Effects of hydrogeochemistry on the microbial ecology of terrestrial hot springs.

Temperature, pH, and hydrochemistry of terrestrial hot springs play a critical role in shaping thermal microbial communities. However, the interactions of biotic and abiotic factors at this terrestrial-aquatic interface are still not well understood on a global scale, and the question of how underground events influence microbial communities remains open. To answer this, 11 new samples obtained from the El Tatio geothermal field were analyzed by 16S rRNA amplicon sequencing (V4 region), along with 191 samples from previous publications obtained from the Taupo Volcanic Zone, the Yellowstone Plateau Volcanic Field, and the Eastern Tibetan Plateau, with their temperature, pH, and major ion concentration. Microbial alpha diversity was lower in acid-sulfate waters, and no significant correlations were found with temperature. However, moderate correlations were observed between chemical parameters such as pH (mostly constrained to temperatures below 70°C), SO4 2- and abundances of members of the phyla Armatimonadota, Deinococcota, Chloroflexota, Campilobacterota, and Thermoplasmatota. pH and SO4 2- gradients were explained by phase separation of sulfur-rich hydrothermal fluids and oxidation of reduced sulfur in the steam phase, which were identified as key processes shaping these communities. Ordination and permutational analysis of variance showed that temperature, pH, and major element hydrochemistry explain only 24% of the microbial community structure. Therefore, most of the variance remained unexplained, suggesting that other environmental or biotic factors are also involved and highlighting the environmental complexity of the ecosystem and its great potential to test niche theory ecological associated questions. IMPORTANCE This is the first approach to investigate whether geothermal processes could have an influence on the ecology of thermal microbial communities on a global scale. In addition to temperature and pH, microbial communities are structured by sulfate concentrations, which depends on the tectono-magmatic settings (such as the depth of magmatic chambers) and the local settings (such as the availability of a confining layer separating NaCl waters from steam after phase separation) and the possibility of mixing with more diluted fluids. Comparison of microbial communities from different geothermal areas by homogeneous sequence processing showed that no significant geographic distance decay was detected on the microbial communities according to Bray-Curtis, Jaccard, unweighted, and weighted Unifrac similarity/dissimilarity indices. Instead, an ancient potential divergence in the same taxonomic groups is suggested between globally distant thermal zones.

Altitudinal gradient drives regional and local diversity and composition patterns of epiphyllous bryophytes in ecological refuges.

'Brejos de altitude' is an ecosystem that has been subjected to severe exploitation, leading to an intense reduction in Brazil. Understanding the patterns of bryophyte diversity and composition, particularly of specialized species such as the epiphylls, to anthropic and abiotic variables is crucial for implementing protection measures. We investigated the relationship between composition and diversity of epiphyllous bryophytes and anthropic (edge effects) and abiotic (altitude) variables at local (within each 'Brejo') and regional (set of three 'Brejos') scale. Abiotic and anthropic variables were correlated with alpha and beta diversity (decomposed into species replacement and richness differences) using GLM. Their effects on species composition were evaluated using PERMANOVA. The localities at higher elevations harboured a richer bryoflora and overall beta diversity patterns were associated with altitude and locality, which acted over different scales. Regionally, the contribution of richness differences was limited with increasing altitude. Yet, dissimilarities among localities were associated with richness differences and replacement, denoting the importance of local factors. The composition was explained by local factors interacting with the regional altitudinal gradient. Anthropic activity was significant only when interacting with local factors and altitudinal gradient. Environmental filtering associated with altitude played a more important role in shaping the diversity and composition of epiphyllous bryophytes, at both regional and local scales. Each 'Brejo' acts as an ecological refuge, harbouring part of the whole environmental gradient, and presents a unique floristic composition. Moreover, partitioning beta diversity highlighted the interplay of local and regional forces shaping diversity patterns.

Effects of traditional agroecosystems and grazing areas on amphibian diversity in a region of central Mexico.

Habitat loss or degradation due to land cover change is regarded as one of the main drivers of amphibian decline; therefore, it is imperative to assess the effects of land-cover change on this group of vertebrates. In this study, we analyze changes in alpha and beta diversity of amphibian communities found in five land-cover types: mountain cloud forest, tropical evergreen forest, shade coffee, milpa huasteca, and grazing areas; six samples sites were established for each land-cover type, separated at least one km away. The study was conducted in the northwest part of the state of Hidalgo, in a transition zone between the Sierra Madre Oriental and the Gulf of Mexico, which is a region rich in amphibian species. The results indicate that alpha diversity decreases with loss of canopy cover, this being high in mountain cloud forest, tropical evergreen forest, and Shade coffee, and low in milpa huasteca and grazing areas. The land-cover type with the highest species evenness was found in milpa huasteca and the lowest in. The highest beta diversity was observed among tropical evergreen forest and grazing areas. Mountain cloud forest contains both exclusive species and the highest number of species currently regarded as threatened by national and international conservation assessment systems. In order to preserve amphibian diversity in the study area it is vital to protect the last remnants of native vegetation, especially mountain cloud forest, but also including Shade coffee, since the latter habitat harbors amphibian diversity similar to that found in native forests. Finally, implementation of policies that both reduce Grazing areas and increase their productivity is also necessary, since these highly modified areas turn out to be the ones that affect amphibian diversity the most.

