Bird community patterns in sub–Mediterranean pastures: the effects of shrub cover and grazing intensity

Shrubs are widely considered a threat to grassland biodiversity. We investigated the effects of shrub cover and grazing intensity on bird communities in sub–Mediterranean pastures in Bulgaria. The point–count method was used on 80 plots in open (&lt; 10% shrub cover) and shrubby (approx. 20% cover) pastures under either intensive or extensive management (grazing intensity) from 2008 to 2009. We recorded a total of 1,956 observations of birds from 53 species. Main environmental gradients accounting for the bird community pattern were related to vegetation succession and land productivity. Bird species richness was higher in shrubby pastures than in open sites, while no effect was found in respect to total bird abundance. Bird species diversity (i.e. H’ index) was highest in extensive shrubby pastures. Shrubland specialists were positively affected by shrub cover and extensive management of pastures while grassland and woodland specialists showed no significant response to these factors. We conclude that a small proportion of shrubs within pastures may be beneficial for farmland birds and sustainable management of pastures could be achieved by greater flexibility of national agri–environmental schemes. Key words: Agri–environmental scheme, Farmland birds, Grassland management, Semi–natural habitats, Shrubby vegetation.Se suele considerar a los arbustos como una amenaza a la biodiversidad de los pastos. Investigamos los efectos de la cubierta arbustiva y la intensidad del pastoreo sobre las comunidades de aves en los pastos submediterráneos de Bulgaria. Se utilizó el método de estaciones de escucha en 80 puntos de registro en pastos abiertos (cubierta arbustiva < 10%) y arbustivos (aproximadamente un 20% de la superficie cubierta), con una gestión de pastoreo tanto intensiva como extensiva desde 2008 a 2009. Registramos un total de 1.956 observaciones de aves pertenecientes a 53 especies distintas. Los gradientes ambientales principales responsables de los patrones de las comunidades de aves se relacionaron con la sucesión de la vegetación y la productividad de la tierra. La riqueza de especies de aves era mayor en los pastos arbustivos que en los lugares abiertos, aunque no se observó efecto alguno con respecto a la abundancia total de aves. La mayor diversidad de especies de aves (índice H’) se daba en los pastos arbustivos con gestión extensiva. Los especialistas en zonas arbustivas se veían afectados positivamente por la cubierta arbustiva y la gestión extensiva de los pastos, mientras que los especialistas de praderas y bosques no presentaron ninguna respuesta positiva a dichos factores. Nuestra conclusión es que una pequeña proporción de arbustos dentro de los pastos puede ser beneficiosa para las aves de tierras de labrantío, y la gestión sostenible de los pastos podría alcanzarse mediante una mayor flexibilidad de los esquemas agroambientales nacionales. Palabras clave: Esquema agroambiental, Aves de labrantío, Gestión de prados, Hábitats seminaturales, Vegetación arbustiva.Shrubs are widely considered a threat to grassland biodiversity. We investigated the effects of shrub cover and grazing intensity on bird communities in sub–Mediterranean pastures in Bulgaria. The point–count method was used on 80 plots in open (&lt; 10% shrub cover) and shrubby (approx. 20% cover) pastures under either intensive or extensive management (grazing intensity) from 2008 to 2009. We recorded a total of 1,956 observations of birds from 53 species. Main environmental gradients accounting for the bird community pattern were related to vegetation succession and land productivity. Bird species richness was higher in shrubby pastures than in open sites, while no effect was found in respect to total bird abundance. Bird species diversity (i.e. H’ index) was highest in extensive shrubby pastures. Shrubland specialists were positively affected by shrub cover and extensive management of pastures while grassland and woodland specialists showed no significant response to these factors. We conclude that a small proportion of shrubs within pastures may be beneficial for farmland birds and sustainable management of pastures could be achieved by greater flexibility of national agri–environmental schemes. Key words: Agri–environmental scheme, Farmland birds, Grassland management, Semi–natural habitats, Shrubby vegetation

The distributions of the six species constituting the smooth newt species complex (Lissotriton vulgaris sensu lato and L. montandoni) – an addition to the New Atlas of Amphibians and Reptiles of Europe

The ‘smooth newt’, the taxon traditionally referred to as Lissotriton vulgaris, consists of multiple morphologically distinct taxa. Given the uncertainty concerning the validity and rank of these taxa, L. vulgaris sensu lato has often been treated as a single, polytypic species. A recent study, driven by genetic data, proposed to recognize five species, L. graecus, L. kosswigi, L. lantzi, L. schmidtleri and a more restricted L. vulgaris. The Carpathian newt L. montandoni was confirmed to be a closely related sister species. We propose to refer to this collective of six Lissotriton species as the smooth newt or Lissotriton vulgaris species complex. Guided by comprehensive genomic data from throughout the range of the smooth newt species complex we 1) delineate the distribution ranges, 2) provide a distribution database, and 3) produce distribution maps according to the format of the New Atlas of Amphibians and Reptiles of Europe, for the six constituent species. This allows us to 4) highlight regions where more research is needed to determine the position of contact zones

Viral Bcl2s' transmembrane domain interact with host Bcl2 proteins to control cellular apoptosis

