounced in low-quality broods. These results support the assumption of the model of optimal egg size. Based on female preference for males providing material benefits, this pattern could support differential allocation, if attractive males invest less in paternal care, or reproductive compensation, if they invest more. By comparison, we did not find any evidence for sex specificity of fitness returns that might explain sex monomorphism of egg size in this species. The challenge for future studies will be the integration of components of parental investment and offspring fitness into their global measures and testing how the former affects the latter across gradients of postnatal conditions

Mediterranean lineage endemism, cold-adapted palaeodemographic dynamics and recent changes in population size in two solitary bees of the genus Anthophora

Anthophora plumipes is a solitary bee species common in Europe, Northern Africa, and the Middle East. Its sibling species A. villosula, which inhabits Eastern Asia, was recently introduced to the USA from Japan and has become naturalized there. The phylogeographic pattern in both species is unknown. Therefore, they are appropriate models for a phylogeographic study addressing overall genetic structure and colonization history. Analyses based on 11 microsatellite loci and a 727-bp cytochrome oxidase I (COI) sequence in samples from 41 localities, including the USA and Japan, revealed the presence of divergent clusters with strong geographic patterns. Both nuclear and mitochondrial markers show a significant genetic differentiation of A. villosula from A. plumipes, supporting their status as separate species. Several unique and divergent COI haplotypes in Spain, Greece and Israel indicate a high level of Mediterranean endemism, likely resulting from post-glacial areal contraction and fragmentation. A Bayesian skyline plot analysis suggests palaeodemographic dynamics typical of cold-adapted species — a stable effective population size during the ice age and its accelerated decrease after the glacial maximum. Recently, population sizes have increased and stabilized with land urbanization. A Bayesian clustering analysis of the microsatellite data only partially supported the Mediterranean COI groups, likely suggesting recent admixture of formerly isolated populations. Similarly, the British localities formed a separate cluster based on microsatellite markers, which was not supported by mitochondrial DNA. Analyses based on an isolation with migration model revealed a low effective population size for the British population and suggested asymmetric gene flow, primarily from continental Western Europe to the British Isles.SCOPUS: ar.jinfo:eu-repo/semantics/publishe

Cross-fostering eggs reveals that female collared flycatchers adjust clutch sex ratios according to parental ability to invest in offspring

Across animal taxa, reproductive success is generally more variable and more strongly dependent upon body condition for males than for females; in such cases, parents able to produce offspring in above-average condition are predicted to produce sons, whereas parents unable to produce offspring in good condition should produce daughters. We tested this hypothesis in the collared flycatcher (Ficedula albicollis) by cross-fostering eggs among nests and using the condition of foster young that parents raised to fledging as a functional measure of their ability to produce fit offspring. As predicted, females raising heavier-than-average foster fledglings with their social mate initially produced male-biased primary sex ratios, whereas those raising lighter-than-average foster fledglings produced female-biased primary sex ratios. Females also produced male-biased clutches when mated to males with large secondary sexual characters (wing patches), and tended to produce male-biased clutches earlier within breeding seasons relative to females breeding later. However, females did not adjust the sex of individuals within their clutches; sex was distributed randomly with respect to egg size, laying order and paternity. Future research investigating the proximate mechanisms linking ecological contexts and the quality of offspring parents are able to produce with primary sex-ratio variation could provide fundamental insight into the evolution of context-dependent sex-ratio adjustment. © 2012 Blackwell Publishing Ltd