Bukovina blind mole rat Spalax graecus revisited: phylogenetics,morphology, taxonomy,habitat associations and conservation

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Genetics and conservation of European brown bears Ursus arctos

• 1 We review the genetics research that has been conducted on the European brown bear Ursus arctos, one of the genetically best‐studied mammalian species.
• 2 The first genetics studies on European brown bears were on phylogeography, as a basis for proposed population augmentations. Two major mitochondrial DNA lineages, western and eastern, and two clades within the western lineage were found. This led to a hypothesis that brown bears had contracted to southern refugia during the last glacial maximum. More recent results suggest that gene flow among brown bears blurred this structure and they survived north of these putative refugia. Thus, today's structure might be a result of population fragmentation caused by humans.
• 3 The nuclear diversity of European brown bears is similar in range to that in North American bears: low levels occur in the small populations and high levels in the large populations.
• 4 Many non‐invasive genetic methods, developed during research on brown bears, have been used for individual identification, censusing populations, monitoring migration and gene flow, and testing methods that are easier to use in endangered populations and over large areas.
• 5 Genetics has been used to study many behavioural and population ecological questions that have relevance for the conservation and management of brown bears.
• 6 The European brown bear has served, and will continue to serve, as a model for the development of methods, analyses and hypotheses in conservation genetics.

     

A new cytochrome b phylogroup of the common vole (Microtus arvalis) endemic to the Balkans and its implications for the evolutionary history of the species

The phylogeographic architecture of the common vole, Microtus arvalis, has been well‐studied using mitochondrial DNA and used to test hypotheses relating to glacial refugia. The distribution of the five described cytochrome b (cyt b) lineages in Europe west of Russia has been interpreted as a consequence of postglacial expansion from both southern and central European refugia. A recently proposed competing model suggests that the ‘cradle’ of the M. arvalis lineages is in western central Europe from where they dispersed in different directions after the Last Glacial Maximum. In the present study, we report a new cyt b lineage of the common vole from the Balkans that is not closely related to any other lineage and whose presence might help resolve these issues of glacial refugia. The Balkan phylogroup occurs along the southern distributional border of M. arvalis in central and eastern Bosnia and Herzegovina, Montenegro, and eastern Serbia. Further north and west in Slovenia, Bosnia and Herzegovina, and Serbia, common voles belong to the previously‐described Eastern lineage, whereas both lineages are sympatric in one site in Bosnia and Herzegovina. The Balkan phylogroup most reasonably occupied a glacial refugium already known for various Balkan endemic species, in contrast to the recently proposed model. South‐east Europe is an absolutely crucial area for understanding the postglacial colonization history of small mammals in Europe and the present study adds to the very few previous detailed phylogeographic studies of this region. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100 , 788–796.     

Phylogeography,population genetics and conservation of the European red deer Cervus elaphus

• 1 During the Last Glacial Maximum, European red deer Cervus elaphus occurred in refugia in Iberia/southern France, Italy, the Balkans and the Carpathians. Most of Europe, including large parts of the east and north‐east, is now inhabited by red deer from the western lineage. The eastern lineage is largely confined to south‐eastern Europe; a third lineage comprises Sardo‐Corsican and Barbary red deer.
• 2 Sardo‐Corsican, Barbary and Mesola red deer are genetically unique units. They exhibit low levels of genetic diversity and deserve particular protection, since conservation strategies should target genetic information.
• 3 Hybridization between sika Cervus nippon and red deer occurs rarely, but may lead to extensive introgression, particularly in parts of the British Isles. Further expansion of both species may lead to increased hybridization in continental Europe.
• 4 Although hunting has an impact on red deer gene pools, the main threat today is habitat fragmentation in human‐dominated landscapes. The resulting increase in genetic drift and inbreeding reduces variability in isolated populations and may lead to inbreeding depression. To support vital meta‐populations, migration corridors should be established.

