Genome-wide association study of Helicobacter pylori serological status in Latin American children.

BACKGROUND: Few genome-wide association studies (GWAS) on Helicobacter pylori infection susceptibility have been conducted for admixed populations from developing countries. Here, we performed a GWAS to identify genetic factors associated with H. pylori serostatus in a cohort of admixed children from a large Latin American urban center. METHODS: A cross-sectional study involving 1161 children from 4 to 11 years old living in poor areas of Salvador, in northeastern Brazil. Logistic regression analysis was performed to detect associations between single-nucleotide variants (SNVs) and H. pylori seropositivity, assuming an additive genetic model. Enrichment analyses were conducted using the MAGMA v1.10 software. RESULTS: We found 22 SNVs to be suggestively associated (p < 10-5 ) with H. pylori seropositivity. The most suggestive SNV was the rs77955022 (p = 4.83e-07) located in an intronic region of EXOC3 at 5p15.33. The second most suggestively associated SNV was rs10914996 (p = 8.97e-07), located in an intergenic region at 1p34.3. Furthermore, we were able to replicate three SNVs (p < 0.05) in the Study of Health in Pomerania (SHIP) cohort: the rs2339212 and rs4795970, both located at 17q12 near TMEM132E, as well as the rs6595814, an intronic variant of FBN2 at 5q23.3. The enrichment analysis indicated the participation of genes and metabolic pathways related to the regulation of the digestive system and gastric acid secretion in the risk of seropositivity for H. pylori. CONCLUSIONS: Additional studies are required to validate these association findings in larger population samples and to get insight into the underlying physiological mechanisms.

The urban contrast: A nationwide assessment of avian diversity in Mexican cities.

In this study we focused on urban bird diversity across Mexico, a megadiverse country, with a special focus on the relative role of urban greenspaces and heavily-built sites. We considered a country-wide approach, including 24 different sized Mexican cities. Our aims were to describe the urban bird diversity in focal cities and further assess the relationships between it and the biogeographic region where cities are located, their size, elevation, and annual rainfall. Additionally, we evaluated differences in the functional composition of bird communities in both studied urban scenarios (i.e., urban greenspaces, heavily-built sites). Our results confirm that urban greenspaces are home to a large proportion of species when contrasted with heavily-built sites. While total species richness and species richness of greenspaces were related with the cities' biogeographic region -with higher species richness in the Neotropical region and Transition Zone-, the relationship did not hold true in heavily-built sites. We found that annual rainfall was negatively related to bird richness in heavily-built sites, suggesting that species from arid systems can be more tolerant to urbanization. Regarding the bird functional group assessment, results show a clear differentiation between the functional groups of greenspaces and those of heavily-built sites, with granivores and omnivores associated with the latter and a highly diverse array of functional groups associated with urban greenspaces.

[Ecological indicators of habitat and biodiversity in a Neotropical landscape: multitaxonomic perspective]. / Indicadores ecológicos de hábitat y biodiversidad en un paisaje neotropical: perspectiva multitaxonómica.

Ecological indicators of habitat and biodiversity in a Neotropical landscape: multitaxonomic perspective. The use of indicator species to characterize specific ecological areas is of high importance in conservation/restoration biology. The objective of this study was to identify indicator species of diverse taxa that characterize different landscape units, and to better understand how management alters species composition. We identified two ecomosaics, tropical rain forest and the agricultural matrix, each one comprised of four landscape units. The taxonomic groups studied included birds (highly mobile), butterflies (moderately mobile), terrestrial gastropods (less mobile) and trees (sessile). Sampling efficiency for both ecomosaics was > or = 86%. We found 50 mollusks, 74 butterflies, 218 birds and 172 tree species, for a total of 514 species. Using ordination and cluster analysis, we distinguished three habitat types in the landscape: tropical rainforest, secondary vegetation and pastures with scattered trees and live fences. The InVal (> or = 50%) method identified 107 indicator species, including 45 tree species, 38 birds, 14 butterflies and 10 gastropods. Of these, 35 trees, 10 birds, four butterflies and eight gastropods were forest indicators. Additionally, 10, 28, 10 and two species, respectively per group, were characteristic of the agricultural matrix. Our results revealed a pattern of diversity decrease of indicator species along the rainforest-secondary forest-pasture gradient. In the forest, the gastropods Carychium exiguum, Coelocentrum turris, Glyphyalinia aff. indentata y Helicina oweniana were significantly correlated (p < 0.05) with 90% of the other groups of flora and fauna indicator species. These findings suggest that gastropods may be good indicators of forest habitat quality and biodiversity. The secondary vegetation is an intermediate disturbance phase that fosters high diversity in the agricultural matrix. We exemplify a multitaxa approach, including mesofauna, for ecological monitoring of agricultural landscapes.

