Phylogeography of the Angolan black and white colobus monkey,Colobus angolesnsis palliatus,in Kenya and Tanzania

Little is known about genetic variation in the 6–8 subspecies of Colobus angolensis, currently distinguished by pelage differences. We present a comparative genetic analysis of one of these subspecies, C. a. palliatus, in Kenya and Tanzania that assesses evolutionary relationships and patterns of mitochondrial genetic diversity in 103 individuals across its geographic range. Fecal samples from approximately 156 individuals were collected in four localities: (1) Diani Forest, Kenya; (2) Shimoni, Kenya; (3) Udzungwa Mountains National Park, Eastern Arc Mountains, Tanzania; and (4) Mount Rungwe, Southern Highlands, Tanzania. These samples represent at least six groups, with 5–15 samples from each. Comparative sequence analysis of a 1,795 base pair mtDNA fragment revealed 19 unique haplotypes in four populations. Phylogenetic analyses suggest that sampled Kenyan haplotypes are paraphyletic, with one Kenyan haplotype basal to all other sampled haplotypes. Analysis of molecular variance (AMOVA) suggests high levels of genetic variation among populations (Φ_ST 0.72, P<0.001). Genetic data are concordant with a subspecies level differentiation between C. a. palliatus populations in Kenya and those in Central and southern Tanzania, as earlier suggested based on pelage differences. This study highlights the evolutionary distinctiveness of Kenyan populations of C. a. palliatus relative to Tanzanian populations. Although C. a. palliatus habitat in Tanzania is currently better protected than in Kenya, our results suggest Kenyan and Tanzanian populations should be considered distinct units, and the protection of C. a. palliatus habitat in Kenya, as well as habitat connectivity between Kenyan populations, should be prioritized for conservation and management. Am. J. Primatol. 72:715–724, 2010. © 2010 Wiley‐Liss, Inc.     

Gm and Inv [Km] allotypes among Libyan and Ashkenazi Jews,and Armenians living in Israel

Summary Serum samples from Armenians, and from Libyan and Ashkenazi Jews living in Israel were tested for Gm (1, 2, 3, 5, 6, 10, 11, 13, 14, 17, 21, 24, 26) and for Inv(1) [Km(1)].The Gm data indicate that all three populations have Negroid and Mongoloid admixture. The minimum amount of admixture varies from 3.1% (Armenians) to 5.5% (Libyan Jews). This admixture had not been detected by the study of other polymorphisms, thus once again underlining the sensitivity of the Gm system. The haplotype frequencies among the Libyan Jews are markedly different from those among the Ashkenazi Jews. Surprisingly (coincidentally?) the haplotype frequencies among the Ashkenazi Jews and the Armenians are similar.The Libyan Jews have a significantly higher frequency of Inv ¹ than do the Ashkenazi Jews and among the latter, Inv ¹ is at least twice as frequent among Polish Jews as it is among Russian Jews.     

Associations between dermatoglyphic variation, topography, and climate in Kenya

Correlations between a number of dermatoglyphic finger and palmar taxonomic traits relating to 57 male and 53 female Kenyan populations, and altitude and mean annual rainfall are significant, not only in terms of the full range of samples, but also when samples are divided into independent smaller groups. These results are discussed and contrasted with those of other studies which have found no relationships between dermatoglyphic variation and climate in sub-Saharan Africa.     

Copper,selenium, and zinc concentrations in human milk during the first three weeks of lactation

Human milk samples were analyzed by neutron activation analysis (NAA) for three essential trace elements (Cu, Se, and Zn). Mothers' milk samples were collected from 25 lactating mothers from the Central Hospital, Tripoli, Libya. The average concentration level of Cu, Se, and Zn declined from 0.84 +/- 0.06 mg/L, 104 +/- 9.46 microg/L, and 16.1 +/- 2.67 mg/L at d 0 to 0.39 +/- 0.045 mg/L, 41.8 +/- 6.66 microg/L, and 4.95 +/- 1.3 mg/L, respectively, at d 20 of lactation. Copper and Zn levels in the Libyan mothers' milk were in agreement with reported levels from other countries, whereas Se was at a higher level. The Cu daily intake level is slightly higher than the RDA (Recommended Daily Allowance) value. Selenium and Zn have higher intake levels than the RDA values but within the tolerable upper intake levels.     