     

Quaternary history of the European roe deer Capreolus capreolus

• 1 The European roe deer Capreolus capreolus is a typical faunal element of the Holocene. It was already present in Europe at least 600 000 years ago and it has been known from both glacial and interglacial phases since then. With nearly 3000 fossil and subfossil records, it is one of the most frequent mammals in the Late Quaternary.
• 2 During the Middle and Late Weichselian Pleniglacial, the distribution of the roe deer was not restricted to the Mediterranean peninsulas but repeatedly reached regions of central Europe. In contrast to that, roe deer records from the Last Glacial Maximum (LGM, 21.0–14.5 ka ¹⁴C BP) are largely confined to the Mediterranean peninsulas – with the exception of south‐western France and the surroundings of the Carpathians where several records attest to its occurrence during the LGM.
• 3 During the Greenland Interstadial 1 (12.5–10.8 ka ¹⁴C BP), the species' distribution extended further north and the roe deer appeared north of the Alps and reached regions of central Germany. This seems to be correlated with the abrupt change to more favourable environmental conditions during this period. It is very likely that the roe deer disappeared north of the Alps during the Younger Dryas cooling (10.8–10.0 ka¹⁴C BP). The northern regions of the central European lowlands were recolonized by roe deer during the late Preboreal 9.7–9.5 ka ¹⁴C BP for the first time since the Weichselian Glacial.
• 4 The combined pattern of genetic data and fossil records of European roe deer suggests several regions in the Iberian peninsula, southern France, Italy and the Balkans as well as in the Carpathians and/or eastern Europe as glacial refugia. It further suggests that C. capreolus might have recolonized most parts of central‐northern Europe out of one or more eastern European (not Balkan) and/or Carpathian refugia. This recolonization wave might have blocked immigration from the traditional Mediterranean areas.

     

Spatial variation in the magnitude and functional form of density‐dependent processes on the large skipper butterfly Ochlodes sylvanus

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Genetic structure and gene flow among European corn borer populations from the Great Plains to the Appalachians of North America

• 1 Earlier population genetic spatial analysis of European corn borer Ostrinia nubilalis (Hübner) indicated no genetic differentiation even between locations separated by 720 km. This result suggests either high dispersal resulting in high gene flow or that populations are not in migration–drift equilibrium subsequent to their invasion of the central U.S.A. in the 1940s.
• 2 To discriminate among these two possibilities, samples were collected at 12 locations in eight states from New York to Colorado, a geographic scale that is three‐fold greater than previously tested. Eight microsatellite markers were employed to estimate genetic differentiation and gene flow among these populations, and to test for isolation‐by‐distance.
• 3 Although pairwise F_ST estimates were very low, there was a significant isolation‐by‐distance relationship.
• 4 Wright's neighbourhood area (i.e. the surface area covered by a panmictic group of individuals within a larger continuous distribution) was calculated as 433 km², and the radius indicates that approximately 13% of O. nubilalis adults disperse a net distance >12 km per generation from their natal source.
• 5 Analyses indicated significant differentiation between the north‐eastern region (New York and Pennsylvania) and the region combining sample locations from Ohio to Colorado, suggesting the potential for isolation of populations by topographic barriers in the Northeast.
• 6 Taken together, the results suggest that O. nubilalis exhibits substantial gene flow over long distances and that the lack of genetic differentiation between populations across hundreds of kilometres is not simply a result of migration–drift disequilibrium arising from the recent range expansion.

     

Impact of prey occupancy and other ecological and anthropogenic factors on tiger distribution in Thailand's western forest complex

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Origin and dispersal of Potamophylax cingulatus (Trichoptera: Limnephilidae) in Iceland

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A new vertebrate for Europe: the discovery of a range‐restricted relict viper in the western Italian Alps

We describe Vipera walser, a new viper species from the north‐western Italian Alps. Despite an overall morphological resemblance with Vipera berus, the new species is remarkably distinct genetically from both V. berus and other vipers occurring in western Europe and shows closer affinities to species occurring only in the Caucasus. Morphologically, the new species appear to be more similar to V. berus than to its closest relatives occurring in the Caucasus, but can be readily distinguished in most cases by a combination of meristic features as confirmed by discriminant analysis. The extant population shows a very low genetic variability measured with mitochondrial markers, suggesting that the taxon has suffered a serious population reduction/bottleneck in the past. The species is extremely range‐restricted (less than 500 km²) and occurs only in two disjunct sites within the high rainfall valleys of the Alps north of Biella. This new species should be classified as globally ‘endangered’ due to its small and fragmented range, and an inferred population decline. The main near‐future threats to the species are habitat changes associated with reduced grazing, along with persecution and collecting.     

