Inbreeding among endogamous groups in three multicaste villages of Srikakulam district,Andhra Pradesh,India

Abstract

In the present paper 702 families have been studied belonging to different endogamous groups in three multicaste villages of Srikakulam District, Andhra Pradesh. It is observed that 33.76 per cent of families are consanguineous marriages. With regard to the types of marriages, 12.11 per cent are uncle‐niece; 14.10 per cent are matrilateral cross‐cousins; 5.84 per cent are patrilateral cross‐cousins; 0.57 per cent are first cousins once removed, and 1.14 per cent are second cousins. There are only six couples (0.86 per cent) in intercaste marriages. The coefficient of inbreeding for autosomal and sex‐linked genes, 0.045 and 0.059, respectively, for Chakalis which are higher than Kalingas (F = 0.03; F1 = 0.038), Segidis (F = 0.031; F1 = 0.041), Velamas (F = 0.026; F1 = 0.036), Vysyas (F = 0.027; F1 = 0.034), Malas (F = 0.017; F1 = 0.026), and others (F = 0.026; F1 = 0.032). The t‐tests for mean marriage distances are statistically significant among all castes, but chi‐squares for intergroup difference of consanguineous and nonconsanguineous marriages are statistically significant only among Kalingas and Chakalis, Vysyas and Chakalis, and Malas and Chakalis.     

Demographic studies in a Brazilian population of Arabian origin

Abstract

Marital distance, exogamy, inbreeding, admixture, and fertility were studied in 513 families of mixed and unmixed Arabian origin living in São José do Rio Preto, Brazil. The 212 unmixed Arabian families were divided into two subgroups: 83 couples married before migration and 129 couples married after migration. The exogamy index and marital distance were significantly higher for the couples married after migration, and the coefficients of inbreeding for both autosomal and sex‐linked genes were also higher for this subgroup. Admixture was studied in 301 families, most of which were comprised of an Arabian man married to a non‐Arabian woman. The frequency of mixed marriages has increased in recent years. The unmixed Arabian group has a significantly higher fertility, but it seems to be dependent upon cultural changes over the years.     

Z LINKAGE OF FEMALE PROMISCUITY GENES IN THE MOTH UTETHEISA ORNATRIX: SUPPORT FOR THE SEXY‐SPERM HYPOTHESIS?

Female preference genes for large males in the highly promiscuous moth Utetheisa ornatrix (Lepidoptera: Arctiidae) have previously been shown to be mostly Z‐linked, in accordance with the hypothesis that ZZ–ZW sex chromosome systems should facilitate Fisherian sexual selection. We determined the heritability of both female and male promiscuity in the highly promiscuous moth U. ornatrix (Lepidoptera: Arctiidae) through parent–offspring and grandparent–offspring regression analyses. Our data show that male promiscuity is not sex‐limited and either autosomal or sex‐linked whereas female promiscuity is primarily determined by sex‐limited, Z‐linked genes. These data are consistent with the “sexy‐sperm hypothesis,” which posits that multiple‐mating and sperm competitiveness coevolve through a Fisherian‐like process in which female promiscuity is a kind of mate choice in which sperm‐competitiveness is the trait favored in males. Such a Fisherian process should also be more potent when female preferences are Z‐linked and sex‐limited than when autosomal or not limited.     

Inbreeding and inbreeding depression in a threatened endemic plant,the African violet (Saintpaulia ionantha ssp. grotei), of the East Usambara Mountains,Tanzania

Mating among closely‐related individuals in small and isolated plant populations may result in reduced vigour of the inbred offspring, i.e. inbreeding depression, especially in naturally outbreeding plants. Occurrence of inbreeding and inbreeding depression was studied in Saintpaulia ionantha ssp. grotei, a threatened endemic plant species with a narrow ecological amplitude from the East Usambara Mountains. The level of inbreeding (measured as the fixation index, F) was investigated in twelve populations by analyzing variation at one microsatellite marker locus. The effect of one generation of selfing and outcrossing on the progeny fitness was studied by controlled crosses in two small patches that differ in the level isolation. The fixation index (F) across the populations was on the average 0.21 and varied among the populations from substantial inbreeding (F = 0.58) to surplus heterozygosity (F = −0.29). High inbreeding depression (δ) was observed at early and late stages of the life‐cycle. The isolated patch exhibited lower inbreeding depression than did the non‐isolated patch. The results of this study suggest that inbreeding and subsequent inbreeding depression are potential threats to the survival of Saintpaulia populations.     