Broad-scale latitudinal patterns of genetic diversity among native European and introduced house sparrow (Passer domesticus) populations

Introduced species offer unique opportunities to study evolution in new environments, and some provide opportunities for understanding the mechanisms underlying macroecological patterns. We sought to determine how introduction history impacted genetic diversity and differentiation of the house sparrow (Passer domesticus), one of the most broadly distributed bird species. We screened eight microsatellite loci in 316 individuals from 16 locations in the native and introduced ranges. Significant population structure occurred between native than introduced house sparrows. Introduced house sparrows were distinguished into one North American group and a highly differentiated Kenyan group. Genetic differentiation estimates identified a high magnitude of differentiation between Kenya and all other populations, but demonstrated that European and North American samples were differentiated too. Our results support previous claims that introduced North American populations likely had few source populations, and indicate house sparrows established populations after introduction. Genetic diversity also differed among native, introduced North American, and Kenyan populations with Kenyan birds being least diverse. In some cases, house sparrow populations appeared to maintain or recover genetic diversity relatively rapidly after range expansion (<50 years; Mexico and Panama), but in others (Kenya) the effect of introduction persisted over the same period. In both native and introduced populations, genetic diversity exhibited large-scale geographic patterns, increasing towards the equator. Such patterns of genetic diversity are concordant with two previously described models of genetic diversity, the latitudinal model and the species diversity model.     

Differential paternity in Libya

Libyan census and vital statistics data from 1973 are compared with genealogical records from Utah males born between 1830 and 1834 as representative of populations not using any method of fertility control. The Libyan vital statistics data contained 97% of paternity by age, but only 85% of maternity by age. These missing data were distributed pro rata, and all data were corrected for errors in reporting. Polygamous unions were excluded because polygamy is relatively rare in Libya. The Utah data were from 185,000 genealogies of the Genealogical Society of Utah. The Libyan child-woman ratio (number of children under age 5 per number of women aged 15-49) is 1112.9, compared to 850 in Morocco, suggesting that Libya is experiencing an increase in fertility, in child survival and probably in quality of statistics. The total fertility rates for females were 11.1 for Libya and 11.2 for Utah; the total paternity rates were 14.3 and 13.7, respectively. Male rates are higher because of remarriage after divorce or death of wives. Age-specific paternity rates are tabulated and graphed: The major difference between the 2 populations is the concave shape of the curve for Libyan men under 30. Age at marriage is late, but marriage is virtually universal for Libyan men over 30. Age-specific paternity rates by occupation show apparent lack of fertility regulation in traditional occupations like farming and sales. There is evidence of some parity-related fertility control in professional and administrative workers. Production workers have a high peak in fertility around age 27.5 and 32.5, and a dip occurring at older ages. These figures can be explained by education, since education is required for professional occupations, and older professionals were trained in the West. Production workers took advantage of rapidly expanding education in Libya late in their youth, postponing marriage. Libya's pronatalist policy forbids sale of contraceptives and provides child allowances, free education, health care, subsidized housing and social security. This paper indicates the utility of paternity data where statistics on maternity are unavailable.     

Phytoplankton and its dynamics in two tropical lakes: a tropical and temperate zone comparison

