Genetic Bottlenecks Driven by Population Disconnection

Abstract: Connectivity among populations plays a crucial role in maintaining genetic variation at a local scale, especially in small populations affected strongly by genetic drift. The negative consequences of population disconnection on allelic richness and gene diversity (heterozygosity) are well recognized and empirically established. It is not well recognized, however, that a sudden drop in local effective population size induced by such disconnection produces a temporary disequilibrium in allelic frequency distributions that is akin to the genetic signature of a demographic bottleneck. To document this effect, we used individual‐based simulations and empirical data on allelic richness and gene diversity in six pairs of isolated versus well‐connected (core) populations of European tree frogs. In our simulations, population disconnection depressed allelic richness more than heterozygosity and thus resulted in a temporary excess in gene diversity relative to mutation drift equilibrium (i.e., signature of a genetic bottleneck). We observed a similar excess in gene diversity in isolated populations of tree frogs. Our results show that population disconnection can create a genetic bottleneck in the absence of demographic collapse.     

Mine-drainage treatment wetland as habitat for herptofaunal wildlife

Land reclamation techniques that incorporate habitat features for herptofaunal wildlife have received little attention. We assessed the suitability of a wetland, constructed for the treatment of mine-water drainage, for supporting herptofaunal wildlife from 1988 through 1990 using diurnal and nocturnal surveys. Natural wetlands within the surrounding watershed were also monitored for comparison. The treatment wetland supported the greatest abundance and species richness of herptofauna among the sites surveyed. Abundance was a function of the frog density, particularly green frogs (Rana clamitans) and pickerel frogs (R. palustris), while species richness was due to the number of snake species found. The rich mix of snake species present at the treatment wetland was believed due to a combination of an abundant frog prey base and an amply supply of den sites in rock debris left behind from earlier surface-mining activities. Nocturnal surveys of breeding male frogs demonstrated highest breeding activity at the treatment wetland, particularly for spring peepers (Hyla crucifer). Whole-body assays of green frog and bullfrog (R. catesbeiana) tissues showed no differences among sites in uptake of iron, aluminum, and zinc; managanese levels in samples from the treatment wetland were significantly lower than those from natural wetlands. These results suggest that wetlands established for water quality improvement can provide habitat for reptiles and amphibians, with the species composition dependent on the construction design, the proximity to source populations, and the degree of acidity and heavy-metal concentrations in drainage waters.     

Altitudinal zonality and diversity of butterflies in the southern Far East and Transbaikalia

Species richness, taxonomic diversity, and qualitative composition of the butterfly fauna (Lepidoptera, Diurna) are discussed in the light of data on the altitudinal zonality of local faunas in the southern Far East and Transbaikalia. It is shown that qualitative elevation-dependent changes in the fauna occur only in the western and northern parts of the region.     

Meta-analysis of the differential effects of habitat fragmentation and degradation on plant genetic diversity

Genetic diversity is a key factor for population survival and evolution. However, anthropogenic habitat disturbance can erode it, making populations more prone to extinction. Aiming to assess the global effects of habitat disturbance on plant genetic variation, we conducted a meta-analysis based on 92 case studies obtained from published literature. We compared the effects of habitat fragmentation and degradation on plant allelic richness and gene diversity (equivalent to expected heterozygosity) and tested whether such changes are sensitive to different life-forms, life spans, mating systems, and commonness. Anthropogenic disturbance had a negative effect on allelic richness, but not on gene diversity. Habitat fragmentation had a negative effect on genetic variation, whereas habitat degradation had no effect. When we examined the individual effects in fragmented habitats, allelic richness and gene diversity decreased, but this decrease was strongly dependent on certain plant traits. Specifically, common long-lived trees and self-incompatible species were more susceptible to allelic richness loss. Conversely, gene diversity decreased in common short-lived species (herbs) with self-compatible reproduction. In a wider geographical context, tropical plant communities were more sensitive to allelic richness loss, whereas temperate plant communities were more sensitive to gene diversity loss. Our synthesis showed complex responses to habitat disturbance among plant species. In many cases, the absence of effects could be the result of the time elapsed since the disturbance event or reproductive systems favoring self-pollination, but attention must be paid to those plant species that are more susceptible to losing genetic diversity, and appropriate conservation should be actions taken.     

Relationships between Plant and Animal Species Richness at a Regional Scale in China

Abstract:  Important questions in conservation biology and ecology include whether species diversities of different groups of organisms are correlated and, in particular, whether plant diversity influences animal diversity. I used correlation and partial regression analyses to examine the relationships between species richness of vascular plants and four major groups of terrestrial vertebrates (mammals, amphibians, reptiles, and birds) in 28 provinces in China. Species richness data were obtained from the literature. Environmental variables included normalized difference vegetation index, mean January temperature, mean annual temperature, annual precipitation, May through August precipitation, actual evapotranspiration, potential evapotranspiration, and elevation range. Species richness was strongly and positively correlated among the five groups of organisms. Plant richness was correlated with animal richness more strongly than the richness of different animal groups correlated with each other except for reptile richness, which had a slightly higher correlation with amphibian richness than with plant richness. Plant richness uniquely explained 41 times more variance in the species richness of the four vertebrate groups combined than environmental variables uniquely did, suggesting that plant richness influences terrestrial vertebrate richness at the regional scale examined. Because of strong correlations between the diversity of vascular plants and vertebrates, the diversity of vascular plants may be used as a surrogate for the diversity of terrestrial animals in China. My results have implications for selection of areas to be protected at both regional and local scales.     

