Evolution along the Great Rift Valley: phenotypic and genetic differentiation of East African white‐eyes (Aves,Zosteropidae)

The moist and cool cloud forests of East Africa represent a network of isolated habitats that are separated by dry and warm lowland savannah, offering an opportunity to investigate how strikingly different selective regimes affect species diversification. Here, we used the passerine genus Zosterops (white‐eyes) from this region as our model system. Species of the genus occur in contrasting distribution settings, with geographical mountain isolation driving diversification, and savannah interconnectivity preventing differentiation. We analyze (1) patterns of phenotypic and genetic differentiation in high‐ and lowland species (different distribution settings), (2) investigate the potential effects of natural selection and temporal and spatial isolation (evolutionary drivers), and (3) critically review the taxonomy of this species complex. We found strong phenotypic and genetic differentiation among and within the three focal species, both in the highland species complex and in the lowland taxa. Altitude was a stronger predictor of phenotypic patterns than the current taxonomic classification. We found longitudinal and latitudinal phenotypic gradients for all three species. Furthermore, wing length and body weight were significantly correlated with altitude and habitat type in the highland species Z. poliogaster. Genetic and phenotypic divergence showed contrasting inter‐ and intraspecific structures. We suggest that the evolution of phenotypic characters is mainly driven by natural selection due to differences in the two macro‐habitats, cloud forest and savannah. In contrast, patterns of neutral genetic variation appear to be rather driven by geographical isolation of the respective mountain massifs. Populations of the Z. poliogaster complex, as well as Z. senegalensis and Z. abyssinicus, are not monophyletic based on microsatellite data and have higher levels of intraspecific differentiation compared to the currently accepted species.     

Seasonal effects and fine‐scale population dynamics of Aedes taeniorhynchus,a major disease vector in the Galapagos Islands

Characterization of the fine‐scale population dynamics of the mosquito Aedes taeniorhynchus is needed to improve our understanding of its role as a disease vector in the Galapagos Islands. We used microsatellite data to assess the genetic structure of coastal and highland mosquito populations and patterns of gene flow between the two habitats through time on Santa Cruz Island. In addition, we assessed possible associations of mosquito abundance and genetic diversity with environmental variables. The coastal and highland mosquito populations were highly differentiated from each other all year round, with some gene flow detected only during periods of increased precipitation. The results support the hypothesis that selection arising from ecological differences between habitats is driving adaptation and divergence in A. taeniorhynchus, and maintaining long‐term genetic differentiation of the populations against gene flow. The highland and lowland populations may constitute an example of incipient speciation in progress. Highland populations were characterized by lower observed heterozygosity and allelic richness, suggesting a founder effect and/or lower breeding site availability in the highlands. A lack of reduction in genetic diversity over time in highland populations suggests that they survive dry periods as dormant eggs. Association between mosquito abundance and precipitation was strong in the highlands, whereas tide height was the main factor affecting mosquito abundance on the coast. Our findings suggests differences in the infection dynamics of mosquito‐borne parasites in the highlands compared to the coast, and a higher risk of mosquito‐driven disease spread across these habitats during periods of increased precipitation.     

Characterization of larval habitats of Anopheles albimanus, Anopheles pseudopunctipennis, Anopheles punctimacula, and Anopheles oswaldoi s.l. populations in lowland and highland Ecuador

Recent collection data indicate that at least four potential malaria vectors occupy more widespread distributions within the Andean highlands than in the past. Since habitat elimination is an important aspect of malaria control, it is vital to characterize larval habitats for Anopheles species within both lowland and highland sites. To that end, 276 sites within Ecuador were surveyed between 2008 and 2010. Characteristics of Anopheles‐present sites for four species were compared to Anopheles‐absent sites within the same geographical range and also to Anopheles‐absent sites within a highland range representing potential future habitats. Thermochron iButtons^© were used to describe the daily temperature variation within a subset of potential habitats. Anopheles albimanus (W.) was positively associated with permanent habitats, sand substrates, floating algae (cyanobacterial mats), and warmer temperatures in both comparisons. Anopheles pseudopunctipennis (T.) was associated with floating algae (cyanobacterial mats), warmer temperatures, and higher water clarity in both comparisons. Anopheles punctimacula (D.&K.) was negatively associated with floating algae and positively associated with dissolved oxygen in both comparisons. Anopheles oswaldoi s.l. (P.) was not significantly associated with any parameters more often than expected given larval‐absent sites. The results indicate that minimum water temperatures might limit the upper altitudinal distribution of An. albimanus (18.7° C) and An. pseudopunctipennis (16.0° C).     

