Further analysis of the population history of ancient Egyptians

The origins of state formation in ancient Egypt have been the focus of recent research utilizing biological data to test hypotheses regarding in situ development of local groups, or large‐scale in‐migration, possibly by an invading army. The primary goal of the present research is to further test these hypotheses. Our secondary goal is to compare different distance measures and assess how they might affect interpretation of population history. We analyze craniodental nonmetric data using several different measures of biological distance, as well as a method for estimating group diversity using multidimensional scaling of distance estimates. Patterns of biological variation and population relationships were interpreted in temporal and geographic contexts. The results of our analyses suggest that the formation of the ancient Egyptian state likely included a substantial in situ process, with some level of contribution by outside migrants probable. The higher level of population structure in Lower Egypt, relative to Upper Egypt, suggests that such influence and migration by outsiders may not have been widespread geographically. These findings support, but serve to refine further those obtained by the second author in a previous study. Moreover, our comparison of distance measures indicates that the choice of measure can influence identification and interpretation of the microevolutionary processes shaping population history, despite being strongly correlated with one another. Am J Phys Anthropol 2009. © 2009 Wiley‐Liss, Inc.     

Spatial and temporal population genetic structure of the butterfly aglais urticae L. (Lepidoptera, nymphalidae)

The genetic diversity and the temporal and spatial genetic population structure of the butterfly Aglais urticae, a highly mobile species, were studied by allozyme electrophoresis. High levels of allozyme diversity were found. Most of the total genetic diversity occurred at the within-population scale rather than at the between-population scale. This variation could not be accounted for by Wright's model of 'isolation by distance'. No significant temporal variation was observed for those populations that were sampled in different years. A process combining high movement rate between neighbouring patches, long-distance migration and rare extinction/recolonization is suggested to explain the observed genetic structure. This hypothesis is favoured over an island model of population structure because migration in A. urticae is uniform neither with distance nor with time.     

Spatial and temporal variation of consanguinity in Italy

Genetic structure of Italian population is described as regards the level of inbreeding measured through the frequency of consanguineous marriages during a long period of time in different geographical areas. Analyses of spatial and temporal variation of the different types of marriages between close biological relatives allow us to point out the major factors responsible for the availability of cousins to marry within a specific area: population size, fertility, mortality and migration rates and, in general the demographic structure, changing over time and greatly affected by variation in the socio-economic structure. A deepened analysis, within each consanguinity degree, of the various pedigrees differing in the sex of ancestors, give information on the type of migration (patrilocal or matrilocal) occurred in various parts of Italy, as probable consequence of differential type of economy (for instance: pastoral or agricultural in Sardinia). Moreover, a cultural factor of varying intensity could be recognized in the greater observed frequency of marriages in which the nearest ancestors are females, interpreted as a tendency to maintain family ties by mothers of consanguineous mates.     

The relative role of rivers,environmental heterogeneity and species traits in driving compositional changes in southeastern Amazonian bird assemblages

Amazonian rivers have been proposed to act as geographic barriers to species dispersal, either driving allopatric speciation or defining current distribution limits. The strength of the barrier varies according to the species’ ecological characteristics and the river's physical properties. Environmental heterogeneity may also drive compositional changes but has not been well assessed in Amazonia. Aiming to understand the contributions of riverine barriers and environmental heterogeneity in shaping compositional changes in Amazonian forest bird assemblages, we focus on the Tapajós River. We investigate how spatial variation in species composition is related to physical barriers (Tapajós and Jamanxim rivers), species’ ecological characteristics (distinct guilds), and environmental heterogeneity (canopy reflectance, soils, and elevation). We sampled birds through point-counts and mist nets on both banks of the Tapajós and Jamanxim rivers. To test for relationships between bird composition and environmental data, we used Mantel and partial Mantel tests, NMDS, and ANOVA + Tukey HSD. The Mantel tests showed that the clearest compositional changes occurred across the Tapajós River, which seems to act unequally as a significant barrier to the bird guilds. The Jamanxim River was not associated with differences in bird communities. Our results reinforce that the Tapajós River is a biogeographical boundary for birds, while environmental heterogeneity influences compositional variation within interfluves. We discuss the combined influence of geographical barriers, environmental heterogeneity, and ecological characteristics of species in shaping species distributions and community composition and the complexity of extrapolating the patterns found for birds to other Amazonian organisms. Abstract in Portuguese is available with online material.     