Temporal patterns of phytoplankton biomass and community structure are described for two Kenyan lakes and subsequently compared with patterns reported in other tropical and temperate lakes. Lake Naivasha had a lower and more seasonally variable (10×) biomass, with a seasonal shift between diatoms and blue-greens, while the L. Oloidien biomass was less variable (3.7×) and dominated by blue-greens. Biomass and chlorophyll a were strongly correlated and in turn were coupled to the level of total phosphorus. A total of 143 and 94 taxa were described for L. Naivasha and L. Oloidien, respectively.The comparative analysis showed: a) a paucity of exclusively tropical species; b) that more than 30 percent of the species in two highly saline Kenyan lakes were also present in the two freshwater lakes; c) no evidence for a postulated decline of phytoplankton species abundance with latitude from the temperate zone to the tropics; d) that the low fraction of chrysophyte biomass in tropical lakes is a function of trophy rather than of latitude; e) that the fraction of chlorophyte biomass in tropical lakes is generally higher than in temperate lakes; f) that the proportion of nannoplankton in the two Kenyan freshwater lakes is not different from that in temperate lakes of the same trophy; g) that seasonal or annual biomass oscillations in the tropics are not systematically lower than in the temperate zone; h) evidence for large inter-year difference in the max.:min. biomass ratio in the only tropical lake (L. Naivasha) for which such data are available; i) that an average biomass ratio appears predictable for tropical lakes from the proportion of the sediment surface in contact with epilimnetic water. Overall, no evidence was found that the freshwater tropical phytoplankton composition or dynamics differ in any fundamental fashion from that observed in the temperate lakes during the summer.Contribution number 147 of the Limnology Research Centre, McGill University.     

Apoptotic activity in Libyan breast cancer

ABSTRACT: BACKGROUND: We evaluated the relationship of the apoptotic activity index (AI) and the standardized mitotic-apoptotic ratio (SMI/AI) with clinicopathological features and prognosis in Libyan female breast cancer (BC) patients. We then compared our results with corresponding results in Finnish and Nigerian female BC patients. METHODS: Histological samples of breast carcinoma from 130 patients were retrospectively studied: an estimation of the apoptotic activity per square millimeter (expressed as apoptotic activity index (AI)), and standardized mitotic-apoptotic ratio (SMI/AI) was made, and the results compared with the clinicopathological features and the patient's survival. RESULTS: There was a statistically significant correlation between the AI and most of the clinicopathological features; the strongest association was observed for clinical stage lymph node (LN) status (P = 0.005). There were also correlations between AI and histological grade (P = 0.035), large tumor size (P = 0.011) and the clinical stage (P = 0.009). There were, however, prominent AI differences between Libyan, Nigerian and Finnish populations. The mean values of AI and SMI/AI in Libyan BC patients were 12.8 apoptotic figures per square millimeter and 2.8, respectively. The Libyan AI is slightly higher than in Nigeria, but much higher than in Finland. The differences between countries are seen throughout the samples as well as being present in certain subgroups. The survival analysis indicated that short survival time was associated with high apoptotic indices values and so can identify aggressive tumors and provide significant prognostic support. The cutoff (4 and 18 apoptosis/mm2) of AI might be applied as a quantitative criterion for Libyan BC to separate the patients into good, moderate and bad prognosis groups. CONCLUSIONS: The results indicated that the differences in AI among the three countries may be due to the known variation in the distribution of genetic markers in these populations. Improvement in health care and introduction of screening programs, however, could be very helpful in the Libyan population.     

Mutation and polymorphism of the prion protein gene in Libyan Jews with Creutzfeldt-Jakob disease (CJD).

The inherited prion diseases are neurodegenerative disorders which are not only genetic but also transmissible. More than a dozen mutations in the prion protein gene that result in nonconservative amino acid substitutions segregate with the inherited prion diseases including familial Creutzfeldt-Jakob disease (CJD). In Israel, the incidence of CJD is about 1 case/10(4) Libyan Jews. A Lys200 substitution segregates with CJD and is reported here to be genetically linked to CJD with a lod score of > 4.8. Some healthy elderly Lys200 carriers > age 65 years were identified, suggesting the possibility of incomplete penetrance. In contrast, no linkage was found between the development of familial CJD and a polymorphism encoding either Met129 or Val129. All Libyan Jewish CJD patients with the Lys200 mutation encode a Met129 on the mutant allele. Homozygosity for Met129 did not correlate with age at disease onset or the duration of illness. The frequency of the Met129 allele was higher in the affected pedigrees than in a control population of Libyan Jews. The frequency of the Met129 and Val129 alleles in the control Libyan population was similar to that found in the general Caucasian population. The identification of three Libyan Jews homozygous for the Lys200 mutation suggests frequent intrafamilial marriages, a custom documented by genealogical investigations.     