Computational Methods for Human Microbiome Analysis.

As the field of microbiomics advances, the burden of computational work that scientists need to perform in order to extract biological insight has grown accordingly. Likewise, while human microbiome analyses are increasingly shifting toward a greater integration of various high-throughput data types, a core number of methods form the basis of nearly every study. In this unit, we present step-by-step protocols for five core stages of human microbiome research. The protocols presented in this unit provide a base case for human microbiome analysis, complete with sufficient detail for researchers to tailor certain aspects of the protocols to the specificities of their data. © 2017 by John Wiley & Sons, Inc.

Evaluación de la diversidad en comunidades de tardígrados (Ecdysozoa: Tardigrada) en hábitats urbano y rural de la ciudad de Salta (Argentina) / Diversity assessment in tardigrades communities (Ecdysozoa, Tardigrada) in urban and rural habitats of the city of Salta (Argentina)

Este trabajo se realizó bajo la hipótesis de que existe una pérdida creciente de diversidad en las comunidades de tardígrados, desde las áreas rurales hacia las urbanas, incrementando la homogenización de sus comunidades producto de la urbanización. Para la ciudad de Salta, se tomaron muestras en áreas con tránsito vehicular alto y muestras en áreas rurales circundantes. Se identificaron en total ocho especies/morfoespecies. El inventario tuvo una completitud mayor al 94%. La comunidad rural fue más diversa y estructuralmente más uniforme que la comunidad urbana. Macrobiotus hufelandi Schultze, 1834 resultó especie indicadora y Milnesium sp. como detectora para el hábitat urbano, mientras que Paramacrobiotus areolatus Murray, 1907 resultó indicadora para el hábitat rural.

This work was carried out under the hypothesis that there is a growing loss of diversity in communities of tardigrades, from rural to urban areas, increasing the homogenization of its communities due to the urbanization. Samples were taken from the city of Salta in areas with high vehicular traffic and samples in surrounding rural areas. We identified a total of eight species/morphospecies. The inventory completeness was greater than 94%. The rural community was more diverse and structurally more uniform compared with the urban one, shown that both communities were different. Macrobiotus hufelandi Schultze, 1834 results as an indicator species, and Milnesium sp. as detector species from urban habitat; meanwhile Paramacrobiotus areolatus Murray 1907 was an indicator species for rural areas.

Evaluación de la diversidad en comunidades de tardígrados (Ecdysozoa: Tardigrada) en hábitats urbano y rural de la ciudad de Salta (Argentina)

RESÚMEN Este trabajo se realizó bajo la hipótesis de que existe una pérdida creciente de diversidad en las comunidades de tardígrados, desde las áreas rurales hacia las urbanas, incrementando la homogenización de sus comunidades producto de la urbanización. Para la ciudad de Salta, se tomaron muestras en áreas con tránsito vehicular alto y muestras en áreas rurales circundantes. Se identificaron en total ocho especies/morfoespecies. El inventario tuvo una completitud mayor al 94%. La comunidad rural fue más diversa y estructuralmente más uniforme que la comunidad urbana. Macrobiotus hufelandi Schultze, 1834 resultó especie indicadora y Milnesium sp. como detectora para el hábitat urbano, mientras que Paramacrobiotus areolatus Murray, 1907 resultó indicadora para el hábitat rural.

ABSTRACT This work was carried out under the hypothesis that there is a growing loss of diversity in communities of tardigrades, from rural to urban areas, increasing the homogenization of its communities due to the urbanization. Samples were taken from the city of Salta in areas with high vehicular traffic and samples in surrounding rural areas. We identified a total of eight species/morphospecies. The inventory completeness was greater than 94%. The rural community was more diverse and structurally more uniform compared with the urban one, shown that both communities were different. Macrobiotus hufelandi Schultze, 1834 results as an indicator species, and Milnesium sp. as detector species from urban habitat; meanwhile Paramacrobiotus areolatus Murray 1907 was an indicator species for rural areas.

Evaluación de la diversidad en comunidades de tardígrados (Ecdysozoa: Tardigrada) en hábitats urbano y rural de la ciudad de Salta (Argentina) / Diversity assessment in tardigrades communities (Ecdysozoa, Tardigrada) in urban and rural habitats of the city of Salta (Argentina)

Este trabajo se realizó bajo la hipótesis de que existe una pérdida creciente de diversidad en las comunidades de tardígrados, desde las áreas rurales hacia las urbanas, incrementando la homogenización de sus comunidades producto de la urbanización. Para la ciudad de Salta, se tomaron muestras en áreas con tránsito vehicular alto y muestras en áreas rurales circundantes. Se identificaron en total ocho especies/morfoespecies. El inventario tuvo una completitud mayor al 94%. La comunidad rural fue más diversa y estructuralmente más uniforme que la comunidad urbana. Macrobiotus hufelandi Schultze, 1834 resultó especie indicadora y Milnesium sp. como detectora para el hábitat urbano, mientras que Paramacrobiotus areolatus Murray, 1907 resultó indicadora para el hábitat rural.(AU)

