Bayesian clustering algorithms ascertaining spatial population structure: a new computer program and a comparison study

On the basis of simulated data, this study compares the relative performances of the Bayesian clustering computer programs structure , geneland , geneclust and a new program named tess . While these four programs can detect population genetic structure from multilocus genotypes, only the last three ones include simultaneous analysis from geographical data. The programs are compared with respect to their abilities to infer the number of populations, to estimate membership probabilities, and to detect genetic discontinuities and clinal variation. The results suggest that combining analyses using tess and structure offers a convenient way to address inference of spatial population structure.     

Lack of Mother—Offspring Relationships in White-Tailed Deer Capture Groups

ABSTRACT Behavioral studies of white-tailed deer (Odocoileus virginianus) often assign mother-offspring relationships based on common capture of juveniles with adult deer, assuming that fawns associate closely with mothers. We tested this assumption using genetic parentage to assess mother-offspring relationships within capture groups based on data from 10 polymorphic microsatellite loci. At the 80% confidence level, we assigned maternity to 43% and 51% of juveniles captured with an adult female in 2 respective study areas. Capture with their mother did not differ by sex of juveniles in either study area, and limiting our analysis to capture groups that most represent family groups (i.e., one ad F with 1–3 juv) did not increase maternity assignment (35%). Our results indicate that common capture may be a poor indicator of mother-offspring relationships in many field settings. We recommend genetic verification of family relationships.     

Satellite-marked waterfowl reveal migratory connection between H5N1 outbreak areas in China and Mongolia

The role of wild birds in the spread of highly pathogenic avian influenza H5N1 has been greatly debated and remains an unresolved question. However, analyses to determine involvement of wild birds have been hindered by the lack of basic information on their movements in central Asia. Thus, we initiated a programme to document migrations of waterfowl in Asian flyways to inform hypotheses of H5N1 transmission. As part of this work, we studied migration of waterfowl from Qinghai Lake, China, site of the 2005 H5N1 outbreak in wild birds. We examined the null hypothesis that no direct migratory connection existed between Qinghai Lake and H5N1 outbreak areas in central Mongolia, as suggested by some H5N1 phylogeny studies. We captured individuals in 2007 from two of the species that died in the Qinghai Lake outbreaks and marked them with GPS satellite transmitters: Bar-headed Geese Anser indicus ( n  =   14) and Ruddy Shelduck Tadorna ferruginea ( n  =   11). Three of 25 marked birds (one Goose and two Shelducks) migrated to breeding grounds near H5N1 outbreak areas in Mongolia. Our results describe a previously unknown migratory link between the two regions and offer new critical information on migratory movements in the region.     

Population genetic analysis of a recent range expansion: mechanisms regulating the poleward range limit in the volcano barnacle Tetraclita rubescens

As range shifts coincident with climate change have become increasingly well documented, efforts to describe the causes of range boundaries have increased. Three mechanisms—genetic impoverishment, migration load, or a physical barrier to dispersal—are well described theoretically, but the data needed to distinguish among them have rarely been collected. We describe the distribution, abundance, genetic variation, and environment of Tetraclita rubescens, an intertidal barnacle that expanded its northern range limit by several hundreds of kilometres from San Francisco, CA, USA, since the 1970s. We compare geographic variation in abundance with abiotic and biotic patterns, including sea surface temperatures and the distributions of 387 co‐occurring species, and describe genetic variation in cytochrome c oxidase subunit I, mitochondrial noncoding region, and nine microsatellite loci from 27 locations between Bahia Magdalena (California Baja Sur, Mexico) and Cape Mendocino (CA, USA). We find very high gene flow, high genetic diversity, and a gradient in physical environmental variation coincident with the range limit. We infer that the primary cause of the northern range boundary in T. rubescens is migration load arising from flow of maladapted alleles into peripheral locations and that environmental change, which could have reduced selection against genotypes immigrating into the newly colonized portion of the range, is the most likely cause of the observed range expansion. Because environmental change could similarly affect all taxa in a region whose distributional limits are established by migration load, these mechanisms may be common causes of range boundaries and largely synchronous multi‐species range expansions.     

Temperature-independent diel variation in soil respiration observed from a temperate deciduous forest

The response of soil respiration (R_s) to temperature depends largely on the temporal and spatial scales of interest and how other environmental factors interact with this response. They are often represented by empirical exponential equations in many ecosystem analyses because of the difficulties in separating covarying environmental responses and in observing below ground processes. The objective of this study was to quantify a soil temperature‐independent component in R_s by examining the diel variation of an R_s time series measured in a temperate deciduous forest located at Oak Ridge, TN, USA between March and December 2003. By fitting 2 hourly, continuous automatic chamber measurements of CO₂ efflux at the soil surface to a Q₁₀ function to obtain the temperature‐dependent respiration (R_t) and plotting the diel cycles of R_t, R_s, and their difference (R_i), we found that an obvious temperature‐independent component exists in R_s during the growing season. The diel cycle of this component has a distinct day/night pattern and agrees well with diel variations in photosynthetically active radiation (PAR) and air temperature. Elevated canopy CO₂ concentration resulted in similar patterns in the diel cycle of the temperature‐independent component but with different daily average rates in different stages of growing season. We speculate that photosynthesis of the stand is one of the main contributors to this temperature‐independent respiration component although more experiments are needed to draw a firm conclusion. We also found that despite its relatively small magnitude compared with the temperature‐dependent component, the diel variation in the temperature‐independent component can lead to significantly different estimates of the temperature sensitivity of soil respiration in the study forest. As a result, the common practice of using fitted temperature‐dependent function from night‐time measurements to extrapolate soil respiration during the daytime may underestimate daytime soil respiration.     