Differences in the physiological responses to temperature among stonechats from three populations reared in a common environment

The physiological response to variation in air temperature (T(a)) can provide insights into how animals are adapted to different environments. I measured metabolic rate, total evaporative water loss (TEWL) and body temperature (T(b)) as a function of T(a) in stonechats from equatorial Kenya, temperate central Europe and continental Kazakhstan, environments where stonechats have evolved different life histories. All birds were raised and kept under identical captive conditions to highlight genetically based differences and to exclude phenotypic plasticity as explanatory factor. The slope relating metabolic rate to T(a) was steepest in Kazakh stonechats and lowest for birds from Kenya, indicating that, counterintuitively, the tropical stonechats were best insulated. Taking into account variation in T(b) in response to T(a), the lower critical temperature for the three populations fell between 32.0 and 34.9 degrees C, values higher than previously assumed. Whole organism BMR did not differ among populations, but because body mass was significantly higher in the Kenyan stonechats, their mass-specific BMR was lower compared with conspecifics from higher latitude. Whole organism or mass-specific TEWL did not differ among populations. Possibly, Kenyan birds are better insulated to compensate for their limited capacity to elevate metabolic rate.     

Genetic diversity and relationships of indigenous Kenyan camel (Camelus dromedarius) populations: implications for their classification

The genetic diversity and relationships amongst the dromedary (Camelus dromedarius) populations are poorly documented. Four recognized Kenyan dromedary breeds (Somali, Turkana, Rendille, Gabbra) and dromedary from Pakistan and the Arabian Peninsula (Saudi Arabia, United Arab Emirates) were studied using 14 microsatellite loci. Phylogenetic analysis showed that Kenyan dromedaries are distinct from Arabian and Pakistani populations. Expected heterozygosity and allelic diversity values indicate that Kenyan dromedaries are less diverse than non-Kenyan populations. With the exception of the Somali population, the Kenyan dromedaries are poorly differentiated (average FST=0.009), with only one to two loci separating the Gabbra, Rendille and Turkana populations studied (P < 0.05). Individual assignments were performed using the maximum likelihood method. A correct breed assignment of only 39-48% was observed for the Kenyan dromedaries, using an allocation stringency of a log of the odds ratio >2. Our results do not support the present classification of the indigenous Kenyan dromedary into four distinct breeds based on socio-geographical criteria. Instead, our results point to just two separate genetic entities, the Somali and a group including the Gabbra, Rendille and Turkana populations.     

Molecular evolution of duplicated amylase gene regions in Drosophila melanogaster: evidence of positive selection in the coding regions and selective constraints in the cis-regulatory regions

In this study, we randomly sampled Drosophila melanogaster from Japanese and Kenyan natural populations. We sequenced duplicated (proximal and distal) Amy gene regions to test whether the patterns of polymorphism were consistent with neutral molecular evolution. F(st) between the two geographically distant populations, estimated from Amy gene regions, was 0.084, smaller than reported values for other loci, comparing African and Asian populations. Furthermore, little genetic differentiation was found at a microsatellite locus (DROYANETSB) in these samples (G'st = -0.018). The results of several tests (Tajima's, Fu and Li's, and Wall's tests) were not significantly different from neutrality. However, a significantly higher level of fixed replacement substitutions was detected by a modified McDonald and Kreitman test for both populations. This indicates that positive selection occurred during or immediately after the speciation of D. melanogaster. Sliding-window analysis showed that the proximal region 1, a part of the proximal 5' flanking region, was conserved between D. melanogaster and its sibling species, D. simulans. An HKA test was significant when the proximal region 1 was compared with the 5' flanking region of Alcohol dehydrogenase (Adh), indicating a severe selective constraint on the Amy proximal region 1. These results suggest that natural selection has played an important role in the molecular evolution of Amy gene regions in D. melanogaster.     

