Demographic Events and Evolutionary Forces Shaping European Genetic Diversity

Europeans have been the focus of some of the largest studies of genetic diversity in any species to date. Recent genome-wide data have reinforced the hypothesis that present-day European genetic diversity is strongly correlated with geography. The remaining challenge now is to understand more precisely how patterns of diversity in Europe reflect ancient demographic events such as postglacial expansions or the spread of farming. It is likely that recent advances in paleogenetics will give us some of these answers. There has also been progress in identifying specific segments of European genomes that reflect adaptations to selective pressures from the physical environment, disease, and dietary shifts. A growing understanding of how modern European genetic diversity has been shaped by demographic and evolutionary forces is not only of basic historical and anthropological interest but also aids genetic studies of disease.During classical antiquity, writers such as Herodotus chronicled the expansion and contraction of empires, as well as the traditions of the peoples associated with them. Julius Caesar''s memoirs from the Roman conquests of Gaul detail his encounters with foreign tribes such as the Helvetii and the Belgae. Such accounts were fascinating to peoples of that era as humans lived largely in ignorance of other cultures beyond their relatively small geographical vicinity. In the modern world, the barriers to acquiring knowledge of other contemporary societies are small; we can now easily learn about populations from across the world through an abundance of sources. Instead, the major challenge is to discern whom the peoples of the past were. From the perspective of genetics, we are especially curious about how past demographic and evolutionary events influenced the genetic diversity in humans today. However, peering into the past poses major challenges, and, in some ways, we stand much like Herodotus and Caesar, trying to piece together an understanding of distant populations from limited contact and partial experiences.For geneticists, Europe represents a uniquely well-studied region of the world. On the one hand, it has a richness of accessible sources. We have already mentioned historical accounts beginning with the ancient works of Herodotus; there has also been an abundance of archaeological, anthropological, and linguistic studies. More recently there has been substantial interest in understanding the genetic history of modern Europeans. Indeed, many of the largest studies of the genetics of human populations have taken place in Europe. This is, in large part, because of the availability of European universities and biomedical centers, which have provided the infrastructure for such “big science” studies that other regions have traditionally lacked. On the other hand, European human diversity has at various times been highly politicized, which has led to deeply misguided perspectives on the subject of genetic superiority and some of the most atrocious abuses to human life—the genocides and eugenics of the first half of the 20th century.Contemporary genetic studies in Europe still work under the shadow of such views that are now understood as being scientifically without merit as well as ethically wrong, and, as today''s scientists, we must be sensitive to the potential future misuse of findings regarding genetic diversity. That said, the field has been reinvigorated during the past approximately 50 years as perspectives on human diversity, both cultural and genetic, have matured. Scientifically, it is now appreciated that the genetic differences among humans are, in absolute terms, small as first identified by Lewontin (1972) (also see Chakravati 2014). Simplistic notions of genetic determinism have also fallen aside as most human traits are now thought to be driven by complex interactions between multiple environmental and genetic factors. Culturally, there is a wider appreciation that diversity makes a positive contribution to society. And finally, it is now recognized that understanding background patterns of genetic diversity is an essential component for combating heritable and infectious diseases.Thanks to the growing interest in human population genetics, the scale of recent studies of European genetic diversity has grown to a staggering extent. Studies involving Europeans are some of the largest to have been performed in any population, regardless of the species. As a result, research on genetic diversity in Europe is of interest not just to scientists examining other human populations around the world but to all students of genetic diversity.     

Genetic Demographic Structure of Rural Populations of Kyrgyzstan

The genetic demographic parameters of rural populations of Kyrgyzstan have been studied. The rural population of Kyrgyzstan has the following demographic characteristics: (1) it is demographically young (the population mean age is 25–28 years); (2) the sex ratio in reproductive age groups is unfavorable; (3) the fertility is high (5.78–7.68 pregnancies and 4.27–5.20 surviving children per woman of postreproductive age; (4) interethnic marriages are rare (1.0–5.9%), whereas consanguineous marriages are frequent (1.4–12%); (5) Crow's indices are relatively low (I _tot = 0.24–0.29, I _m = 0.05–0.13, I _f = 0.14–0.22); and (6) both male and female contributions of different regions of the republic make unequal contributions to the gametic structure of the population, with the gametic structure varying from generation to generation. Demographic parameters vary in rural populations of different geographic regions and with different ethnic compositions.     