Patterns of contact call differentiation in the panmictic East African Abyssinian White‐eye Zosterops abyssinicus (Aves: Passeriformes)

Species distribution patterns range from highly disjunct to continuous, depending on their ecological demands and the availability of respective habitats. East African savannahs are mostly interconnected and ecologically comparatively homogenous and thus provide a prerequisite for a rather panmictic distribution pattern for species occurring in this habitat. The Abyssinian white‐eye Zosterops abyssinicus is a savannah inhabiting bird species, representing such a continuous distribution. This species occurs in high abundances and is very mobile, and past population genetic studies have suggested that gene flow is high and genetic differentiation is low even across relatively large geographic distances. Further, only little morphological differences were found. In order to test for potential divergence in acoustic traits despite its interconnected geographic distribution, we analyzed 2795 contact calls of Z. abyssinicus, which were recorded at 19 sites across Kenya. Our data indicate weak, but significant differentiation in call characteristics across latitudinal gradients. We found strong changes in call characteristics in populations where Z. abyssinicus occurs in sympatry with its highland congener, Zosterops poliogaster. However, the changes in call characteristics in sympatry were in different directions and lead to strong differentiation of the sympatric populations to other conspecific populations potentially representing a case of cascade reinforcement. The detected spatial gradients likely result from ecological differences and balancing effects of natural and sexual selection.     

Genetic differentiation between sun and shade habitats in populations of Lindera benzoin L.

Differences in selection patterns among habitats can alter the distribution of genetic diversity even when this is estimated with neutral markers. For plants, light is an essential resource that can influence both abiotic and biotic components of habitat. We examined genetic differentiation between sun and shade habitats in Lindera benzoin L. (Spicebush), a perennial understory shrub. Genetic diversity of 127 plants from sun and shade habitats in two populations of L. benzoin was determined using 12 polymorphic microsatellite markers. We analyzed patterns of genetic diversity using analysis of molecular variance (AMOVA), and we assessed correlation between genetic and geographic distance using Mantel tests. We found (1) low levels of differentiation among populations (F _ST = 0.028), (2) little evidence of genetic structure within populations due to isolation-by-distance, and (3) some evidence of habitat-based genetic differentiation. Specifically, the AMOVA showed a small (0.5%) but significant portion of overall variation could be explained by differences between habitats. The overall low levels of differentiation we saw were likely a result of extensive gene flow in this dioecious, bird-dispersed species.     

Diversity,distribution, abundance,and feeding pattern of tropical ornithophilic mosquitoes

Bird–biting mosquitoes act as bridge vectors of diverse pathogens of emerging infectious diseases. In this study, we report for the first time the abundance, diversity, distribution, and feeding pattern of bird‐biting mosquitoes on an island where avifaunal diversity is rich. Monthly mosquito collections were done at six different habitats in three different climatic zones using bird‐baited traps over a year. Collected mosquitoes were identified using morphological and molecular tools. A total of 2,655 bird‐biting mosquitoes of eight genera and 25 species were identified. Of these, 52% were Culex species, which represents 35% of the Culex species in the country. The most abundant species were Culex sitiens, Cx. pseudovishnui, Cx. nigropunctatus and Cx. quinquefasciatus, whereas the latter two were common to all habitats. The highest abundance was reported in lowland forests (49.6%), while it was lowest in highland forests (22.3%). Highest species similarity was reported from highland forests. Seasonal variations of the most abundant species were significantly different in selected habitats (p< 0.05). Two distinct biting peaks were identified, from 06:00 to 21:00 and 22:00 to 02:00. The biting nature of identified ornithophilic mosquitoes suggests the potential vector status of these mosquitoes.     