Kenyan dominance in distance running

Critical physiological factors for performance in running are maximal oxygen consumption (VO(2max)), fractional VO(2max) utilization and running economy. While Kenyan and Caucasian elite runners are able to reach very high, but similar maximal oxygen uptake levels, the VO(2max) of black South African elite runners seems to be slightly lower. Moreover, the studies of black and white South African runners indicate that the former are able to sustain the highest fraction of VO(2max) during long distance running. Results on adolescent Kenyan and Caucasian boys show that these boys are running at a similar percentage of VO(2max) during competition. Kenyan elite runners, however, appear to be able to run at a high % of VO(2max) which must then have been achieved by training. A lower energy cost of running has been demonstrated in Kenyan elite runners and in untrained adolescent Kenyan boys compared to their Caucasian counterparts. In agreement with this are the results from studies on black South African elite runners who have shown similar low energy costs during running as the Kenyan elite runners. The good running economy cannot be explained by differences in muscle fibre type as they are the same in Kenyan and Caucasian runners. The same is true when comparing untrained adolescent Kenyan boys with their Caucasian counterparts. A difference exists in BMI and body shape, and the Kenyans long, slender legs could be advantageous when running as the energy cost when running is a function of leg mass. Studies comparing the response to training of Kenyans and Caucasians have shown similar trainability with respect to VO(2max), running economy and oxidative enzymes. Taken all these data together it appears that running at a high fractional VO(2max) and having a good running economy may be the primary factors favouring the good performance of endurance athletes rather than them having a higher VO(2max) than other elite runners. In addition to having the proper genes to shape their bodies and thereby contributing to a good running economy, the Kenyan elite runners have trained effectively and used their potential to be in the upper range both in regard to VO(2max) and to a high utilization of this capacity during endurance running.     

Incidence of red-green color blindness in the Basque population

The incidence of red-green colour vision defects was studied in a sample of 392 Basque students (174 males and 218 females), using the Ishihara test cards (1987). The frequency of red-green colour blindness was 4.02 percent in the males and 0.46 percent in the females. The colour blindness frequencies found among males are within the range of other Spanish samples. Nevertheless they are lower than the values reported in other European populations.     

The reproductive tactics of dace in central Siberia: evidence for temperature regulation of the spatio-temporal variability of its life history

Major life history characteristics of dace Leuciscus leuciscus from the R. Yenisei at Mirnoye (66° N, Central Siberia, Russia) were determined in June 1993 and were compared with those available throughout the distribution range of the species. Differences between populations located 25° further south and 8000 km away are smaller than those described for other freshwater fishes, whose distributions fall within that of dace. For all the populations, the growth rates ( K ) are inversely correlated with latitude but these rates for the actual growing season are faster in northern dace. The latitudinal (spatial) variations in the growth rates resemble the temporal variation described for the R. Frome (U.K.). Also, the variations in fecundity between populations are comparable to the temporal variations reported for this British river. Fecundity of the Yenisei dace was correlated with female length [log F=– 3–6284+4–0424 x log L ] but these females spawned lower numbers of eggs than other populations; and the size of their eggs, like those of the Siberian Ust'Ilim dace, did not vary with female length. We hypothesize that a similar spatio-temporal response to low water temperature, coupled with limitations of energy for reproduction, may result in a constant egg size in Siberian dace. The effects of other selective forces cannot, however, be excluded.     

Ranging behavior,group size and behavioral flexibility in Ethiopian hamadryas baboons (Papio hamadryas hamadryas)

This study reports group size, home range size, daily path lengths, seasonal effects on ranging behavior and qualitative information on diet for a population of hamadryas baboons inhabiting the lowlands of the northern Rift Valley in central Ethiopia. The minimum home range size and daily path length for this population are similar to those reported for other populations of hamadryas baboons in Ethiopia and Saudi Arabia. Group sizes, however, are much larger than those in most other hamadryas populations for which published data are available. The large group sizes in this area may be related to the abundance of one food resource in particular, doum palm nuts. Overall, this study suggests that hamadryas baboons may be more flexible in some aspects of their behavioral ecology (e.g. group size) than in others (e.g. ranging behavior).     