Sequence diversity patterns suggesting balancing selection in partially sex‐linked genes of the plant Silene latifolia are not generated by demographic history or gene flow

DNA sequence diversity in genes in the partially sex‐linked pseudoautosomal region (PAR) of the sex chromosomes of the plant Silene latifolia is higher than expected from within‐species diversity of other genes. This could be the footprint of sexually antagonistic (SA) alleles that are maintained by balancing selection in a PAR gene (or genes) and affect polymorphism in linked genome regions. SA selection is predicted to occur during sex chromosome evolution, but it is important to test whether the unexpectedly high sequence polymorphism could be explained without it, purely by the combined effects of partial linkage with the sex‐determining region and the population's demographic history, including possible introgression from Silene dioica. To test this, we applied approximate Bayesian computation‐based model choice to autosomal sequence diversity data, to find the most plausible scenario for the recent history of S. latifolia and then to estimate the posterior density of the most relevant parameters. We then used these densities to simulate variation to be expected at PAR genes. We conclude that an excess of variants at high frequencies at PAR genes should arise in S. latifolia populations only for genes with strong associations with fully sex‐linked genes, which requires closer linkage with the fully sex‐linked region than that estimated for the PAR genes where apparent deviations from neutrality were observed. These results support the need to invoke selection to explain the S. latifolia PAR gene diversity, and encourage further work to test the possibility of balancing selection due to sexual antagonism.     

A cryptic heterogametic transition revealed by sex-linked DNA markers in Palearctic green toads

In sharp contrast to birds and mammals, most cold‐blooded vertebrates have homomorphic (morphologically undifferentiated) sex chromosomes. This might result either from recurrent X‐Y recombination (occurring e.g. during occasional events of sex reversal) or from frequent turnovers (during which sex‐determining genes are overthrown by new autosomal mutations). Evidence for turnovers is indeed mounting in fish, but very few have so far been documented in amphibians, possibly because of practical difficulties in identifying sex chromosomes. Female heterogamety (ZW) has long been established in Bufo bufo, based on sex reversal and crossing experiments. Here, we investigate a sex‐linked marker identified from a laboratory cross between Palearctic green toads (Bufo viridis subgroup). The F₁ offspring produced by a female Bufo balearicus and a male Bufo siculus were phenotypically sexed, displaying an even sex ratio. A sex‐specific marker detected in highly reproducible AFLP genotypes was cloned. Sequencing revealed a noncoding, microsatellite‐containing fragment. Reamplification and genotyping of families of this and a reciprocal cross showed B. siculus to be male heterogametic (XY) and suggested the same system for B. balearicus. Our results thus reveal a cryptic heterogametic transition within bufonid frogs and help explain patterns of hybrid fitness within the B. viridis subgroup. Turnovers of genetic sex‐determination systems may be more frequent in amphibians than previously thought and thus contribute to the prevalence of homomorphic sex chromosomes in this group.     

Sex‐linked inheritance,genetic correlations and sexual dimorphism in three melanin‐based colour traits in the barn owl

Theory states that genes on the sex chromosomes have stronger effects on sexual dimorphism than genes on the autosomes. Although empirical data are not necessarily consistent with this theory, this situation may prevail because the relative role of sex‐linked and autosomally inherited genes on sexual dimorphism has rarely been evaluated. We estimated the quantitative genetics of three sexually dimorphic melanin‐based traits in the barn owl (Tyto alba), in which females are on average darker reddish pheomelanic and display more and larger black eumelanic feather spots than males. The plumage traits with higher sex‐linked inheritance showed lower heritability and genetic correlations, but contrary to prediction, these traits showed less pronounced sexual dimorphism. Strong offspring sexual dimorphism primarily resulted from daughters not expressing malelike melanin‐based traits and from sons expressing femalelike traits to similar degrees as their sisters. We conclude that in the barn owl, polymorphism at autosomal genes rather than at sex‐linked genes generate variation in sexual dimorphism in melanin‐based traits.     