Genetic Demographic Survey of the Gagauz Population of Moldova

The genetic demographic structure of the Gagauz population of Moldova has been described for the first time. Data of interviews and official records have been used to analyze the sex and age structure of the population and marriage relationships, as well as to estimate the effective sizes of the populations of six settlements and selection intensity (according to Crow's formula). The demographic data indicate that social transformations have substantially affected the genetic demographic parameters of the population. The gene exchange rate per generation has been determined (m = 0.0204 in 1972 and m= 0.0309 in 1997). The estimated ratio between the components of Crow's index (I _m < I _f) in the Gagauz population is similar to those for the populations of developed countries with traditionally rural lifestyles. The study of marriage relationships of the Gagauz population has shown that Gagauzes are intensely mixing with Moldovans, Bulgarians, Russians, and Ukrainians.     

Genetic variability of the tropical grasshopper Poecilocerus bufonius in Saudi Arabia

Electrophoresis for SDS-proteins and isoenzymes was applied to investigate the genetic variability within the tropical grasshopper Poecilocerus bufonius, which inhabits Saudi Arabia. Samples were selected from different localities that are encompassing the Sarawat Mountains in the west and An-Nafud desert in the north and middle. A range of 2 to 14 protein bands were recorded in the studied samples as measured by SDS-polyacrylamide gel electrophoresis, from which only two were common. The maximum number of protein bands has been recorded in the samples from the west and the minimum number has been recorded in the samples from the north and middle. Six arbitrary chosen enzymes were examined by native-polyacrylamide gel electrophoresis. They were peroxidase (Px), aldehyde oxidase (Ao), acid phosphatase (Acph), alcohol dehydrogenase (Adh), á and â ePsterase (Est). Fourteen presumptive gene loci and 26 polymorphic alleles have been recorded with the highest number of alleles in Taif and minimum number of alleles in Qassim. Adh, Px and Acph have not been recorded in samples from the localities of An-Nafud desert. The samples from Taif (Sarawat Mountains) were more genetically variable than the samples from other localities. Most of alleles were monomeric but only the Px-1 showed trimeric alleles in samples from Taif.     

Genetic diversity of Moringa peregrina species in Saudi Arabia with ITS sequences

The genus Moringa was the family of Moringaceae and Moringa oleifera and Moringa peregrina are the most famous species of Moringa. M. peregrina is widely grown in Saudi Arabia, Iran and India. Therefore, based on these reports, this study aimed to investigate the first systematic attempt to regulate the genetic diversity of the species M. peregrina in Saudi Arabian samples collected from several geographic locations using internal transcribed sequences. Genomic DNA was separated by CTAB extraction method and PCR was performed. Later on, DNA sequencing was performed for PCR products with ITS. In conclusion, the present study affords the first report on genetic stability of M. peregrina using ITS analysis in Saudi Arabia. Further studies are suggested in order to study in different regions.     

Genetic and Demographic Structure of the Yakut Population: Reproduction Indices

Genetic and demographic information for the Yakut population living in the Republic of Sakha (Yakutia) is presented. The mean number of children per woman constituted 4.605. Crow's index (I _tot) and its components (I _m and I _f) were 0.483, 0.104, and 0.343, respectively.     

Key Events of the Cell Cycle: Regulation and Organization

The review surveys the studies of molecular genetic mechanisms of the cell cycle control on various eukaryotic models. The major cell cycle phenomena are considered: (1) checkpoints and their role in preserving DNA integrity and fidelity of mitosis, (2) the cell oscillator model, and (3) the role of cyclins in timing of cell division and coordination of mitotic events. The main classes of regulatory proteins involved in the cell cycle are discussed in detail.     

Genetic and Demographic Structure of Russian Populations from Tver and Rostov Oblast

Based on the data from 569 questionnaires collected in Udomlya and Ostashkov raions of Tver oblast and 436 questionnaires collected in Tsimlyansk and Dubovsk raions of Rostov oblast, genetic demographic characteristics and Crow's index for urban and rural populations of these regions were calculated. The data obtained were compared with those for other Russian populations obtained earlier.     

