Similar estimates of population genetic composition and sex ratio derived from carcasses and faeces of Eurasian otter Lutra lutra

Collecting faeces is viewed as a potentially efficient way to sample elusive animals. Nonetheless, any biases in estimates of population composition associated with such sampling remain uncharacterized. The goal of this study was to compare estimates of genetic composition and sex ratio derived from Eurasian otter Lutra lutra spraints (faeces) with estimates derived from carcasses. Twenty per cent of 426 wild-collected spraints from SW England yielded composite genotypes for 7-9 microsatellites and the SRY gene. The expected number of incorrect spraint genotypes was negligible, given the proportions of allele dropout and false allele detection estimated using paired blood and spraint samples of three captive otters. Fifty-two different spraint genotypes were detected and compared with genotypes of 70 otter carcasses from the same area. Carcass and spraint genotypes did not differ significantly in mean number of alleles, mean unbiased heterozygosity or sex ratio, although statistical power to detect all but large differences in sex ratio was low. The genetic compositions of carcass and spraint genotypes were very similar according to confidence intervals of theta and two methods for assigning composite genotypes to groups. A distinct group of approximately 11 carcass and spraint genotypes was detected using the latter methods. The results suggest that spraints can yield unbiased estimates of population genetic composition and sex ratio.     

Reproductive performance of male and female phenotypes in three sex chromosomal genotypes(XX, XY, YY) in the killifish, Oryzias latipes.

The present study investigates the juvenile and adult reproductive performance of Japanese killifish, Oryzias latipes, which were successfully sex-reversed by feeding them male or female sex hormones during the fry stage. Sexual maturation of these laboratory grown fish of three known genotypes (XX, SY, YY) occurred earliest in untreated genotypes, next in genotypes treated with male hormone (methyl testosterone) and female hormone (estrone), respectively. The delay in sexual maturation caused by early exogenous, sex-hormone treatment may represent a disturbance in the delicate neural-gonadal axis. However, the degree of response was also strongly influenced by the animal's sex chromosomal genotype. XX fish, normally phenotypic females, were affected more by the male hormone than by the female hormone. XY and YY fish, normally phenotypic males, were delayed more by the female hormone than by the male hormone. This specific sex hormone-sex genotype interaction also influenced adult reproductive performance (sperm or egg production). Differences in the metabolism of male and female sex hormones by the XX, XY, and YY fish are probably responsible for these interesting findings.     

Inter-genotype variation in reproductive response to crowding among Daphnia pulex

Crowding is known to have a major influence on reproduction in the freshwater microcrustacean Daphnia pulex. We analyzed reproductive output of six different D. pulex genotypes under two different density regimes in the laboratory. Four of these genotypes reproduce via obligate parthenogenesis, allowing thorough analysis of the life history strategies of some asexual lines. Among 30,109 neonate offspring and 1041 resting egg ephippia collected, several trends were evident. Crowding induced increased resting egg production and reduced neonate offspring production among all genotypes. Offspring sex ratios grew more male-biased with maternal age. The extent, but not direction, of each of these trends varied among genotypes. Offspring sex ratios, and the very direction in which they changed in response to crowding, differed significantly among genotypes with some genotypes producing more and others fewer males in response to crowding. Obligately parthenogenetic genotypes seemed to respond to the crowding stimulus in similar ways as the facultatively parthenogenetic genotypes, as expected from the sexual origins of their genomes. The inter-genotype variation in life-history traits observed in this and other investigations calls into question the common practice of extrapolating results from a single Daphnia genotype to an entire species. Our findings are considered in the context of other research in the field of environmental influences on Daphnia reproduction with a review of representative literature.     

Identification of male heterogametic sex-determining regions on the Atlantic herring Clupea harengus genome

The sex determination system of Atlantic herring Clupea harengus L., a commercially important fish, was investigated. Low coverage whole-genome sequencing of 48 females and 55 males and a genome-wide association study revealed two regions on chromosomes 8 and 21 associated with sex. The genotyping data of the single nucleotide polymorphisms associated with sex showed that 99.4% of the available female genotypes were homozygous, whereas 68.6% of the available male genotypes were heterozygous. This is close to the theoretical expectation of homo/heterozygous distribution at low sequencing coverage when the males are factually heterozygous. This suggested a male heterogametic sex determination system in C. harengus, consistent with other species within the Clupeiformes group. There were 76 protein coding genes on the sex regions but none of these genes were previously reported master sex regulation genes, or obviously related to sex determination. However, many of these genes are expressed in testis or ovary in other species, but the exact genes controlling sex determination in C. harengus could not be identified.     