Control of UVB immunosuppression in the mouse by autosomal and sex-linked genes

Irradiation with UVB (290–320 nm) initiates a systemic immunosuppression detectable as suppression of contact hypersensitivity (CHS). We investigated susceptibility to UV suppression in reciprocal F₁-hybrid and backcross mice derived from BALB/c (low susceptibility) and C57BL/6 (high susceptibility) inbred strains. CB6F₁ male mice exhibited high susceptibility and B6CF₁ male mice exhibited low susceptibility, indicating a major X-linked effect in the genetic control of UV immune suppression. Females of either F₁ hybrid showed intermediate suppression, consistent with random X-inactivation. A model of monogenic X-linked control was not sufficient, and evidence for the action of two genetically unlinked autosomal genes was found in parental backcross animals. Both sexes of (BALB/c × CB6F₁) mice showed a 1 high: 1 low ratio of phenotypes, indicating control by a major autosomal locus, Uvs1, confirmed by propagation of the high phenotype through selective backcrossing for nine generations to BALB/c. Uvs1 was not genetically linked to 12 chromosomal markers including the pigment genes b (brown) and c (albino). Backcross animals (C57BL/6 × CB6F₁) showed a significant sex difference, male mice giving a 3 high: 1 low ratio of phenotypes, compatible with the action of a second autosomal locus, Uvs2, in this hybrid. The findings are compatible with a model in which high phenotype (Uvs1 ^b/Uvs1 ^b) is dominant when subjected to recessive epistatis by the X-chromosome locus Uvs3, or by the autosomal locus Uvs2. The finding of genetic control by interacting autosomal and X-linked genes is unique. Genetically determined high susceptibility to UV immunosuppression may be an important risk factor for UV-related human diseases.     

Epidemiology of monogenic hereditary diseases in Rostov oblast: Population dynamic factors determining the differentiation of the load of hereditary diseases in eight districts

A genetic epidemiological study has been carried out in eight raions (districts) of Rostov oblast (region) of Russia: Tsimlyansk, Volgodonskoi, Tselina, Egorlykskaya, Millerovo, Tarasovskaya, Rodionovo-Nesvetaiskaya, and Matveevo-Kurgan raions. The population structure (the parameters of the isolation by distance model, ethnic assortative marriage, random inbreeding (F _ST), endogamy index, and ie) and the genetic demographic characteristics of the regional population (vital statistics, Crow’s index, and its components) have been analyzed. The total sample size was 320 925 subjects (including 114 106 and 206 816 urban and rural residents, respectively). The load of the main types of Mendelian diseases (autosomal dominant (AD), autosomal recessive (AR), and X-linked diseases) has been calculated for the total sample from eight districts and separately for the urban and rural populations. Substantial differences between individual districts in the AD and AR genetic loads have been found, especially upon separation into urban and rural samples. The results of correlation analysis suggest that migration and genetic drift are the main factors of genetic differentiation of populations with respect to the prevalence of hereditary diseases.     

Does inbreeding distort sex-ratios?