Medicago truncatula f.laxicycla (Leguminosae), a new taxon with loose fruit coiling promoting rapid germination of the fruit-retained seeds

Medicago truncatula is a member ofMedicago sect.Spirocarpos, in which all 34 species have coiled fruit, usually tightly coiled, that permanently retain the seeds. A variant ofM. truncatula from Libya is unique for the species in possessing very loosely coiled fruits, and is here recognized as a new forma,M. truncatula f.laxicycla E. Small. In germination tests of a number of species ofMedicago, the unusual Libyan variant proved to be the only one in which rapid and simultaneous germination of most of the seeds occurred while still within a fruit. The loose coiling of the fruit of the Libyan variety appears to facilitate water entry and seedling escape. Its rapid germination might adapt it to respond quickly to intermittently available moisture, but at the cost of abandoning the strategy of intermittent germination adopted by other populations ofMedicago sect.Spirocarpos.     

Population structure of chum salmon Oncorhynchus keta in the Russian Far East, as revealed by microsatellite markers

Chum salmon populations in the Russian Far East have a complex multi-level genetic structure. A total of 53 samples (2446 fish) were grouped into five major regional clusters: the southern Kurils, eastern Sakhalin, southwestern Sakhalin, the Amur River, and a northern cluster. The northern cluster consists of chum salmon populations from a vast geographical region, including Chukotka, Kamchatka, and the continental coast of the Sea of Okhotsk. However, the degree of its genetic differentiation is low, 1.9%. In contrast, the southern population cluster exhibits much higher variation; for example, differentiation between chum salmon groups within Sakhalin Island reaches 4.6%, and the differentiation between Iturup Island and Sakhalin Island chum salmon is 7.7%. This suggests that southern populations of Asian chum salmon have a more ancient evolutionary history than northern populations. In contrast to the available data, our study indicates a great deviation of southwestern Sakhalin populations from other Sakhalin chum salmon. The Russian Far East chum salmon are genetically diverse and show statistically significant differentiation even within small geographic localities. This can be used to assign samples of unknown origins to definite local populations.     

Distribution of common genotypes of Myzus persicae (Hemiptera: Aphididae) in Greece, in relation to life cycle and host plant

Microsatellite genotyping was used to identify common clones in populations of the Myzus persicae group from various hosts and regions in mainland Greece and southern Italy and to compare their distribution and occurrence on tobacco and other crops. Common clones were defined as genotypes collected at more than one time or in more than one population; and, therefore, unlikely to be participating in the annual sexual phase on peach. Sixteen common genotypes were found, accounting for 49.0% of the 482 clonal lineages examined. Eight of these genotypes were subjected, in the laboratory, to short days and found to continue parthenogenetic reproduction, i.e. they were anholocyclic. Four of the six commonest genotypes were red, and one of these accounted for 29.6% of the samples from tobacco and 29.4% of those from overwintering populations on weeds. All six commonest genotypes were found on weeds and five of them both on tobacco and on other field crops. In mainland Greece, the distribution of common clones corresponded closely with that of anholocyclic lineages reported in a previous study of life cycle variation. Common genotypes were in the minority in the commercial peach-growing areas in the north, except on weeds in winter and in tobacco seedbeds in early spring, but predominated further south, away from peach trees. This contrasts with the situation in southern Italy, reported in a previous paper, where peaches were available for the sexual phase, yet all samples from tobacco were of common genotypes.     

Fitness, genetic load and purging in experimental populations of the housefly

The relative effects of purging of the genetic load versus thefixation of deleterious alleles, under inbreeding, will influencea population's probability of extinction. The relative contributionof these two phenomena is expected to depend upon the rate ofinbreeding. A further complication is due to the fact that a purgingof the genetic load in one environment does not necessarily implya purging of the genetic load in other environments. To addressthese two issues, we compare fitness and genetic load in populationsexperiencing similar levels of inbreeding, but occurring as either ashort-term bottleneck or as a consequence of long-term reducedpopulation size, over a range of environments. Inbred populationshave consistently lower fitness than outbred populations acrossall environments tested. However, the bottlenecked populationssuffer less inbreeding depression for a given level of inbreeding,whether or not challenged by novel environments, than populationskept at a constant small size. The results of this study demonstratethat populations initiated from a small number of founders are ableto recover fitness and survive novel environmental challenges,provided that habitat is available for rapid population growth.