Phylogenetic signal in bone microstructure of sauropsids

In spite of the fact that the potential usefulness of bone histology in systematics has been discussed for over one and a half centuries, the presence of a phylogenetic signal in the variation of histological characters has rarely been assessed. A quantitative assessment of phylogenetic signal in bone histological characters could provide a justification for performing optimizations of these traits onto independently generated phylogenetic trees (as has been done in recent years). Here we present an investigation on the quantification of the phylogenetic signal in the following bone histological, microanatomical, and morphological traits in a sample of femora of 35 species of sauropsids: vascular density, vascular orientation, index of Haversian remodeling, cortical thickness, and cross-sectional area (bone size). For this purpose, we use two methods, regressions on distance matrices tested for significance using permutations (a Mantel test) and random tree length distribution. Within sauropsids, these bone microstructural traits have an optimal systematic value in archosaurs. In this taxon, a Mantel test shows that the phylogeny explains 81.8% of the variation of bone size and 86.2% of the variation of cortical thickness. In contrast, a Mantel test suggests that the phylogenetic signal in histological traits is weak: although the phylogeny explains 18.7% of the variation of vascular density in archosaurs, the phylogenetic signal is not significant either for vascular orientation or for the index of Haversian remodeling. However, Mantel tests seem to underestimate the proportion of variance of the dependent character explained by the phylogeny, as suggested by a PVR (phylogenetic eigenvector) analysis. We also deal with some complementary questions. First, we evaluate the functional dependence of bone vascular density on bone size by using phylogenetically independent contrasts. Second, we perform a variation partitioning analysis and show that the phylogenetic signal in bone vascular density is not a by-product of phylogentic signal in bone size. Finally, we analyze the evolution of cortical thickness in diapsids by using an optimization by squared change parsimony and discuss the functional significance of this character in terms of decreased buoyancy in crocodiles and mass saving in birds. These results are placed in the framework of the constructional morphology model, according to which the variation of a character in a clade has a historical (phylogenetic) component, a functional (adaptive) component, and a structural (architectural) component.     

High-altitude migration of the diamondback moth Plutella xylostella to the U.K.: a study using radar, aerial netting, and ground trapping

Abstract 1. The high-altitude wind-borne migration of the diamondback moth Plutella xylostella in the U.K. in 2000 was investigated (a) by direct monitoring of insect flight by vertical-looking radar and by aerial netting, and (b) through evidence of temporal variation in P. xylostella abundance deduced from a network of light traps.
2. Migrating P. xylostella were identified by a unique combination of size and shape data derived from the continuously operating vertical-looking radar.
3. Radar-detected migratory overflights correlated significantly with associated peaks in abundance of P. xylostella estimated by catches in a U.K.-wide light trap network; however the correlation was stronger when light trap catches were lagged by 1 day.
4. The first notable catches of P. xylostella in the U.K. occurred in early May, and were accompanied by migrations over the radar from the east.
5. Radar data and back-tracking indicated that a major wind-borne migration of P. xylostella from The Netherlands to southern England took place in early May, and that this was responsible for the establishment of the U.K. population.
6. The origin of early-season P. xylostella occurring in Britain is discussed.     

Strong gene flow and lack of stable population structure in the face of rapid adaptation to local temperature in a spring-spawning salmonid, the European grayling (Thymallus thymallus)