Predicting the distribution of a novel bark beetle and its pine hosts under future climate conditions

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Documenting the biogeographic history of Microtus cabrerae through its fossil record

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Population structure and spatial ecology of Kordofan giraffe in Garamba National Park,Democratic Republic of Congo

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Multiple gene analyses reveal extensive genetic diversity among ‘Candidatus Phytoplasma mali’ populations

This study focused on evaluating the genetic diversity among ‘Candidatus Phytoplasma mali’ (‘Ca. P. mali’) populations in orchards of north‐western Italy, where apple proliferation (AP) disease is widespread and induces severe economic losses. ‘Ca. P. mali’ was detected through restriction fragment length polymorphism (RFLP) analysis of PCR‐amplified 16S rDNA in 101 of 114 samples examined. Collective RFLP patterns, obtained by restriction analyses of four amplified genomic segments (16S/23S rDNA, PR‐1, PR‐2 and PR‐3 non‐ribosomal region, ribosomal protein genes rplV‐rpsC and secY gene), revealed the presence of 12 distinct genetic lineages among 60 selected representative ‘Ca. P. mali’ isolates, underscoring an unexpected high degree of genetic heterogeneity among AP phytoplasma populations in north‐western Italy. Prevalence of distinct genetic lineages in diverse geographic regions opens new interesting avenues for studying the epidemiology of AP disease. Furthermore, lineage‐specific molecular markers identified in this work could be useful for investigating the biological life cycle of ‘Ca. P. mali’.     

Effects of warming on annual production and nutrient‐use efficiency of aquatic mosses in a high Arctic lake

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Habitat use of the endangered golden‐rumped sengi Rhynchocyon chrysopygus

The endangered golden‐rumped sengi are found only in Arabuko‐Sokoke Forest with 395.4 km² of forest habitat, and perhaps in a few isolated forest and thicket fragments of total area less than 30 km² all within central coastal Kenya. Understanding its habitat use is an important requirement to develop better conservation measures for the species and its remaining forest habitat. A more reliable method for monitoring its status is also needed. We used the Bayesian occupancy modelling with camera trap data and habitat mapping to characterise the species habitat use in the Arabuko‐Sokoke Forest. The species uses 328 km² (95% CI: 289–364 km²) of Arabuko‐Sokoke Forest habitat, and its site use increases with distance from forest edge, with the highest site use in the Cynometra thicket (0.93; 95% CI: 0.82–1). Its use of the mixed forest habitat has been significantly reduced following years of logging of Afzelia quanzensis. We recommend the use of modelled occupancy, interpreted as the proportion of area used by the species, to monitor the species status. Occupancy models account for detection probability, and heterogeneity in site use and detection can be incorporated. Estimated territory sizes can be combined to obtain abundance estimates.     

Conservation of the vaquita Phocoena sinus

• 1 The vaquita Phocoena sinus is a small porpoise that is endemic to the northern Gulf of California, Mexico. It is the most critically endangered marine small cetacean in the world. The most precise estimate of global abundance based on a 1997 survey is 567 (95% CI 177–1073).
• 2 Vaquitas mainly live north of 30°45′N and west of 114°20′W. Their ‘core area’ consists of about 2235 km² centred around Rocas Consag, 40 km east of San Felipe, Baja California. Genetic analyses and population simulations suggest that the vaquita has always been rare, and that its extreme loss of genomic variability occurred over evolutionary time rather than being caused by human activities.
• 3 Gill nets for fish and shrimp cause very high rates of by‐catch (entanglement) of vaquitas. Estimates of bycatch rates are from 1993–94 and refer to one of three main fishing ports: 84 per year (95% CI 14–155) using only data collected by observers and 39 per year (95% CI 14–93) using combined data from observers and interviews with fishermen. Boats from other ports may experience similar rates, and the total is probably well above what would be sustainable.
• 4 Other less well‐characterized and longer‐term risk factors include the potential for disturbance by trawling to affect vaquita behaviour, and the uncertain effects of dam construction on the Colorado River and the resultant loss of freshwater input to the upper Gulf. However, entanglement is the clearest and most immediate concern.
• 5 Progress towards reducing entanglement has been slow in spite of efforts to phase out gill nets in the vaquita’s core range, and the development of schemes involving compensation for fishermen. The Biosphere Reserve in the northern Gulf has fallen far short of its potential for vaquita conservation. On 29 December 2005, the Mexican Ministry of Environment declared a Vaquita Refuge that contains within its borders the positions of approximately 80% of verified vaquita sightings. In the same decree, the state governments of Sonora and Baja California were offered $1 million to compensate affected fishermen. The effectiveness of this major initiative remains to be seen.
• 6 The vaquita’s survival does not depend on more or better science but on improved management. As a funding priority, implementation of conservation measures and evaluation of their effectiveness should come ahead of more surveys or improved estimation of by‐catch.