Viral control of programmed cell death relies in part on the expression of viral analogs of the B-cell lymphoma 2 (Bcl2) protein known as viral Bcl2s (vBcl2s). vBcl2s control apoptosis by interacting with host pro- and anti-apoptotic members of the Bcl2 family. Here, we show that the carboxyl-terminal hydrophobic region of herpesviral and poxviral vBcl2s can operate as transmembrane domains (TMDs) and participate in their homo-oligomerization. Additionally, we show that the viral TMDs mediate interactions with cellular pro- and anti-apoptotic Bcl2 TMDs within the membrane. Furthermore, these intra-membrane interactions among viral and cellular proteins are necessary to control cell death upon an apoptotic stimulus. Therefore, their inhibition represents a new potential therapy against viral infections, which are characterized by short- and long-term deregulation of programmed cell death

ViromeScan: a new tool for metagenomic viral community profiling

BACKGROUND: Bioinformatics tools available for metagenomic sequencing analysis are principally devoted to the identification of microorganisms populating an ecological niche, but they usually do not consider viruses. Only some software have been designed to profile the viral sequences, however they are not efficient in the characterization of viruses in the context of complex communities, like the intestinal microbiota, containing bacteria, archeabacteria, eukaryotic microorganisms and viruses. In any case, a comprehensive description of the host-microbiota interactions can not ignore the profile of eukaryotic viruses within the virome, as viruses are definitely critical for the regulation of the host immunophenotype. RESULTS: ViromeScan is an innovative metagenomic analysis tool that characterizes the taxonomy of the virome directly from raw data of next-generation sequencing. The tool uses hierarchical databases for eukaryotic viruses to unambiguously assign reads to viral species more accurately and >1000 fold faster than other existing approaches. We validated ViromeScan on synthetic microbial communities and applied it on metagenomic samples of the Human Microbiome Project, providing a sensitive eukaryotic virome profiling of different human body sites. CONCLUSIONS: ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples from reads of other microorganisms. This implies that users can fully characterize the microbiome, including bacteria and viruses, by shotgun metagenomic sequencing followed by different bioinformatic pipelines. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-016-2446-3) contains supplementary material, which is available to authorized users

Bird community patterns in sub– Mediterranean pastures: the effects of shrub cover and grazing intensity. Animal Biodiversity and Conservation

Abstract Bird community patterns in sub-Mediterranean pastures: the effects of shrub cover and grazing intensity.-Shrubs are widely considered a threat to grassland biodiversity. We investigated the effects of shrub cover and grazing intensity on bird communities in sub-Mediterranean pastures in Bulgaria. The point-count method was used on 80 plots in open (&lt; 10% shrub cover) and shrubby (approx. 20% cover) pastures under either intensive or extensive management (grazing intensity) from 2008 to 2009. We recorded a total of 1,956 observations of birds from 53 species. Main environmental gradients accounting for the bird community pattern were related to vegetation succession and land productivity. Bird species richness was higher in shrubby pastures than in open sites, while no effect was found in respect to total bird abundance. Bird species diversity (i.e. H&apos; index) was highest in extensive shrubby pastures. Shrubland specialists were positively affected by shrub cover and extensive management of pastures while grassland and woodland specialists showed no significant response to these factors. We conclude that a small proportion of shrubs within pastures may be beneficial for farmland birds and sustainable management of pastures could be achieved by greater flexibility of national agri-environmental schemes. Key words: Agri-environmental scheme, Farmland birds, Grassland management, Semi-natural habitats, Shrubby vegetation. Resumen Patrones de las comunidades de aves en los pastos submediterráneos: el efecto de la cubierta arbustiva y la intensidad de pastoreo.-Se suele considerar a los arbustos como una amenaza a la biodiversidad de los pastos. Investigamos los efectos de la cubierta arbustiva y la intensidad del pastoreo sobre las comunidades de aves en los pastos submediterráneos de Bulgaria. Se utilizó el método de estaciones de escucha en 80 puntos de registro en pastos abiertos (cubierta arbustiva &lt; 10%) y arbustivos (aproximadamente un 20% de la superficie cubierta), con una gestión de pastoreo tanto intensiva como extensiva desde 2008 a 2009. Registramos un total de 1.956 observaciones de aves pertenecientes a 53 especies distintas. Los gradientes ambientales principales responsables de los patrones de las comunidades de aves se relacionaron con la sucesión de la vegetación y la productividad de la tierra. La riqueza de especies de aves era mayor en los pastos arbustivos que en los lugares abiertos, aunque no se observó efecto alguno con respecto a la abundancia total de aves. La mayor diversidad de especies de aves (índice H&apos;) se daba en los pastos arbustivos con gestión extensiva. Los especialistas en zonas arbustivas se veían afectados positivamente por la cubierta arbustiva y la gestión extensiva de los pastos, mientras que los especialistas de praderas y bosques no presentaron ninguna respuesta positiva a dichos factores. Nuestra conclusión es que una pequeña proporción de arbustos dentro de los pastos puede ser beneficiosa para las aves de tierras de labrantío, y la gestión sostenible de los pastos podría alcanzarse mediante una mayor flexibilidad de los esquemas agroambientales nacionales