Inbreeding is reputed to distort sex-ratios by reducing the proportion of the homogametic sex. However, many data sets do not show such an effect, and there is a known selective publication bias. To resolve the issue, we (a) developed detailed theoretical expectations for the effects of inbreeding on sex-ratios for autosomal and sex-linked loci with sex-limited effects or with equal effects in the two sexes, (b) evaluated the effects of inbreeding on sex-ratios in a new sample of 25 vertebrate taxa, and (c) evaluated the effects of inbreeding on sex-ratios for 69 replicate populations of Drosophila melanogaster. Theoretical analyses indicated that directional distortions of sex-ratios under inbreeding due to sex-linked loci with sex-limited expression are expected to be small and uncommon and that there will be no distortions in marsupials. Further, sex linked alleles expressed equally in both sexes may also distort sex-ratios following inbreeding. Autosomal sex-limited alleles should not result in directional sex-ratio distortions in large populations or across many replicates, but may lead to distortions of random direction in some small populations. There were no significant directional distortions of sex-ratio due to inbreeding in either the vertebrates or the Drosophila populations. However, there were significant random distortions of sex-ratios in both data sets, presumably from autosomal sex-limited alleles that had drifted in individual populations. Thus, directional distortions in sex-ratio are not a consistent signal of inbreeding depression.     

The effect of sex‐biased dispersal on opposite‐sexed spatial genetic structure and inbreeding risk

Natal sex‐biased dispersal has long been thought to reduce the risk of inbreeding by spatially separating opposite‐sexed kin. Yet, comprehensive and quantitative evaluations of this hypothesis are lacking. In this study, we quantified the effectiveness of sex‐biased dispersal as an inbreeding avoidance strategy by combining spatially explicit simulations and empirical data. We quantified the extent of kin clustering by measuring the degree of spatial autocorrelation among opposite‐sexed individuals (FM structure). This allowed us to systematically explore how the extent of sex‐biased dispersal, generational overlap, and mate searching distance, influenced both kin clustering, and the resulting inbreeding in the absence of complementary inbreeding avoidance strategies. Simulations revealed that when sex‐biased dispersal was limited, positive FM genetic structure developed quickly and increased as the mate searching distance decreased or as generational overlap increased. Interestingly, complete long‐range sex‐biased dispersal did not prevent the development of FM genetic structure when generations overlapped. We found a very strong correlation between FM genetic structure and both F_IS under random mating, and pedigree‐based measures of inbreeding. Thus, we show that the detection of FM genetic structure can be a strong indicator of inbreeding risk. Empirical data for two species with different life history strategies yielded patterns congruent with our simulations. Our study illustrates a new application of spatial genetic autocorrelation analysis that offers a framework for quantifying the risk of inbreeding that is easily extendable to other species. Furthermore, our findings provide other researchers with a context for interpreting observed patterns of opposite‐sexed spatial genetic structure.     

RECENT GENE‐CAPTURE ON THE UV SEX CHROMOSOMES OF THE MOSS CERATODON PURPUREUS

Sex chromosomes evolve from ordinary autosomes through the expansion and subsequent degeneration of a region of suppressed recombination that is inherited through one sex. Here we investigate the relative timing of these processes in the UV sex chromosomes of the moss Ceratodon purpureus using molecular population genetic analyses of eight newly discovered sex‐linked loci. In this system, recombination is suppressed on both the female‐transmitted (U) sex chromosome and the male‐transmitted (V) chromosome. Genes on both chromosomes therefore should show the deleterious effects of suppressed recombination and sex‐limited transmission, while purifying selection should maintain homologs of genes essential for both sexes on both sex chromosomes. Based on analyses of eight sex‐linked loci, we show that the nonrecombining portions of the U and V chromosomes expanded in at least two events (～0.6–1.3 MYA and ～2.8–3.5 MYA), after the divergence of C. purpureus from its dioecious sister species, Trichodon cylindricus and Cheilothela chloropus. Both U‐ and V‐linked copies showed reduced nucleotide diversity and limited population structure, compared to autosomal loci, suggesting that the sex chromosomes experienced more recent selective sweeps that the autosomes. Collectively these results highlight the dynamic nature of gene composition and molecular evolution on nonrecombining portions of the U and V sex chromosomes.     