Gene flow has the potential to both constrain and facilitate adaptation to local environmental conditions. The early stages of population divergence can be unstable because of fluctuating levels of gene flow. Investigating temporal variation in gene flow during the initial stages of population divergence can therefore provide insights to the role of gene flow in adaptive evolution. Since the recent colonization of Lake Lesjaskogsvatnet in Norway by European grayling (Thymallus thymallus), local populations have been established in over 20 tributaries. Multiple founder events appear to have resulted in reduced neutral variation. Nevertheless, there is evidence for local adaptation in early life-history traits to different temperature regimes. In this study, microsatellite data from almost a decade of sampling were assessed to infer population structuring and its temporal stability. Several alternative analyses indicated that spatial variation explained 2-3 times more of the divergence in the system than temporal variation. Over all samples and years, there was a significant correlation between genetic and geographic distance. However, decomposed pairwise regression analysis revealed differing patterns of genetic structure among local populations and indicated that migration outweighs genetic drift in the majority of populations. In addition, isolation by distance was observable in only three of the six years, and signals of population bottlenecks were observed in the majority of samples. Combined, the results suggest that habitat-specific adaptation in this system has preceded the development of consistent population substructuring in the face of high levels of gene flow from divergent environments.     

Spatiotemporal genetic differentiation of Cuban natural populations of the pink shrimp <Emphasis Type="Italic">Farfantepenaeus notialis</Emphasis>

We analyzed the spatiotemporal genetic structure of Farfantepenaeus notialis populations using five microsatellites loci in order to understand the influence of natural events such as hurricanes on the genetic drift/migration balance as the main cause for the variation of allele frequencies over time. The results were compared with the previous ones obtained from allozymes and mtDNA. High and stable genetic diversity levels (He=0.879+/-0.0015) were found over eight years for the populations that inhabit the south Cuban platform, however significant changes of allele frequencies were detected over time. The F(ST) estimates, albeit low, revealed significant differences among populations inside the Ana Maria Gulf for 1995 but not for the 1999 and 2003 samples. The F(ST), AMOVA and the genetic distance analysis revealed the instability of the genetic structure over time in accordance with allozymes results. The correspondence of the microsatellite results with those obtained from allozymes confirm the effects of migration enhanced by natural events as the main cause of the temporal variation of allele frequencies. The genetic drift effect was discarded through the evaluation of Ne and the M ratio, while natural selection effects were rejected because of the lowest probability of microsatellite loci being under selective pressures. The microsatellite data are also consistent with the results obtained with mtDNA in detecting significant and persistent genetic differences between the Gulfs of Ana María and Batabanó for the years 1995 and 2003.     

Spatial variation in coevolutionary dynamics

Summary Computer simulations of coevolutionary dynamics between two hosts and two parasites show that extensive spatial variation in polymorphism can be maintained among environmentally identical patches. Spatial variation can be maintained under frequent migration when the dynamics within patches are locally unstable, and the cycles in host and parasite abundances remain out of phase among patches. Additionally, spatial variation can be maintained when host-parasite interactions cause local extinctions, and migration subsequently allows for recolonization. The temporal dynamics that cause spatial variation are difficult to study directly because of the long time scale over which they occur. The simulations suggest that sampling over space at one or a few points in time may provide much information about temporal dynamics.     

Dental indicators of health and stress in early Egyptian and Nubian agriculturalists: a difficult transition and gradual recovery

Although agriculture is now the globally predominant mode of food production, studies of the skeletal remains of early agriculturalists have indicated high levels of physiological stress and poor health relative to hunter-gatherers in similar environments. Previous studies identifying this trend in different regions prompt further research of the causes and effects of subsistence transitions in human societies. Here, 242 dentitions from five ancient Egyptian and Nubian populations are examined: 38 individuals from Jebel Sahaba (Upper Paleolithic), 56 from Badari (Predynastic), 54 from Naqada (Predynastic), 47 from Tarkhan (Dynastic), and 47 from Kerma (Dynastic). These populations span the early period of agricultural intensification along the Nile valley. Skeletal remains were scored for the presence of linear enamel hypoplasia (LEH) of the dentition, an established indicator of physiological stress and growth interruption. The prevalence of LEH was highest in the "proto-agricultural" (pastoralist) Badari population, with a gradual decline throughout the late Predynastic and early Dynastic periods of state formation. This suggests that the period surrounding the emergence of early agriculture in the Nile valley was associated with high stress and poor health, but that the health of agriculturalists improved substantially with the increasing urbanization and trade that accompanied the formation of the Egyptian state. This evidence for poor health among proto- and early agriculturalists in the Nile valley supports theories that agricultural intensification occurred as a response to ecological or demographic pressure rather than simply as an innovation over an existing stable subsistence strategy.     