Microsatellite DNA markers for population genetic studies and parentage assignment in cobia,Rachycentron canadum

Twenty nuclear‐encoded microsatellites from a genomic DNA library of cobia, Rachycentron canadum, were isolated and characterized. The microsatellites include two tetranucleotide, one trinucleotide, three combination tetranucleotide/dinucleotide, nine dinucleotide, and five imperfect (dinucleotide) repeat motifs. Gene diversity ranged between zero to 0.910; the number of alleles among a sample of 24 fish ranged from one to 15. Cobia support an important recreational fishery in the southeastern United States and recently have become of interest to aquaculture. The microsatellites developed will be useful tools for studying both population genetics (e.g. stock structure, effective population size) and inheritance of traits important to aquaculture.     

A comparative study of cannibalism and predation in seven species of flour beetle

Abstract 1. The present study quantified egg and pupal cannibalism, and interspecific predation on eggs and pupae, by larvae and adults of seven species of flour beetle (Tribolium spp.) under laboratory conditions: T. anaphe, T. brevicornis, T. castaneum, T. confusum, T. destructor, T. freemani, and T. madens. 2. Variation among species in cannibalism and predation propensities did not reflect taxonomic affinities within the genus, indicating that these behaviours were shaped by ecology at species level. 3. Within species, larvae and adults displayed different propensities for cannibalism and predation, leading to the conclusion that these behaviours evolve independently in the two life stages. 4. All species behaved as intraguild predators to some degree, especially in the adult stage. 5. Three general patterns of cannibalism and predation were described by principal component mapping and cluster analysis. 6. The first group comprised three cosmopolitan pest species that were more voracious as adults than as larvae: T. castaneum, T. confusum, and T. destructor. It is proposed that stored product environments select for high adult voracity because the costs associated with emigration from such rare, but resource‐rich, habitats intensifies interference competition among adults. 7. The second group consisted of species that inhabit natural environments and that were more voracious as larvae: T. anaphe, T. freemani, and T. madens. Habitats for these species are probably numerous, but generally poor in quality, a situation that intensifies larval competition, while favouring earlier adult emigration. 8. The largest species, T. brevicornis, demonstrated inconsistent voracity between life stages and was the only species with chemically defended pupae. 9. It is proposed that consumption of eggs provides primarily nutritional benefits, whereas consumption of pupae has a more important role in interference competition.     

Applying the results of ecological studies to land-use policies and practices

Summary

• 1. 

  Good progress has been made in bringing the importance of high-nature-conservation-value farming systems to the attention of a wider audience. However, simply having a broad appreciation of which farming systems are good for certain species or species assemblages is of little use without a detailed understanding of how each particular farming system functions and integrates with the species reliant upon that system as a whole.
• 2. 

  Many species have intimate and complex interactions with the annual farming cycle, and their presence on any one piece of farmland is determined not only by the farm management occurring at that time but also by the management practised over the previous weeks and months. Since their exact farm management requirements are not fully understood, it would currently be difficult (if not impossible) to put in place the exact set of conditions necessary to ensure the continued occurrence of many desired species.
• 3. 

  Consequently, a detailed understanding of the ecological relationships involved is essential before advice can be provided on how best to develop any individual farming system (and the associated policies) so that the ecological characteristics of the system of value to the wildlife assemblages are maintained.
• 4. 

  These issues are highlighted and illustrated with reference to the findings from research into the ecology and requirements of the chough Pyrrhocorax pyrrhocorax and the effects of farm management practices on ground beetles (Coleoptera: Carabidae) and leatherjackets (Diptera: Tipulidae), which together can form important prey items for birds associated with grassland habitats.

     

Aphidophagous guilds on nettle （Urtica dioica） strips close to fields of green pea, rape and wheat

The common nettle （Urtica dioica L.） is a perennial and cosmopolitan plant species and is known to be the source of food for a great diversity of insects. To understand the importance of the nettle in agro-ecosystems, a field experiment was carried out in an experimental farm at Gembloux （Belgium） to study the effect of nettle margin strips on aphid and aphidophagous populations in close field crops, namely wheat （Triticum aestivum L.）, green pea （Pisum sativum L.） and rape （Brassicae napus L.）. The aphids and related beneficial populations were weekly assessed, from March to August 2005, by visual observations in two plots per field crop. A higher abundance of aphidophagous beneficials was collected in nettle strips when compared to the field crops. Particularly, the presence of predatory anthocorids, mirids and green lacewings was observed on nettle only. Nevertheless, the most abundant aphid predatory family, the Coccinellidae, was distributed in both environments, in nettle strips and in crop fields. The field margin supported a significantly higher density ofHarmonia axyridis than the field crops. In contrast, the field crops, green pea particularly, supported a higher density of Coccinella septempunctata. The distribution of the aphidophagous species, mainly the ladybirds, was discussed in relation to the host plant and related aphid species and their potential effect on integrated pest management.