Extensive gene flow along the urban–rural gradient in a migratory colonial bird

Urban colonization by wildlife involves a combination of several different mechanisms, including phenotype or genotype sorting, phenotypic plasticity and microevolutionary adaptation. Combination of these processes can produce a rapid phenotypic, but also genetic divergence of urban versus rural populations. Here, we examined the pattern of genetic differentiation between urban and rural populations of a colonial migratory bird, the black‐headed gull Chroicocephalus ridibundus. To this end, we sampled ca 170 individuals from six (two urban and four rural) colonies in northern Poland, and genotyped them at ten microsatellite loci. Our analysis provided evidence for negligible genetic divergence of urban and rural colonies, as assessed with fixation index F_ST and Nei's unbiased genetic distance D (mean pairwise urban‐rural comparisons: F_ST = 0.003 ± 0.001 [SE] and D = 0.012 ± 0.006 [SE]). Bayesian clustering methods provided support for homogeneous genetic structure across all urban and rural populations. Also, we found no support for reduced allelic diversity in urban versus rural colonies. These results stand in a stark contrast to the previous findings on the genetic consequences of urbanization in birds. We hypothesize that this pattern could possibly be attributed to the important life‐history characters of the black‐headed gull, including coloniality, migratoriness, and high dispersal propensity. Our study provides a novel insight into the urban landscape genetics, underlining large variation in the mechanisms of urban colonization and its genetic consequences in wild animal populations.     

No evidence that Y‐chromosome differentiation affects male fitness in a Swiss population of common frogs

The canonical model of sex‐chromosome evolution assigns a key role to sexually antagonistic (SA) genes on the arrest of recombination and ensuing degeneration of Y chromosomes. This assumption cannot be tested in organisms with highly differentiated sex chromosomes, such as mammals or birds, owing to the lack of polymorphism. Fixation of SA alleles, furthermore, might be the consequence rather than the cause of recombination arrest. Here we focus on a population of common frogs (Rana temporaria) where XY males with genetically differentiated Y chromosomes (nonrecombinant Y haplotypes) coexist with both XY° males with proto‐Y chromosomes (only differentiated from X chromosomes in the immediate vicinity of the candidate sex‐determining locus Dmrt1) and XX males with undifferentiated sex chromosomes (genetically identical to XX females). Our study finds no effect of sex‐chromosome differentiation on male phenotype, mating success or fathering success. Our conclusions rejoin genomic studies that found no differences in gene expression between XY, XY° and XX males. Sexual dimorphism in common frogs might result more from the differential expression of autosomal genes than from sex‐linked SA genes. Among‐male variance in sex‐chromosome differentiation seems better explained by a polymorphism in the penetrance of alleles at the sex locus, resulting in variable levels of sex reversal (and thus of X‐Y recombination in XY females), independent of sex‐linked SA genes.     

Sex‐biased transcriptome divergence along a latitudinal gradient

Sex‐dependent gene expression is likely an important genomic mechanism that allows sex‐specific adaptation to environmental changes. Among Drosophila species, sex‐biased genes display remarkably consistent evolutionary patterns; male‐biased genes evolve faster than unbiased genes in both coding sequence and expression level, suggesting sex differences in selection through time. However, comparatively little is known of the evolutionary process shaping sex‐biased expression within species. Latitudinal clines offer an opportunity to examine how changes in key ecological parameters also influence sex‐specific selection and the evolution of sex‐biased gene expression. We assayed male and female gene expression in Drosophila serrata along a latitudinal gradient in eastern Australia spanning most of its endemic distribution. Analysis of 11 631 genes across eight populations revealed strong sex differences in the frequency, mode and strength of divergence. Divergence was far stronger in males than females and while latitudinal clines were evident in both sexes, male divergence was often population specific, suggesting responses to localized selection pressures that do not covary predictably with latitude. While divergence was enriched for male‐biased genes, there was no overrepresentation of X‐linked genes in males. By contrast, X‐linked divergence was elevated in females, especially for female‐biased genes. Many genes that diverged in D. serrata have homologs also showing latitudinal divergence in Drosophila simulans and Drosophila melanogaster on other continents, likely indicating parallel adaptation in these distantly related species. Our results suggest that sex differences in selection play an important role in shaping the evolution of gene expression over macro‐ and micro‐ecological spatial scales.     