Comparative molecular and phytochemical study of the tree species Santalum austrocaledonicum (Santalaceae) distributed in the New-Caledonian archipelago

We have tried to elucidate the origin of phytochemical variation in trees by studying concomitantly the chemical and microsatellite variations in Santalum austrocaledonicum. Eight natural populations were sampled in the New-Caledonian archipelago, a total of 157 individuals being analyzed. The main components, as revealed by gas chromatography (GC), were alpha- and beta-santalol (as in other sandalwood species), although the level of (Z)-lanceol was particularly high. Most of the chemical variation was observed within populations (83.7%). With microsatellites, the variation between populations was more pronounced (32% of the total variation). Although the chemical variation between populations was small, we investigated the effects of genetic drift and migration by comparing the chemical- and molecular-differentiation patterns. The poor congruence between neighbor-joining trees, confirmed by the non-significant Mantel test between the molecular and chemical distance matrices (R=0.26, P=0.12), showed that genetic drift and migration are not the main evolutionary forces acting on chemical differentiation between populations. We could not find any effect of soil and rainfall conditions neither. Although the impact of drift and migration cannot be discounted in rationalizing between-population differentiation, the low variation among populations could result from a stabilizing selection caused by the same phytopathogen charge across the natural range.     

Spatiotemporal dynamics in a seasonal metacommunity structure is predictable: the case of floodplain‐fish communities

The metacommunity framework has greatly advanced our understanding about the importance of local and regional processes structuring ecological communities. However, information on how metacommunity structure and the relative strengths of their underlying mechanisms change through time is largely lacking. Dynamic systems that undergo environmental temporal changes and disturbances, such as floodplains, serve as natural laboratories to explore how their metacommunity structure change in time. Here we applied the Elements of Metacommunity Structure framework and variation partitioning analysis to assess how temporal changes in the local environmental factors and regional dispersal processes in the rain season influence a seasonal floodplain‐fish metacommunity. Across four months, relevant environmental factors were measured across 21 patches where over 3500 individual fish were sampled. Connectivity was measured using landscape resistance‐based metrics and additional spatial variation in metacommunity structure was assessed via spatial autocorrelation functions. The metacommunity structure changed from nestedness, at the beginning of the flood season, to a quasi‐Clementsian gradient at the end. Our analyses show that connectivity is only important in the beginning of the flood season whereas environment is only important at the end. These results suggest that this metacommunity is structured by changes between dispersal limitation and environmental filtering through time.     

Bet‐hedging as a complex interaction among developmental instability,environmental heterogeneity,dispersal, and life‐history strategy

One potential evolutionary response to environmental heterogeneity is the production of randomly variable offspring through developmental instability, a type of bet‐hedging. I used an individual‐based, genetically explicit model to examine the evolution of developmental instability. The model considered both temporal and spatial heterogeneity alone and in combination, the effect of migration pattern (stepping stone vs. island), and life‐history strategy. I confirmed that temporal heterogeneity alone requires a threshold amount of variation to select for a substantial amount of developmental instability. For spatial heterogeneity only, the response to selection on developmental instability depended on the life‐history strategy and the form and pattern of dispersal with the greatest response for island migration when selection occurred before dispersal. Both spatial and temporal variation alone select for similar amounts of instability, but in combination resulted in substantially more instability than either alone. Local adaptation traded off against bet‐hedging, but not in a simple linear fashion. I found higher‐order interactions between life‐history patterns, dispersal rates, dispersal patterns, and environmental heterogeneity that are not explainable by simple intuition. We need additional modeling efforts to understand these interactions and empirical tests that explicitly account for all of these factors.     