The expression of andromonoecy in Solanum hirtum (Solanaceae): phenotypic plasticity and ontogenetic contingency

Sex expression (the proportions of staminate and hermaphrodite flowers produced) in andromonoecious Solarium hirtum is phenotypically plastic, and there is genetic variation for sex expression plasticity. Changes in sex expression phenotype are inherently the result of altered development. However, the underlying developmental components of sex expression plasticity and of differences in plasticity among genotypes are unknown. This study takes an explicitly genetic and developmental approach to the study of phenotypic plasticity and examines changes in sex expression of ten clonally replicated genotypes at three levels of organization: among inflorescences, within inflorescences, and at the level of developing floral meristems. Changes in sex expression of individuals and differences among individuals are the result of a predictable interplay of resource, architectural, and floral level response within the hierarchical construction of the shoot system. Phenotypic plasticity of whole plant sex expression is ultimately due to sexual lability of individual developing flowers: floral sex is not determined until a primordium size of 9–10 mm. Until that time, sex expression remains labile and developing floral primordia can respond to changes in plant resource status. This flower level developmental lability, however, is expressed within the constraints set by the architecture and ontogenetic history of the organism. Only those floral primordia produced in distal portions of each inflorescence are labile, capable of developing into either a staminate or hermaphrodite flower, whereas those primordia in basal positions invariably develop as hermaphrodite flowers. The genotypes differ with respect to the architectural components of phenotypic plasticity and it is this architectural variation that results in differences in plasticity among genotypes. The phenomenon, in which the developmental fate of a primordium depends upon where and when it is produced within the architecture of an organism and what events have preceded it during ontogeny, can be termed “ontogenetic contingency.”     

Natural genetic variation in social niche construction: social effects of aggression drive disruptive sexual selection in Drosophila melanogaster

Social niche construction (SNC) occurs when animals actively shape their social environments. Currently the fitness consequences of SNC are poorly understood, and no study has examined whether variation in SNC has a genetic basis. Here we report the first instance of genetic variation in SNC by showing that Drosophila male aggression shapes the social environment. We allowed flies of different genotypes to interact in complex arenas; we measured the number and sex of individuals in the groups that formed and counted instances of mating. Arenas containing more aggressive male genotypes formed groups with fewer males, demonstrating that aggressive male genotypes experienced different social environments than nonaggressive genotypes. Further, genotypes with highest mating success were those whose SNC behavior generated the social environment in which they were most adept at mating: genotypes who mate most often after winning aggressive encounters benefit from aggressive SNC, while genotypes who mate most often after losing achieve high mating rates by forgoing aggression. The presence of these alternative strategies-which were robust across eight population densities-revealed that selection on aggression and context-dependent mating was disruptive, consistent with the hypothesis that SNC can maintain genetic variation in multiple behaviors.     

Analysis of repetitive DNA sequences in the sex chromosomes of Oreochromis niloticus

In the Nile tilapia, Oreochromis niloticus, sex determination is primarily genetic, with XX females and XY males. While the X and Y chromosomes (the largest pair) cannot be distinguished in mitotic chromosome spreads, analysis of comparative hybridization of X and Y chromosome derived probes (produced, by microdissection and DOP-PCR, from XX and YY genotypes, respectively) to different genotypes (XX, XY and YY) has demonstrated that sequence differences exist between the sex chromosomes. Here we report the characterization of these probes, showing that a significant proportion of the amplified sequences represent various transposable elements. We further demonstrate that concentrations of a number of these individual elements are found on the sex chromosomes and that the distribution of two such elements differs between the X and Y chromosomes. These findings are discussed in relation to sex chromosome differentiation in O. niloticus and to the changes expected during the early stages of sex chromosome evolution.     