Estimating the complexity of bird song by using capture-recapture approaches from community ecology

Repertoire size, the number of unique song or syllable types in the repertoire, is a widely used measure of song complexity in birds, but it is difficult to calculate this exactly in species with large repertoires. A new method of repertoire size estimation applies species richness estimation procedures from community ecology, but such capture-recapture approaches have not been much tested. Here, we establish standardized sampling schemes and estimation procedures using capture-recapture models for syllable repertoires from 18 bird species, and suggest how these may be used to tackle problems of repertoire estimation. Different models, with different assumptions regarding the heterogeneity of the use of syllable types, performed best for different species with different song organizations. For most species, models assuming heterogeneous probability of occurrence of syllables (so-called detection probability) were selected due to the presence of both rare and frequent syllables. Capture-recapture estimates of syllable repertoire size from our small sample did not differ significantly from previous estimates using larger samples of count data. However, the enumeration of syllables in 15 songs yielded significantly lower estimates than previous reports. Hence, heterogeneity in detection probability of syllables should be addressed when estimating repertoire size. This is neglected using simple enumeration procedures, but is taken into account when repertoire size is estimated by appropriate capture-recapture models adjusted for species-specific song organization characteristics. We suggest that such approaches, in combination with standardized sampling, should be applied in species with potentially large repertoire size. On the other hand, in species with small repertoire size and homogenous syllable usage, enumerations may be satisfactory. Although researchers often use repertoire size as a measure of song complexity, listeners to songs are unlikely to count entire repertoires and they may rely on other cues, such as syllable detection probability.Communicated by A. Cockburn     

Obtaining species: sample size considerations

Suppose fish are to be sampled from a stream. A fisheries biologist might ask one of the following three questions: ‘How many fish do I need to catch in order to see all of the species?’, ‘How many fish do I need to catch in order to see all species whose relative frequency is more than 5%?’, or ‘How many fish do I need to catch in order to see a member from each of the species A, B, and C?’. This paper offers a practical solution to such questions by setting a target sample size designed to achieve desired results with known probability. We present three sample size methods, one we call ‘exact’ and the others approximate. Each method is derived under assumed multinomial sampling, and requires (at least approximate) independence of draws and (usually) a large population. The minimum information needed to compute one of the approximate methods is the estimated relative frequency of the rarest species of interest. Total number of species is not needed. Choice of a sample size method depends largely on available computer resources. One approximation (called the ‘Monte Carlo approximation’) gets within ±6 units of exact sample size, but usually requires 20–30 minutes of computer time to compute. The second approximation (called the ‘ratio approximation’) can be computed manually and has relative error under 5% when all species are desired, but can be as much as 50% or more too high when exact sample size is small. Statistically, this problem is an application of the ‘sequential occupancy problem’. Three examples are given which illustrate the calculations so that a reader not interested in technical details can apply our results.     

Conservation of Vascular Epiphyte Diversity in Mexican Coffee Plantations

Abstract:  Coffee plantations have replaced many lower-montane forests in the Neotropics, and ongoing intensification is converting traditional polycultures with a variety of shade trees to plantations with no or monospecific shade trees. To evaluate the impact of coffee cultivation on epiphyte diversity, I surveyed vascular epiphytes on shade trees in nine different coffee plantations and compared records with those in four natural forests in central Veracruz, Mexico. Eighty-nine species occurred in coffee plantations, and 104 species occurred in natural forests. The number of epiphytic species in traditional polycultures with old shade trees, mostly of the genus Inga , was similar to that in forests, but plantations with small trees and sparse shade hosted fewer epiphytes than those with large trees. Epiphyte communities were, however, more homogeneous in coffee plantations than in forests, possibly because of a drier microclimate and the lack of large and long-lived trees. These results demonstrate the value of traditional polycultures for epiphyte diversity, show the importance of conserving large shade trees, and suggest that these coffee systems may not be suitable for all epiphytes.     

贺兰山高山草甸生物多样性和地上生物量的关系

在对贺兰山高山草甸进行群落调查的基础上,研究高山草甸生物多样性和地上生物量与环境因子之间的关系,进而分析生物多样性和地上生物量的关系.结果表明:(1)地上生物量主要与土层深度成正相关关系.(2)海拔高度与生物多样性成负相关关系,而其它影响物种丰富度或Shannon指数的环境因子仅在个别群落类型中起作用.(3)生物多样性与地上生物量主要呈单峰曲线关系.