The daily pattern of autumn bird migration in the northern Sahara

The temporal pattern of migration by passerine birds during the night, and their arrival during the day at the Egyptian coast and in the northern Sahara Desert was investigated. The mean direction of nocturnal migration at the coast was south-southeast, while at all desert sites it was south-southwest.
Birds arrived at the Egyptian coast only during the second half of the night which is explained by the fact that no birds could have taken off from the Mediterranean Sea. At least some of the birds landed at the coast where they spent the day before taking off shortly after sunset. These birds passed the desert sites at the expected time of day assuming a ground speed of 18 m per second. However, the origin of the birds passing the desert sites early at night is unclear. They must either have spent the day in the desert north of the study sites or they had overflown the Egyptian coast in the afternoon without landing.
The landing of birds during the day at the desert sites was bimodal. This pattern of arrival is explained either by some birds having landed at the Egyptian coast in the early morning before continuing, or by deteriorating conditions later in the day during flight or when resting in the desert, that obliged them to seek shelter at the desert sites.
A correlation between the number of migrants observed during the night and the number of resting birds in the desert on the following day suggests that an unknown proportion of birds might regularly use an intermittent migratory strategy that includes rest periods by day when crossing the desert, whereas others might adapt a non-stop migratory strategy.     

Evidence for a quiet revolution: seasonal variation in colonies of the specialist tansy aphid, Macrosiphoniella tanacetaria (Kaltenbach) (Hemiptera: Aphididae) studied using microsatellite markers

In cyclical parthenogens, clonal diversity is expected to decrease due to selection and drift during the asexual phase per number of asexual generations. The decrease in diversity may be counteracted by immigration of new genotypes. We analysed temporal variation in clonal diversity in colonies of the monophagous tansy aphid, Macrosiphoniella tanacetaria (Kaltenbach), sampled four times over the course of a growing season. In a related field study, we recorded aphid colony sizes and the occurrence of winged dispersers throughout the season. The number of colonies increased from April, when asexual stem mothers hatched from the sexually produced eggs, to the end of June. The proportion of colonies with winged individuals also increased over this period. After a severe reduction in colony sizes in late summer, a second expansion phase occurred in October when sexuals were produced. At the season's end, the only winged forms were males. A linked genetic study showed that the number of microsatellite multilocus genotypes and genetic variability assessed at three polymorphic loci per colony decreased from June to October. Overall, the relatedness of wingless to winged individuals within colonies was lower than average relatedness among wingless individuals, suggesting that winged forms mainly originated in different colonies. The results demonstrate that patterns of genetic diversity within colonies can be explained by the antagonistic forces of clonal selection, migration and genetic drift (largely due to midsummer population bottlenecks). We further suggest that the males emigrate over comparatively longer distances than winged asexual females.     

A theoretical analysis of the morph frequency variation in the peppered moth over England and Wales

The migration-selection model for the spatial and temporal variation of morph frequencies of Biston betularia over England and Wales (Cook & Mani, 1980) has been extended to include effects due to non-visual selection. The parameters for non-visual selection were chosen from the recent determination by Mani (1980) and by Creed et al . (1980). The morph frequencies over England and Wales were obtained through computer simulation and the results were compared with data along the Manchester-Yorkshire, Central Wales-East Anglia and South Wales-London transects. Best fits to the data were obtained by using the non-visual selective values of Mani for carbonaria and modified values of Creed et al . for insularia . It is concluded that the observed polymorphism could be well explained through a balance of migration and visual and non-visual selections.     

Genetic structure of the Saguenay, 1852-1911: evidence from migration and isonymy matrices

The Saguenay is a region in northeastern Québec populated in the second half of the 19th century through migration from other parts of Québec. The present-day population of nearly 300,000 is the result of both immigration and high rates of intrinsic growth. This population has been of interest to geneticists because of the high incidence of certain hereditary diseases, notably spastic ataxia, tyrosinemia, agenesis of the corpus callosum, vitamin D-dependent rickets, and myotonic dystrophy. Parent-offspring migration and isonymy matrices were used to estimate random kinship using the Malécot model for six 10-year time periods from 1852-1911. Comparisons between two estimates of kinship--one from parent-offspring migration matrices (phi) and the other from isonymy (R)--and geographic distance were made using both product-moment and Mantel correlation. Comparisons of within- and between-subdivision kinship were made using nonparametric and Mantel correlation. Within-subdivision kinship from the phi matrix was also compared with kinship estimated from marriage dispensations for endogamous marriages. The estimates of random kinship from the parent-offspring matrices showed a good fit with geography. However, isonymy did not correlate well with geographic distance; and phi and R showed no correlation until the last two time periods, and the diagonal of phi did not correlate with the marriage dispensations. Examination of scatterplots of phi vs. R suggests that nonrandom migration during the process of settlement formation is responsible for the lack of correlation. While movement across space seems to be highly dependent on distance, nonrandom selection of migrants means that between-subdivision estimates of kinship based on migration are not congruent with those obtained by other methods. On the whole, genetic differentiation seems to have been low due to the high levels of movement between subdivisions and immigration. The weak dependence of genetic structure on geographic distances in the present population is demonstrated by mapping the geographic distribution of cases of three recessively inherited diseases.     