Genetic Differentiation in Insular Lowland Rainforests: Insights from Historical Demographic Patterns in Philippine Birds

Phylogeographic studies of Philippine birds support that deep genetic structure occurs across continuous lowland forests within islands, despite the lack of obvious contemporary isolation mechanisms. To examine the pattern and tempo of diversification within Philippine island forests, and test if common mechanisms are responsible for observed differentiation, we focused on three co-distributed lowland bird taxa endemic to Greater Luzon and Greater Negros-Panay: Blue-headed Fantail (Rhipidura cyaniceps), White-browed Shama (Copsychus luzoniensis), and Lemon-throated Leaf-Warbler (Phylloscopus cebuensis). Each species has two described subspecies within Greater Luzon, and a single described subspecies on Greater Negros/Panay. Each of the three focal species showed a common geographic pattern of two monophyletic groups in Greater Luzon sister to a third monophyletic group found in Greater Negros-Panay, suggesting that common or similar biogeographic processes may have produced similar distributions. However, studied species displayed variable levels of mitochondrial DNA differentiation between clades, and genetic differentiation within Luzon was not necessarily concordant with described subspecies boundaries. Population genetic parameters for the three species suggested both rapid population growth from small numbers and geographic expansion across Luzon Island. Estimates of the timing of population expansion further supported that these events occurred asynchronously throughout the Pleistocene in the focal species, demanding particular explanations for differentiation, and support that co-distribution may be secondarily congruent.     

Reconciling Genetic and Demographic Estimators of Effective Population Size in the Anuran Amphibian Bufo Calamita

We used genetic and demographic methods to estimate the variance effective population sizes (N _e) of three populations of natterjack toads Bufo calamita in Britain. This amphibian breeds in temporary pools where survival rates can vary among families. Census population sizes (N) were derived from spawn string counts. Point and coalescent-based maximum likelihood estimates of N _e based on microsatellite allele distributions were similar. N _e/N ratios based on genetic estimates of N _e ranged between 0.02 and 0.20. Mean demographic estimates of N _e were consistently higher (2.7–8.0-fold) than genetic estimates for all three populations when variance in breeding success was evaluated at the point where females no longer influence their progeny. However, discrepancies between genetic and demographic estimators could be removed by using a model that included extra variance in survivorship (above to Poisson expectations) among families. The implications of these results for the estimation of N _e in wild populations are discussed.     

The Neighbourhood Method for Measuring Differences in Maternal Mortality,Infant Mortality and Other Rare Demographic Events

In the absence of reliable systems for registering rare types of vital events large surveys are required to measure changes in their rates. However some events such as maternal deaths are widely known about in the community. This study examined the utility of asking respondents about events in their neighbourhood as an efficient method for measuring relative rates of rare health events such as maternal and infant deaths. A survey was conducted in the health and demographic surveillance system (HDSS) in Matlab, Bangladesh, which includes two areas with different health care regimes. Adult women were asked about any maternal deaths; multiple births; infant deaths, live births and some other events they knew of in a small specified area around their home. Agreement between HDSS records and survey responses was moderate or better (kappa≥0.44) for all the events and greatest for maternal deaths (kappa = 0.77) with 84% being reported. Most events were more likely to be reported if they were recent (p<0.05). Infant mortality rate in one area was 0.56 times that in the other which was well reflected by the ratio of survey results (0.53). Simulations were used to study the ability of the method to detect differences in maternal mortality ratio. These suggested that a sample size around 5000 would give 80% power to detect a 50% decrease from a baseline of 183 which compared well with an estimated sample size around 10 times larger using the direct sisterhood method. The findings suggest that the Neighbourhood Method has potential for monitoring relative differences between areas or changes over time in the rates of rare demographic events, requiring considerably smaller sample sizes than traditional methods. This raises the possibility for interventions to demonstrate real effects on outcomes such as maternal deaths where previously this was only feasible by indirect methods.     

Molecular Events Accompanying the Fixation of Genetic Information in Haemophilus Heterospecific Transformation

Heterospecific transformation between Haemophilus influenzae and H. parainfluenzae was investigated by isopycnic analysis of deoxyribonucleic acid (DNA) extracts of (3)H-labeled transforming cells that had been exposed to (32)P-labeled, heavy transforming DNA. The density distribution of genetic markers from the resident DNA and from the donor DNA was determined by transformation assay of fractions from CsCl gradients, both species being used as recipients. About 50% of the (32)P atoms in H. parainfluenzae donor DNA taken up by H. influenzae cells were transferred to resident DNA, and only a small amount of the label was lost under conditions of little cell growth. There was less transfer in the reciprocal cross, and almost half of the donor label was lost. In both crosses, the transferred donor material transformed for the donor marker considerably more efficiently when assayed on the donor species than on the recipient species, indicating that at least some of the associated (32)P atoms are contained in relatively long stretches of donor DNA. When the transformed cultures were incubated under growth conditions, the donor marker associated with recipient DNA transformed the donor species with progressively decreasing efficiency. The data indicate that the low heterospecific transformation between H. influenzae and H. parainfluenzae may be due partly to events occurring before association of donor and resident DNA but results mostly from events that occur after the association of the two DNA preparations.     