     

Testing a novel agri‐environment scheme based on the ecology of the target species,Montagu's Harrier Circus pygargus

Farmland birds are in steep decline and agri‐environment schemes (AES) to counteract these biodiversity losses are expensive and inefficient. Here we test a novel AES, ‘Birdfields’, designed using detailed ecological knowledge of the target species, Montagu's Harrier Circus pygargus. Current AES, such as field margins, that aim to improve foraging conditions (i.e. vole densities) for harriers are inefficient, as prey are difficult to capture in tall set‐aside habitat. ‘Birdfields’ combines strips of set‐aside to boost vole numbers and strips of alfalfa, as voles are accessible after alfalfa has been harvested. We found that vole numbers were generally highest in set‐aside. Montagu's Harriers fitted with GPS‐loggers used ‘Birdfields’ intensively after mowing, preferring mown to unmown strips. Thus, prey availability appeared more important than prey abundance. Thus, ‘Birdfields’, as a targeted AES for Montagu's Harriers, is more effective than previous AES due to increased prey accessibility. An additional advantage of ‘Birdfields’ is that it is considerably cheaper, due to the harvest of alfalfa. We advocate that AES should always include monitoring and research activities, aiming at a more adaptive conservation approach.     

Glacial survival or late glacial colonization? Phylogeography of the root vole (Microtus oeconomus) in north‐west Norway

Aim It has been proposed that the root vole subspecies, Microtus oeconomus finmarchicus, survived the last glacial period on islands on the north‐west coast of Norway. The Norwegian island of Andøya may have constituted the only site with permanent ice‐free conditions. Geological surveys and fossil finds from Andøya demonstrate that survival throughout the last glacial maximum was probably possible for some plants and animals. In this study we aim to infer the recent evolutionary history of Norwegian root vole populations and to evaluate the glacial survival hypothesis. Methods DNA sequence variation in the mitochondrial cytochrome b gene was studied in 46 root voles from 19 localities. Location Northern Fennoscandia and north‐west Russia with a focus on islands on the north‐west coast of Norway. Results The phylogeographical analyses revealed two North European phylogroups labelled ‘Andøya’ and ‘Fennoscandia’. The Andøya phylogroup contained root voles from the Norwegian islands of Andøya, Ringvassøya and Reinøya and two localities in north‐west Russia. The Fennoscandian phylogroup encompassed root voles from the three Norwegian islands of Kvaløya, Håkøya and Arnøya and the remaining specimens from Norway, northern Sweden and Finland. Nucleotide diversity within the Andøya and Fennoscandian phylogroups was similar, ranging from 0.5% to 0.7%. Main conclusions Both our genetic data and previously published morphological data are consistent with in situ glacial survival of root voles on Andøya during the last glacial maximum. However, the level of genetic diversity observed in the extant island populations, the past periods of severe climatic conditions on Andøya and the ecology of the root vole are somewhat difficult to reconcile with this model. A biogeographical scenario involving late glacial recolonization along the northern coasts of Russia and Norway therefore represents a viable alternative. Our results demonstrate that complex recolonization and extinction histories can generate intricate phylogeographical patterns and relatively high levels of genetic variation in northern populations.     

Factors determining survival of European eels in two unexploited sub‐populations

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