This work was carried out under the hypothesis that there is a growing loss of diversity in communities of tardigrades, from rural to urban areas, increasing the homogenization of its communities due to the urbanization. Samples were taken from the city of Salta in areas with high vehicular traffic and samples in surrounding rural areas. We identified a total of eight species/morphospecies. The inventory completeness was greater than 94%. The rural community was more diverse and structurally more uniform compared with the urban one, shown that both communities were different. Macrobiotus hufelandi Schultze, 1834 results as an indicator species, and Milnesium sp. as detector species from urban habitat; meanwhile Paramacrobiotus areolatus Murray 1907 was an indicator species for rural areas.(AU)

Diversidad alfa y beta de la comunidad de reptiles en el complejo cenagoso de Zapatosa, Colombia

Alfa and beta diversity of reptilian assemblages in Zapatosa wetland complex, Colombia. Diversity is a property of community that can described, characterized, and understood according to the functioning of ecosystems. To study the richness and local abundance and species replacement between habitats around the Zapatosa’s wetland complex (El Cesar Department), I carried out four field trips between November of 2006 and October of 2007. A total of 640 sampling hours/man analyzed five habitat types chasmophyte forest, dry forest, riparian forest, palm-grove and tree-lined savanna; with the exception of the palm-grove sampled at its 75%, the others were sampled up to their 80%. I found 847 reptiles that were distributed in 48 species. The group with the highest number of species was Colubridae with 14, followed by Gekkonidae with five. Five endemic species and eight with some conservation threat grade at a national level a re reported. The riparian forest was the richest and most abundant habitat with 34 species and 196 individuals. For each habitat, Colubridae had the highest number of species, followed by the families Polychrotidae, Gekkonidae and Teiidae, in that order. The reptile species composition was not different between the tree-lined savanna and the chasmophyte forest, but differed among the tree-lined savanna and the riparian forest, palm-grove and dry forest habitats. The most important differences in the species composition among almost all the habitats were influenced by the species Anolis tropidogaster and Gonatodes albogularis, and the higher occurrence of Stenocercus erythrogaster in the chasmophyte forest. The species replacement had an average value of 50%; the biggest amounts of shared species were the lizards, while the snake Leptodeira septentrionalis was the only one present in all habitat types. The forest grows-among-rocks showed the biggest complementarity and number of unique species compared to the other ...

La diversidad es una propiedad de las comunidades, permite describir, caracterizar y entender el funcionamiento de los ecosistemas. Para estudiar la riqueza, abundancia y el recambio de especies de reptiles entre hábitats circundantes al complejo cenagoso de Zapatosa, se realizaron cuatro salidas de campo (noviembre de 2006 y octubre de 2007). Se invirtieron 640h/hombre de muestreo repartido en cinco tipos de hábitat: bosque casmófito, bosque seco, bosque de ribera, palmar y sabana arbolada. Se encontraron 847 individuos de 48 especies, la familia más rica fue Colubridae, se registraron cinco especies endémicas y ocho con algún grado de amenaza en conservación a nivel nacional. El hábitat más diverso fue el bosque de ribera. La representatividad del muestreo en total y para cada hábitat fue superior al 80%, con excepción del palmar (<75%). La composición de especies fue diferente entre la sabana arbolada y los hábitats bosque de ribera, palmar y bosque seco. El recambio promedio de especies fue del 50%. El bosque casmófito mostró la mayor complementariedad y número de especies únicas. El complejo cenagoso presentó 2/3 de los reptiles registrados hasta hoy para la región Caribe y más del 80% de los encontrados para el departamento del Cesar.

Bromeliads as biodiversity amplifiers and habitat segregation of spider communities in a Neotropical rainforest

Although bromeliads can be important in the organization of invertebrate communities in Neotropical forests, few studies support this assumption. Bromeliads possess a three-dimensional architecture and rosette grouped leaves that provide associated animals with a good place for foraging, reproduction and egg laying, as well as shelter against desiccation and natural enemies. We collected spiders from an area of the Atlantic Rainforest, southeastern Brazil, through manual inspection in bromeliads, beating trays in herbaceousshrubby vegetation and pitfall traps in the soil, to test if: 1) species subsets that make up the Neotropical forest spider community are compartmentalized into different habitat types (i.e., bromeliads, vegetation and ground), and 2) bromeliads are important elements that structure spider communities because they generate different patterns of abundance distributions and species composition, and thus amplify spider beta diversity. Subsets of spider species were compartmentalized into three habitat types. The presence of bromeliads represented 41 of the increase in total spider richness, and contributed most to explaining the high beta diversity values among habitats. Patterns of abundance distribution of the spider community differed among habitats. These results indicate that bromeliads are key elements in structuring the spider community and highlight the importance of Bromeliaceae as biodiversity amplifiers in Neotropical ecosystems.