Indicadores ecológicos de hábitat y biodiversidad en un paisaje neotropical: perspectiva multitaxonómica

Ecological indicators of habitat and biodiversity in a Neotropical landscape: multitaxonomic perspective. The use of indicator species to characterize specific ecological areas is of high importance in conservation/ restoration biology. The objective of this study was to identify indicator species of diverse taxa that characterize different landscape units, and to better understand how management alters species composition. We identified two ecomosaics, tropical rain forest and the agricultural matrix, each one comprised of four landscape units. The taxonomic groups studied included birds (highly mobile), butterflies (moderately mobile), terrestrial gastropods (less mobile) and trees (sessile). Sampling efficiency for both ecomosaics was ≥86%. We found 50 mollusks, 74 butterflies, 218 birds and 172 tree species, for a total of 514 species. Using ordination and cluster analysis, we distinguished three habitat types in the landscape: tropical rainforest, secondary vegetation and pastures with scattered trees and live fences. The InVal (≥50%) method identified 107 indicator species, including 45 tree species, 38 birds, 14 butterflies and 10 gastropods. Of these, 35 trees, 10 birds, four butterflies and eight gastropods were forest indicators. Additionally, 10, 28, 10 and two species, respectively per group, were characteristic of the agricultural matrix. Our results revealed a pattern of diversity decrease of indicator species along the rainforest-secondary forest-pasture gradient. in the forest, the gastropods Carychium exiguum, Coelocentrum turris, Glyphyalinia aff. indentata y Helicina oweniana were significantly correlated (p<0.05) with 90% of the other groups of flora and fauna indicator species. These findings suggest that gastropods may be good indicators of forest habitat quality and biodiversity. The secondary vegetation is an intermediate disturbance phase that fosters high diversity in the agricultural matrix. We exemplify a multitaxa approach, including mesofauna, for ecological monitoring of agricultural landscapes. Rev. Biol. Trop. 59 (3): 1433-1451. Epub 2011 September 01.

El uso de especies indicadoras para caracterizar unidades ecológicas específicas es de gran importancia en la biología de la conservación/restauración. El objetivo del estudio fue identificar desde una perspectiva multitaxonómica, las especies que caracterizan distintas unidades de un paisaje. Así, se diferenciaron dos ecomosaicos: bosque tropical lluvioso y matriz agropecuaria con cuatro unidades de paisaje cada uno. Se incluyeron cuatro grupos biológicos: aves (muy móviles), mariposas frugívoras diurnas (moderadamente móviles), gasterópodos terrestres (poco móviles) y árboles (sésiles). La eficiencia de muestreo en los ecomosaicos fue ≥86%. Se registraron 50 especies de moluscos, 74 de mariposas, 218 de aves y 172 de árboles, totalizando 514 especies. Mediante ordenamiento y agrupamiento, se diferenciaron tres tipos de hábitats: bosque tropical lluvioso, vegetación secundaria y potreros con árboles. Aplicando el método InVal (≥50%), se identificaron 107 especies indicadoras, de las cuales 45 fueron árboles, 38 aves, 14 mariposas y diez gasterópodos. De éstas, 35 especies de árboles, diez de aves, cuatro de mariposas y ocho de gasterópodos son indicadoras del bosque. Diez, veintiocho, diez y dos especies (de cada grupo respectivamente) caracterizaron a la matriz agropecuaria. En el bosque, los gasterópodos Carychium exiguum, Coelocentrum turris, Glyphyalinia aff. indentata y Helicina oweniana se correlacionaron significativamente (p<0.05) con 90% de las especies indicadoras. Estos gasterópodos pueden, además de diferenciar la calidad del hábitat, ser indicadoras de la biodiversidad del bosque. La vegetación secundaria representó una fase intermedia de perturbación que propicia alta riqueza en la matriz agropecuaria. De manera que se aporta una perspectiva multitaxonómica que incluye el papel de la mesofauna en el monitoreo ecológico de agropaisajes.