Intermarriage and reciprocal household exchange practices in a mixed community in Roti,Indonesia

For several generations, intermarriage has been common between indigenous Rotinese Christians and migrant Muslims and their descendants in the Indonesian village of Oelua on Roti Island. Muslims have engaged with the customary institutions upheld by indigenous Rotinese Christians—namely, those associated with marriage proposals and bridewealth. They have also engaged in reciprocal inter‐household exchanges to raise the cash to pay for weddings and bridewealth, as well as for other life cycle events such as funeral feasts and gatherings in the post‐funeral mourning period. This article argues that intermarriage and inter‐household monetary exchanges are important, among other factors, in promoting low conflict relations between the two groups, primarily because of the regular opportunities generated to interact in both public and private spheres. Marriage preferences in Oelua are changing, however, with young Muslim men preferring to marry women who subscribe to the same religion and similar customs. Muslim attitudes are also changing with respect to their involvement in inter‐household reciprocal exchanges, with many wanting to engage in different ways, or not at all. The article discusses what these changing attitudes and practices may mean for maintaining congenial inter‐group relations between Christians and Muslims in the future.     

Hybrid speciation in sparrows II: a role for sex chromosomes?

Homoploid hybrid speciation in animals is poorly understood, mainly because of the scarcity of well‐documented cases. Here, we present the results of a multilocus sequence analysis on the house sparrow (Passer domesticus), Spanish sparrow (P. hispaniolensis) and their proposed hybrid descendant, the Italian sparrow (P. italiae). The Italian sparrow is shown to be genetically intermediate between the house sparrow and Spanish sparrow, exhibiting genealogical discordance and a mosaic pattern of alleles derived from either of the putative parental species. The average variation on the Z chromosome was significantly reduced compared with autosomal variation in the putative parental species, the house sparrow and Spanish sparrow. Additionally, divergence between the two species was elevated on the Z chromosome relative to the autosomes. This pattern of variation and divergence is consistent with reduced introgression of Z‐linked genes and/or a faster‐Z effect (increased rate of adaptive divergence on the Z). F_ST‐outlier tests were consistent with the faster‐Z hypothesis: two of five Z‐linked loci (CHD1Z and PLAA) were identified as candidates for being subject to positive, divergent selection in the putative parental species. Interestingly, the two latter genes showed a mosaic pattern in the (hybrid) Italian sparrow; that is, the Italian sparrow was found to be fixed for Spanish sparrow alleles at CHD1Z and to mainly have house sparrow alleles at PLAA. Preliminary evidence presented in this study thus suggests that sex chromosomes may play a significant role in this case of homoploid hybrid speciation.     

Genetics of diapause in the comma butterfly Polygonia c‐album

The processes of local adaptation and ecological speciation can be better understood by studying the genetic background of life‐history decisions. The sex chromosomes host genes for many population differences in the Lepidoptera and therefore the inheritance of diapause determination in the butterfly Polygonia c‐album may be hypothesized to be sex‐linked. In the present study, Polygonia c‐album (L.) from Spain and Sweden and hybrid offspring are raised under an LD 17 : 7 h photocycle that induces most pure Swedish individuals to develop into the diapausing dark morph and most pure Spanish individuals into the light and directly‐developing morph. If inheritance of the daylength threshold for diapause is X‐linked, as is known to be the case for host‐plant preferences, females should follow the developmental path of their male parents' populations. However, female hybrids instead have a diapause propensity intermediate to that of their parental stocks and, consequentially, diapause determination is not X‐linked. However, male hybrids eclose as the diapausing morph to a higher extent than females and, moreover, this pattern is more pronounced in the Spanish female × Swedish male cross than in the reciprocal cross. Hence, it is concluded that the genetic determination of the critical daylength for diapause is mainly autosomal but with some influence of sex‐linked genes and/or parental effects, possibly as an effect of the importance of protandry for males. Such sex effects could provide a starting point for the evolution of population differences inherited on the sex chromosomes.