青海三江源高寒草甸土壤微生物功能多样性的海拔分布

本研究以空间替代时间的方法,在青海三江源国家级自然保护区,以每隔200 m-300 m的海拔差异,从海拔3220 m(S1)到4790 m(S6)共设立6个海拔梯度的高寒草甸土壤样地为研究对象,利用Biolog生态板法研究了不同海拔土壤微生物碳源利用功能多样性分布特征,试图分析海拔变化对多样性分布特征的影响及其响应。结果表明,随着海拔的升高,微生物群落碳源利用功能多样性指数整体呈现先下降后上升的趋势,与AWCD变化趋势一致;DCA分析显示不同海拔土壤微生物对碳源代谢结构有一定的空间差异;不同海拔梯度的土壤微生物对6类碳源的利用程度存在差异,其中多聚化合物为优势碳源;从CCA和Partial mantel分析得知,土壤微生物群落的碳源利用功能多样性的海拔分布格局与海拔高度、全磷含量、有效磷含量呈显著相关关系,而与植物多样性没有相关性。了解不同海拔下土壤微生物对碳源利用强度,可为揭示三江源的微生物过程提供基础数据。     

Spatial and temporal patterns in the recruitment of the intertidal barnacle Chthamalus malayensis Pilsbry (Crustacea: Cirripedia) on the equatorial shores of Peninsular Malaysia and Singapore

Spatial and temporal variation in the recruitment of the intertidal barnacle Chthamalus malayensis was examined over one year (September 2003-August 2004) on the equatorial shores of southern Peninsular Malaysia and Singapore. A nested sampling design was applied for the first time on these shores, over three spatial scales - hundreds of kilometres, kilometres to tens of kilometres and tens of metres - and temporal variation was determined through monthly sampling of recruits. Shores within 2° north of the equator on the East and West coasts of southern Peninsular Malaysia and the southern coast of Singapore were selected as study sites. Generally, all three coasts recruited throughout the year, with varying intensities. There was a clear regional pattern, where the largest number of recruits was found on the East Coast of Malaysia, and the least in Singapore. Analyses of variance (ANOVA) showed that variability occurred on the smallest scale, but only in nine of the twelve months examined, consequently resulting in significant temporal and spatial interaction. Calculated variance components indicated that small-scale variation accounted for most of the overall variability. The potential causes of the spatial and temporal patterns of C. malayensis recruitment, and implications on tropical-temperate comparisons will be discussed.     

Bird migration times, climate change, and changing population sizes

Past studies of bird migration times have shown great variation in migratory responses to climate change. We used 33 years of bird capture data (1970–2002) from Manomet, Massachusetts to examine variation in spring migration times for 32 species of North American passerines. We found that changes in first arrival dates – the unit of observation used in most studies of bird migration times – often differ dramatically from changes in the mean arrival date of the migration cohort as a whole. In our study, the earliest recorded springtime arrival date for each species occurred 0.20 days later each decade. In contrast, the mean arrival dates for birds of each species occurred 0.78 days earlier each decade. The difference in the two trends was largely explained by declining migration cohort sizes, a factor not examined in many previous studies. We found that changes in migration cohort or population sizes may account for a substantial amount of the variation in previously documented changes in migration times. After controlling for changes in migration cohort size, we found that climate variables, migration distance, and date of migration explained portions of the variation in migratory changes over time. In particular, short-distance migrants appeared to respond to changes in temperature, while mid-distance migrants responded particularly strongly to changes in the Southern Oscillation Index. The migration times of long-distance migrants tended not to change over time. Our findings suggest that previously reported changes in migration times may need to be reinterpreted to incorporate changes in migration cohort sizes.