The effects of sex and mutation rate on adaptation in test tubes and to mouse hosts by Saccharomyces cerevisiae

Some hypotheses for the evolution of sex focus on adaptation to changing or heterogeneous environments, but these hypotheses have rarely been tested. We tested for advantages of sex and of increased mutation rates in yeast strains in two contrasting environments: a standard and relatively homogeneous laboratory environment of minimal medium in test tubes, and the variable environment of a mouse brain experienced by pathogenic strains. Evolving populations were founded as equal mixtures of sexual and obligately asexual genotypes. In the sexuals, cycles of sporulation, meiosis, and mating were induced approximately every 50 mitotic generations, with the asexuals undergoing sporulation but not ploidy cycles or recombination. In both environments, replicate negative control populations established with the same pair of strains were propagated with neither mating nor meiosis. In test tubes with no sex induced, sexuals were fixed in all five replicates within 250 mitotic generations, whereas in mice with no sex induced, asexuals were fixed in all four replicates by 170 generations. Inducing sex altered these outcomes in opposite directions in test tubes and mice, decreasing the fixation frequencies of sexuals in test tubes but increasing them in mice. These contrasts with asexual controls suggest an advantage for sex in mice but not in test tubes, although there was no difference between test tubes and mice in the numbers of populations fixed-for sexuals. In analogous experiments testing for an advantage of increased mutation rates, wild-type genotypes became fixed at the expense of mutators in every replicate of both test tube and mouse populations, indicating a disadvantage for mutators in both environments. Increased rates of point mutation do not appear to accelerate adaptation.     

Haemoglobin polymorphism inGadus morhua: Genotypic differences in haematocrit

Haematocrit (erythrocyte/plasma ratio) values of the three commonHbI genotypes were recorded in two samples totalling 149 specimens of Atlantic cod (Gadus morhua L.) caught in the Trondheimsfjord, Norway, during March–April 1984. The haematocrit values were shown to depend on bothHbI genotype and sex; the females revealed higher average haematocrit values than males, and among the males theHbI-22 genotypes displayed higher average haematocrit values than the two other HbI genotypes.Contribution No. 211, Biological Station, N-7000 Trondheim, Norway     

Marek's disease and major histocompatibility complex haplotypes in chickens selected for high or low antibody response

Sublines of chickens differing in genotypes at the major histocompatibility complex (MHC) were developed from lines selected for high (HA) and low (LA) antibody response to sheep erythrocytes. To evaluate the influence of MHC genotypes in diverse background genomes on resistance to Marek's disease, chicks with MHC genotypes B13B13, B13B21 and B21B21 from both background genomes were exposed naturally commencing at 1 day of age. Individuals which died up to 120 days of age were autopsied to determine cause of death. Mortality due to Marek's disease was greater for HA than LA chickens and greater for males than females. Interactions of MHC genotypes with background genome and with sex suggest a complex picture of the influence of MHC genotypes. A heterozygous advantage for resistance to Marek's disease was noted, as would be predicted by genetic theory concerning maintenance of polymorphism at the MHC.     

Genetic variation and reproductive patterns in wetland mosses suggest efficient initial colonization of disturbed sites

To understand colonization processes, it is critical to fully assess the role of dispersal in shaping biogeographical patterns at the gene, individual, population, and community levels. We test two alternative hypotheses (H I and H II) for the colonization of disturbed sites by clonal plants, by analyzing intraspecific genetic variation in one and reproductive traits in two typical fen mosses with separate sexes and intermittent spore dispersal, comparing disturbed, early‐succession (limed) fens and late‐successional rich fens. H I suggests initial colonization of disturbed sites by diverse genotypes of which fewer remain in late‐successional fens and an initially balanced sex ratio that develops into a possibly skewed population sex ratio. H II suggests initial colonization by few genotypes and gradual accumulation of additional genotypes and an initially skewed sex ratio that alters into the species‐specific sex ratio, during succession. Under both scenarios, we expect enhanced sexual reproduction in late‐successional fens due to resource gains and decreased intermate distances when clones expand. We show that the intraspecific genetic diversity, assessed by two molecular markers, in Scorpidium cossonii was higher and the genetic variation among sites was smaller in disturbed than late‐successional rich fens. Sex ratio was balanced in S. cossonii and Campylium stellatum in disturbed fens and skewed in C. stellatum in late‐successional fens, thus supporting H I. In line with our prediction, sex expression incidence was higher in, and sporophytes were confined to, late‐succession compared to disturbed rich fens. Late‐successional S. cossonii sites had more within‐site patches with two or more genotypes, and both species displayed higher sex expression levels in late‐successional than in disturbed sites. We conclude that diverse genotypes and both sexes disperse efficiently to, and successfully colonize new sites, while patterns of genetic variation and sexual reproduction in late‐successional rich fens are gradually shaped by local conditions and interactions over extended time periods.     