Chytridiomycosis in Wild Frogs from Pico Bonito National Park, Honduras

Almost half of the endemic species of Honduran amphibians have declining populations; some of which seem to be extinct since they have not been seen in several years in places where they were once common. Disappearances in pristine and protected habitats have occurred in several highland localities throughout the country. The highland amphibian fauna of Pico Bonito National Park declined sometime between 1989 and 1995. An amphibian chytrid fungus, Batrachochytrium dendrobatidis has been linked to similar declines in other neotropical regions. We checked 19 specimens for this disease, which were collected in the park in 2003. The only Rana maculata examined was found to be infected, as were three of the six Eleutherodactylus aurilegulus surveyed for the disease. Two of the infected E. aurilegulus were collected at 120 m elevation and showed strong infections. One of these was lethargic and did not react when it was collected in the field, although it was still alive. A complete necropsy could help determine if the B. dendrobatidis infection was responsible for these symptoms, and further research might show how susceptible E. aurilegulus is to this pathogen at low altitudes. More research should be focused on the distribution of this pathogen in Honduras, and on how this disease has affected the local amphibian fauna.     

Identification of candidate genes related to highland adaptation from multiple Chinese local chicken breeds by whole genome sequencing analysis

Understanding the genetic mechanism of highland adaptation is of great importance for breeding improvement of Tibetan chickens (TBC). Some studies of TBC have identified some candidate genes and pathways from multiple subgroups, but the related genetic mechanisms remain largely unknown. Different genetic backgrounds and the independent genetic basis of highland adaptation make it difficult to identity the selective region of highland adaptation with all TBC samples. In this study, we conducted pre-analysis in a large-scale population to select a TBC subgroup with the purest and highest level of highland-specific lineage for the further analysis. Finally, the 37 samples from a TBC subgroup and 19 Lahsa White chickens were used to represent the highland group for further analysis with 80 samples from five Chinese local lowland breeds as controls. Population structure analysis revealed that highland adaptation significantly affected population stratification in Chinese local chicken breeds. Genome-wide selection signal analysis identified 201 candidate genes associated with highland adaptation of TBC, and these genes were significantly enriched in calcium signaling, vascular smooth muscle contraction and the cellular response to oxidative stress pathways. Additionally, we identified a narrow 1.76 kb region containing an overlapping region between HBZ and an active enhancer, and our identified region showed a highly significant signal. The highland group selected the haplotype with high activity to improve the oxygen-carrying capacity, thus being adapted to a hypoxic environment. We also found that STX2 was significantly selected in the highland group, thus potentially reducing the oxidative stress caused by hypoxia, and that STX2 exhibited the opposite effects on highland adaptation and reproductive traits. Our findings advance our understanding of extreme environment adaptation of highland chickens, and provide some variants and genes beneficial to TBC genetic breeding improvement.     

Genetic structure of coastal and inland populations of <Emphasis Type="Italic">Spergularia media</Emphasis> (L.) C. Presl (Caryophyllaceae) in Central Europe

In Central Europe, salt-influenced habitats are restricted mainly to the coastlines of the North Sea and the Baltic Sea. The few natural inland salt sites suffer from size reduction and loss in biodiversity, while anthropogenic salt sites around potash mining dumps experienced recent and massive de novo colonization by numerous halophytes. Our study aimed to elucidate the general patterns of gene flow among coastal and inland salt habitats. We used amplified fragment length polymorphisms to assess the genetic diversity and genetic structure of 18 European populations of the halophyte Spergularia media (Caryophyllaceae), sampled from inland and coastal salt sites of Germany, the Netherlands, Denmark, Austria, France and Italy. Estimates of genetic diversity on the population level were generally low, especially within inland salt habitats. Analyses of molecular variance showed comparatively strong differentiation among populations. Multivariate ordination (principal coordinate analysis) and a NeighborNet analysis revealed four distinct groups of populations that showed good correspondence to their geographic origins. A Bayesian analysis performed with the program Structure as well as high pairwise Φ _ST values supported the results of the phenetic analyses. The observed patterns of diversity and differentiation among inland populations of S. media are best explained by the isolated nature of suitable salt habitats, with concomitant reduction of gene flow to and among these sites. Our data support the hypothesis that the colonization of anthropogenic salt sites by S. media originated from natural inland habitats.     