Dynamics of the Genetic Demographic Structure of the Kursk Oblast Population: Migration Processes

Marriage records from parish books of the second half of the 19th century and marriage records of 1967–1970 and 1993–1995 obtained from registry offices were used to analyze the dynamics of genetically significant parameters of migration and marriage structure with respect to spouses' birthplaces in populations of different hierarchical levels in the Kursk oblast. It was found that, among the persons contracting marriage (both males and females), the proportions of those who were born in the same population and those who were born in any population of the Kursk oblast decreased by about one third and one fifth, respectively, for the 130-year period. In rural and small urban populations, the coefficients of marriage migration in the 19th century were an order of magnitude lower than in the 20th century. The immigration to urban populations was maximum in the late 1960s (m = 0.745 in small towns and m = 0.680 in Kursk), and that to rural populations, in the 1990s (m = 0.344). In both urban and rural populations, the mean distance between the spouses" birthplaces has increased by several times for the period studied. The endogamy level has decreased approximately twofold: from 0.797 to 0.380 in Kursk, from 0.897 to 0.419 in small towns, and from 0.958 to 0.440 in rural districts. The marriage assortativeness with respect to birthplace was maximum in the late 19th century (K = 0.393–0.491) and minimum in the 1960s (K= 0.155–0.246). The increase in genetic diversity of the urban population of the Kursk oblast due to migration has been slowing down since the late 20th century, whereas the outbreeding level is still increasing in rural populations.     

Genetic Analysis of a Population of Tribolium. VI. Polymorphism and Demographic Equilibrium

Demographic and genetic data of continuously growing populations of Tribolium castaneum initiated with identical age structures but with different frequencies of the unsaturated fatty acid-sensitive allele were collected for 68 weeks.—The life history data provided the following insights: Genotypic differences for total number of offspring were due primarily to larval viability. The total lifetime offspring production of the genotypes predicted a stable polymorphic genetic equilibrium. The genotypic reproductive functions forecast that a stable age structure was not a prerequisite for genetic equilibrium.—Those cultures initially segregating for the unsaturated fatty acid-sensitive allele converged to an equilibrium allele frequency of 0.25 and a genotypic array composed of equal numbers of +/+ and +/cos individuals.—The numbers of larvae, pupae and adults during the first six weeks were quadratic functions of the initial frequency of the sensitive allele. Qualitative age structure changes that followed were similar in all cultures and demographic equilibrium was realized at week 50. The overall demographic pattern during the 68-week study was interpreted in terms of the interactions among the numbers of small larvae, large larvae plus pupae, and adults.     

Crop Damage by Primates: Quantifying the Key Parameters of Crop-Raiding Events

Human-wildlife conflict often arises from crop-raiding, and insights regarding which aspects of raiding events determine crop loss are essential when developing and evaluating deterrents. However, because accounts of crop-raiding behaviour are frequently indirect, these parameters are rarely quantified or explicitly linked to crop damage. Using systematic observations of the behaviour of non-human primates on farms in western Uganda, this research identifies number of individuals raiding and duration of raid as the primary parameters determining crop loss. Secondary factors include distance travelled onto farm, age composition of the raiding group, and whether raids are in series. Regression models accounted for greater proportions of variation in crop loss when increasingly crop and species specific. Parameter values varied across primate species, probably reflecting differences in raiding tactics or perceptions of risk, and thereby providing indices of how comfortable primates are on-farm. Median raiding-group sizes were markedly smaller than the typical sizes of social groups. The research suggests that key parameters of raiding events can be used to measure the behavioural impacts of deterrents to raiding. Furthermore, farmers will benefit most from methods that discourage raiding by multiple individuals, reduce the size of raiding groups, or decrease the amount of time primates are on-farm. This study demonstrates the importance of directly relating crop loss to the parameters of raiding events, using systematic observations of the behaviour of multiple primate species.