Evolutionary consequences of cytoplasmic sex ratio distorters

Summary Computer simulations of diploid genetic models were used to examine the consequences of the spread of a cytoplasmic sex ratio distorter on the frequencies of nuclear sex-determination alleles and the spread of nuclear resistance alleles in female biased populations. The cytoplsmic elements considered here override the expression of the nuclear sex-determination genes, turning genetic males into females. When homozygous male genotypes are viable, a cytoplasmic sex ratio historter spreads in a population if the proportion of daughters produced by infected females exceeds the proportion of daughters produced by uninfected females. The equilibrium frequency of male phenotypes is the proportion of uninfected progeny produced by infected females. When homozygous male genotypes are lethal, the conditions for the spread of the cytoplasmic element are more stringent. The spread of a cytoplasmic sex ratio distorter causes an increase in the frequency of nuclear male sex-determination alleles as a result of the unusual combinations of genotypes which mate in infected populations. Eventually, a cytoplasmic element may replace the nuclear gene as the sex-determination mechanism. This occurs without selection. Nuclear genes conferring resistance to cytoplasmic sex ratio distorters generally increase in female biased populations and often restore a 11 sex ratio despite continual selection on the cytoplasmic element to increase its transmission efficiency.     

Extending long-range phasing and haplotype library imputation methods to impute genotypes on sex chromosomes

AlphaImpute is a flexible and accurate genotype imputation tool that was originally designed for the imputation of genotypes on autosomal chromosomes. In some species, sex chromosomes comprise a large portion of the genome. For example, chromosome Z represents approximately 8% of the chicken genome and therefore is likely to be important in determining genetic variation in a population. When breeding programs make selection decisions based on genomic information, chromosomes that are not represented on the genotyping platform will not be subject to selection. Therefore imputation algorithms should be able to impute genotypes for all chromosomes. The objective of this research was to extend AlphaImpute so that it could impute genotypes on sex chromosomes. The accuracy of imputation was assessed using different genotyping strategies in a real commercial chicken population. The correlation between true and imputed genotypes was high in all the scenarios and was 0.96 for the most favourable scenario. Overall, the accuracy of imputation of the sex chromosome was slightly lower than that of autosomes for all scenarios considered.     

Tests of a mechanistic model of one hormone regulating both sexes in Buchloe dactyloides (Poaceae)

A mechanistic model of one hormone regulating both sexes in flowering plants was tested in buffalograss (Buchloe dactyloides). This model assumes that one hormone has male and female cell receptors to inhibit one sex and induce the other independently. Three components—the normal range of hormone level in the plant and the sensitivity levels of the two receptors—interact to regulate sex expression. The study organism, buffalograss, is usually considered dioecious, but natural populations consist of varying proportions of male, female, and monoecious plants. Prior research with growth regulators had shown that only gibberellin (GA) had consistent and significant effects on sex expression in this species. To test the model assumption of a hormone with a dual function, GA and a GA inhibitor (paclobutrazol, PAC) were applied to three monoecious genotypes; in two of the genotypes the GA treatment yielded a significantly higher proportion of male inflorescences, and this transition involved both inducing male and inhibiting female. PAC treatment produced exclusively female inflorescences, illustrating the dual effects of GA. To test the predictability of the model, GA was applied to two dwarf female genotypes. These plants were transformed into neuter and near-neuter plants with normal height and vegetative growth, as predicted by our model for genotypes with a physiologically wide overlapping of male and female sterile regions. The model also predicts that male or female plants would be induced to produce inflorescences of the other sex if the hormone level could be shifted from one side of the overlapping sterile regions to the other. This was verified by applying high levels of GA to a normal female genotype that resulted in the production of male inflorescences. However, this is the only normal female that has responded to GA application by producing male inflorescences, and males lose vigor and/or die without producing female inflorescences at high levels of PAC. The model suggests that the constancy of these males and females is due to the relative location of the sensitivity levels in relation to each other and to the hormone range. We conclude that the one-hormone model can facilitate both applied and basic research.     