Genetic and allelopathic differences between populations of daisy fleabane Erigeron annuus (L.) Pers. (Asteraceae) from disturbed and stable habitats

The interactions between invasive plants and their habitats may vary at different phases of the invasion process and depend on the phenotypic plasticity or local adaptations of each species. In this study, we investigated whether habitat changes during the invasion process are related to variations in the physiological traits (allelopathic properties) and genetic differentiation of daisy fleabane (Erigeron annuus (L.) Pers.). E. annuus is a winter annual invasive species that originated in North America and is now distributed throughout Europe. Genetic and genotypic diversity analyses were performed for 37 populations of E. annuus based on inter simple sequence repeat (ISSR) polymorphisms. In total, 684 plants were analyzed; 342 were from stable habitats and 342 were from disturbed habitats. The genetic differences among the populations from the different habitats were studied using a Bayesian cluster analysis and an analysis of molecular variance (AMOVA) and by calculating the genetic and genotypic diversity parameters. A germination test using the juglone index was employed to examine the potential allelopathic properties of the plants from the different habitats. Bayesian cluster analysis, AMOVA and allelopathic effects evaluation revealed differences in the allelopathic potential and genetic structure of the E. annuus populations from the disturbed and stable habitats. This differentiation of populations could be associated with founder effects or with different selection pressures among habitats.     

扎龙湿地不同生境芦苇功能性状变异及其对土壤因子的响应

物种的遗传特征和外在环境条件的差异共同决定了植物功能性状的表达,植物功能性状可以反映物种对环境条件的适应策略。采用大样本抽样调查与统计分析方法,比较研究扎龙湿地4种生境（盐碱生境、旱生生境、湿生生境和水生生境）芦苇分株和叶功能性状,分析不同生境芦苇功能性状的分异规律及其对土壤因子的响应。结果表明：（1）不同生境芦苇功能性状均表现出中等程度变异。其中分株和叶性状均以盐碱生境最低（P<0.05）,分株及除叶面积和比叶面积以外的叶性状均以水生生境最高;株高和株重在种群内的变异系数为15.96%-48.61%和38.65%-87.82%,种群间的变异系数为46.58%和66.39%;叶性状在种群内的变异系数为13.21%-72.37%,种群间的变异系数为26.46%-57.03%;（2）不同生境芦苇功能性状间存在协同变化特征。芦苇的株高、株重、叶长、叶宽、叶面积和叶重之间均呈极显著正相关关系（P<0.01）,比叶面积与其他性状的相关性因生境不同存在一定变化;（3）不同生境芦苇的原位土壤因子表现出异质性特征,芦苇功能性状的变异是含水量、pH、有机质和速效氮等土壤因子综合作用的结果。其中含水量、有机质和速效氮为正向驱动,而pH为负向驱动。因此,芦苇通过自我调节功能性状更好地适应不同的生存环境,局域尺度不同生境的土壤因子是引起芦苇功能性状产生分异的导因。     

Genetic differentiation between Carex lasiocarpa and C. Pellita (Cyperaceae) in north america

Carex lasiocarpa and C. pellita (sect. Carex) share a very similar morphology and have overlapping ranges in North America, but are found in different habitats characterized by contrasting soil types and pH. We studied allozyme variation and chromosome numbers to assess genetic differentiation between the two taxa. Both principal components analysis on the allele frequencies from 12 putative enzyme-coding loci and cluster analysis of genetic identities separated 51 sampled populations into two groups that were consistent with recognized structural differences between C. lasiocarpa and C. pellita. Mean within-group genetic identities were 0.95 for C. lasiocarpa and 0.93 for C. pellita; mean between-group genetic identity was 0.81. With the exception of two rare alleles, the alleles of C. pellita were a subset of those found in C. lasiocarpa. Principal components analysis of measurements of structural characters from voucher specimens representing 46 populations also separated the two species with minimal overlap. Meiotic squashes of microsporocytes revealed haploid chromosome numbers of 38 and 38 + 1 for C. lasiocarpa and 41 and 40 + 1 for C. pellita. These data support the continued recognition of the two taxa as distinct species, and suggest that C. pellita may be a daughter species still in the process of divergence from C. lasiocarpa.     

Convergent Patterns of Body Shape Differentiation in Four Different Clades of Poeciliid Fishes Inhabiting Sulfide Springs

We investigated replicated differentiation in four lineages of livebearing fishes (two with the genus Poecilia and two within Gambusia), which inhabit freshwater habitats and have also colonized sulfide springs in Oklahoma, Mexico, and Venezuela. Sulfide springs are characterized by extreme hypoxia and high concentrations of toxic hydrogen sulfide, which provide a strong source of divergent selection compared to adjacent non-sulfidic habitats. Using geometric morphometric analysis of body shape, we found that sulfide spring populations significantly differ from relatives from regular freshwater habitats in all four lineages investigated. Differentiation is characterized by strong patterns of convergent evolution, with sulfide spring populations consistently exhibiting an increase in head size, even though the magnitude and nature differences varied across lineages. Head size is strongly correlated with an increase in gill size in sulfide spring populations of the genus Poecilia, which facilitates efficient oxygen acquisition in the hypoxic H₂S-environment and directly affects survival. The convergent patterns of differentiation support previous findings about the effects of sulfide on trait evolution.     

Genetic structure of <Emphasis Type="Italic">Saxifraga tridactylites</Emphasis> (Saxifragaceae) from natural and man-made habitats

In contrast to many declining plant species Saxifraga tridactylites extended its distribution range in the man-made landscape of central Europe. The species naturally colonizes rocks and calcareous grasslands, but has also spread enormously in anthropogenic habitats such as railway constructions during the last decades. To analyze the genetic structure of the species 216 individuals from 8 populations in natural and 5 populations in man-made habitats were studied using AFLPs. The molecular analysis resulted in 250 scorable fragments. Population variability, measured as Nei’s gene diversity, Shannon’s Information Index and percentage of polymorphic bands, was slightly but not significantly higher in populations from natural habitats and was not correlated with population size. Mantel test indicated no significant correlation between pairwise genetic (Φ_PT) and geographic distances. An analysis of molecular variance revealed significant differentiation between the two habitat types. About 9% variability were observed between natural and man-made habitats, 21% among populations within these two habitats and 70% within populations. In a neighbour joining cluster analysis populations from natural and man-made habitats were clearly separated from each other. Populations of S. tridactylites from man-made habitats do, therefore, not suffer from reduced genetic diversity. The observed genetic differentiation between populations from man-made and natural habitats could be due to reduced gene flow and/or habitat specific selection. However, the results of the study clearly demonstrate human impact on the genetic structure of plant populations in man-made landscapes.     

Synopsis of Grimmia Hedw. in New Zealand,including Grimmia wilsonii sp. nov.

Abstract

The New Zealand Grimmia Hedw. specimens from AK, AKU, BM, CHR, OTA and WELT have been revised and a bryological field trip to the New Zealand Southern Alps was made to study specimens in their natural habitats. As a result of the revision and the field trip, G. anodon, G. austrofunalis, G. orbicularis and G. tortuosa were added to the moss flora. A key is presented, the species are briefly discussed and Grimmia wilsonii H.C. Greven sp. nov. is described and illustrated.     

Life cycle of Spongilla lacustris (Porifera,Spongillidae): a cue for environment-dependent phenotype

We studied the life cycle and growth of Spongilla lacustris in a stream with three distinct habitats. Sponge populations in the habitats exhibited different adaptive strategies. Growth forms of S. lacustris ranged from encrusting to digitate and branched. Environmental factors controlled the appearance of each growth form. In the most hospitable habitat, a variety of colonization strategies and different growth forms were present. In the less hospitable habitat growth was restricted to small and encrusting specimens. In the optimal habitat, the largest and most luxuriant specimens developed. Gemmulation and hatching were dephased among specimens in the three habitats; hence gemmules were present for long periods of time. S. lacustris was found capable of displaying two life strategies: r in the short run, K in the long run.     