Maternal sex and mate relatedness affect offspring quality in the gynodioecious Silene acaulis

In gynodioecious species, females sacrifice fitness by not producing pollen, and hence must have a fitness advantage over hermaphrodites. Because females are obligately outcrossed, they may derive a fitness advantage by avoiding selfing and inbreeding depression. However, both sexes are capable of biparental inbreeding, and there are currently few estimates of the independent effects of maternal sex and multiple levels of inbreeding on female advantage. To test these hypotheses, females and hermaphrodites from six Alaskan populations of Silene acaulis were crossed with pollen from self (hermaphrodites only), a sibling, a random plant within the same population, and a plant from a different population. Germination, survivorship and early growth revealed inbreeding depression for selfs and higher germination but reduced growth in sib-crosses, relative to outcrosses. Independent of mate relatedness, females germinated more seeds that grew faster than offspring from hermaphrodites. This indicates that inbreeding depression as well as maternal sex can influence breeding system evolution. The effect of maternal sex may be explained by higher performance of female genotypes and a greater abundance of female genotypes among the offspring of female mothers.     

Molecular evidence for historic long-distance translocations of brown bears in the Balkan region

We tested the hypothesis that brown bears were translocated from the Romanian Carpathians to Bulgaria via air transportation during the communist regime in the 1970s and 1980s. Microsatellite analysis was performed on 199 bear samples from Bulgaria and Romania. Assignment and admixture tests revealed the existence of seven genotypes (=2.8 %) in Bulgaria that were assigned with high probabilities to the Romanian population, supporting the translocation and successful establishment of Carpathian bears in Bulgaria. While we cannot rule out the possibility that active long-distance dispersal contributed to the observed pattern, the spatial distribution and sex ratio of the detected Romanian genotypes strongly favor the translocation hypothesis.     

中国汉族人群DNA酶I基因多态性与不稳定性心绞痛的关系

目的：探讨脱氧核糖核酸酶（IDNA酶I）基因多态性与汉族人群不稳定性心绞痛（unstable angina pectoris,UAP）易感性的关系。方法：以196例UAP患者为病例组,排除冠心病的297例体检者为对照组,应用PCR及PCR-限制性片段长度多态（PCR-RFLP）分析DNA酶I基因8外显子单核苷酸多态位点A2317G及4内含子56bp可变串联重复序列（HumDN1）多态性;协方差分析A2317G、HumDN1各基因型与UAP患者血脂的关系,将年龄、性别、高血压、糖尿病及吸烟作为协变量;x2检验分析UAP患者冠脉血管病变支数与DNA酶I基因型的关系。结果：UAP组与对照组A2317G、HumDN1各基因型及等位基因分布无明显统计学差异（P〉0.05）,两组DNA酶I单体型分布亦无差异。UAP患者DNA酶I各基因型血脂水平、冠脉血管病变支数的差异无明显统计学意义,所有P值均〉0.05。结论：DNA酶I基因多态性与中国汉族人群不稳定心绞痛及其血脂水平无明显相关性。     

The evolution of sex is favoured during adaptation to new environments

Both theory and experiments have demonstrated that sex can facilitate adaptation, potentially yielding a group-level advantage to sex. However, it is unclear whether this process can help solve the more difficult problem of the maintenance of sex within populations. Using experimental populations of the facultatively sexual rotifer Brachionus calyciflorus, we show that rates of sex evolve to higher levels during adaptation but then decline as fitness plateaus. To assess the fitness consequences of genetic mixing, we directly compare the fitnesses of sexually and asexually derived genotypes that naturally occur in our experimental populations. Sexually derived genotypes are more fit than asexually derived genotypes when adaptive pressures are strong, but this pattern reverses as the pace of adaptation slows, matching the pattern of evolutionary change in the rate of sex. These fitness assays test the net effect of sex but cannot be used to disentangle whether selection on sex arises because highly sexual lineages become associated with different allele combinations or with different allele frequencies than less sexual lineages (i.e., "short-" or "long-term" effects, respectively). We infer which of these mechanisms provides an advantage to sex by performing additional manipulations to obtain fitness distributions of sexual and asexual progeny arrays from unbiased parents (rather than from naturally occurring, and thereby evolutionarily biased, parents). We find evidence that sex breaks down adaptive gene combinations, resulting in lower average fitness of sexual progeny (i.e., a short-term disadvantage to sex). As predicted by theory, the advantage to sex arises because sexually derived progeny are more variable in fitness, allowing for faster adaptation. This "long-term advantage" builds over multiple generations, eventually resulting in higher fitness of sexual types.