Adaptive divergence in Darwin's small ground finch (Geospiza fuliginosa): divergent selection along a cline

We examine here, in a single year (2005), phenotypic divergence along a 560‐m elevation gradient in Darwin's small ground finch (Geospiza fuliginosa) in the Galápagos Islands. In this sample, four composite measures of phenotypic traits showed significant differences along the 18‐km geographical cline extending from lowlands to highlands. Compared with lowland birds, highland birds had larger and more pointed beaks, and thicker tarsi, but smaller feet and claws. Finches in an intervening agricultural zone had predominantly intermediate trait values. In a second, mark–recapture study we analyse selection on morphological traits among birds recaptured across years (2000–2005) in lowland and highland habitats. Birds were more likely to survive in the highlands and during the wet season, as well as if they had large beaks and bodies. In addition, highland birds exhibited higher survival rates if they had small feet and pointed beaks – attributes common to highland birds as a whole. Lowland birds were more likely to survive if they possessed the opposite traits. Selection therefore reinforced existing morphological divergence, which appears to reflect local adaptation to differing resources during the predominantly drought‐ridden conditions that characterized the 5‐year study. Alternative explanations – including genetic drift, matching habitat choice, deformation by parasites, and the effects of wear – received little or no support. © 2013 The Linnean Society of London, Biological Journal of the Linnean Society, 2013, 110 , 45–59.     

Population densities and geographic distribution of night monkeys (Aotus nancymai and Aotus vociferans) (cebidae: Primates) in Northeastern Peru

Population densities of two species of night (or owl) monkeys (Aotus nancymai and Aotus vociferans) were estimated using transect census methods. Densities of Aotus nancymai were approximately 46.3 individuals/km² in lowland forests and 24.2 individuals/km² in highland forests. For Aotus vociferans densities were 33.0 individuals/km² in lowland forests and 7.9 individuals/km² in highland forests. A. vociferans occurs north of the Río Amazonas-Marañon and A. nancymai south of it, except for the northern enclave between the Ríos Tigre and Pastaza. The two species are nowhere sympatric. However, the two known karyotypic forms of A. vociferans occupy the same habitats throughout the Peruvian range of the species.     

Variations in the foliar δ13C and C3/C4 species richness in the Japanese flora of Poaceae among climates and habitat types under human activity

For 383 Poaceae species harvested over the Japanese islands and stored as herbarium specimens along several decades, we determined C₃ and C₄ types of photosynthesis from leaf stable carbon isotope ratio (δ¹³C). Then, we sought the relationships between C₄ species richness and climatic factors or habitat types. Except for the two Panicum species (P. lanuginosum and P. scoparium) having the possibility of C₃–C₄ intermediate, 227 and 154 species were classified into C₃ and C₄. The C₄ species richness increased from northern to southern islands in Japan, positively correlated with mean annual air temperature. Greater C₄ species richness in the seashore habitats, and smaller C₄ species richness in the shaded, wet and highland habitats would be related to the photosynthetic responses to local environmental factors such as irradiance level and temperature regime. No difference of leaf δ-value of C₃ Poaceae was obtained between the habitats with different soil water availability, suggesting the less importance of soil water availability on leaf water-use efficiency in C₃ Poaceae species in Japan having humid climate. Additionally, possible effects of human activity around the harvested time or site on leaf δ-value were estimated, because the habitat includes the sites with high human activity. Leaf δ-value was decreased with sampling year, and it was higher in the densely inhabited district for both C₃ and C₄. They are probably due to a historical decrease in the atmospheric δ-value via increasing human activity, and high gas emission at the districts of high human density.     

Analysis of the O2 dependency in leaf-level photosynthesis of two Reynoutria japonica populations growing at different altitudes

To examine the effects of decreased CO₂ and O₂ partial pressure on leaf‐level photosynthesis in alpine plants at high altitude, we compared the maximal carboxylation efficiency, CE, of Reynoutria japonica Houtt. var. japonica growing in a highland with one growing in a lowland. CE under the native atmospheric conditions (native CE) of the highland population was significantly lower than that of the lowland one. The O₂ dependency of CE was significantly less in the highland population than in the lowland. Using theoretical analysis, we explained that O₂ dependency of leaf‐level photosynthesis became less as internal conductance (g_i) decreased. We also showed that g_i and the content of active Rubisco (E) could be estimated from the O₂ dependency of leaf‐level photosynthesis. By applying the analysis, a severe limitation of CO₂ diffusion in the leaf was estimated in the highland population, whereas almost the same values of E were estimated in both populations. A reasonable explanation for the difference in the native CE is the smaller O₂ dependency and photosynthetic capacity caused by a smaller g_i in the highland population in addition to the differences in the partial pressures of CO₂ and O₂.