Life-history and diet of two populations of Natrix maura (Reptilia, Colubridae) from contrasted habitats in Sardinia

Aspects of general ecology and population biology of two populations of freeliving viperine snakes (Natrix maura) were studied in Mediterranean localities of the island of Sardinia (Thyrrenian Sea, Italy). The apparent adult sex-ratio was not significantly different from equality, but males were slightly more numerous than females. The diet consisted mainly of arnphibians, both adults and tadpoles (area A) or fish (area B). Females were significantly longer than males. Reproduction was yearly, and clutch size and female total length were positively correlated. A hundred and seven live offsprings were obtained from 135 eggs (79.2% of successful incubation rates). The proportion of unsuccessful incubation was not significantly correlated with either female total length or clutch size. There was no evidence of a trade-off between clutch size and offspring size, as hatchlings were no smaller in clutches that were unusually large in relation to maternal body size. Oviposition date was correlated with neither maternal length nor clutch size. lncubation period was significantly correlated with mean hatchling size, but not with either clutch size or maternal length. No female died after oviposition, thus suggesting a very low incidence of mortality rates dueto starvation and reproductive costs. A case of long-term sperm storage deriving from autumnal mating is described. Population size estimates are provided for both study areas. Key words: Natrix maura, Ecology, Mediterranean region, Sardinia.Aspects of general ecology and population biology of two populations of freeliving viperine snakes (Natrix maura) were studied in Mediterranean localities of the island of Sardinia (Thyrrenian Sea, Italy). The apparent adult sex-ratio was not significantly different from equality, but males were slightly more numerous than females. The diet consisted mainly of arnphibians, both adults and tadpoles (area A) or fish (area B). Females were significantly longer than males. Reproduction was yearly, and clutch size and female total length were positively correlated. A hundred and seven live offsprings were obtained from 135 eggs (79.2% of successful incubation rates). The proportion of unsuccessful incubation was not significantly correlated with either female total length or clutch size. There was no evidence of a trade-off between clutch size and offspring size, as hatchlings were no smaller in clutches that were unusually large in relation to maternal body size. Oviposition date was correlated with neither maternal length nor clutch size. lncubation period was significantly correlated with mean hatchling size, but not with either clutch size or maternal length. No female died after oviposition, thus suggesting a very low incidence of mortality rates dueto starvation and reproductive costs. A case of long-term sperm storage deriving from autumnal mating is described. Population size estimates are provided for both study areas. Key words: Natrix maura, Ecology, Mediterranean region, Sardinia.Aspects of general ecology and population biology of two populations of freeliving viperine snakes (Natrix maura) were studied in Mediterranean localities of the island of Sardinia (Thyrrenian Sea, Italy). The apparent adult sex-ratio was not significantly different from equality, but males were slightly more numerous than females. The diet consisted mainly of arnphibians, both adults and tadpoles (area A) or fish (area B). Females were significantly longer than males. Reproduction was yearly, and clutch size and female total length were positively correlated. A hundred and seven live offsprings were obtained from 135 eggs (79.2% of successful incubation rates). The proportion of unsuccessful incubation was not significantly correlated with either female total length or clutch size. There was no evidence of a trade-off between clutch size and offspring size, as hatchlings were no smaller in clutches that were unusually large in relation to maternal body size. Oviposition date was correlated with neither maternal length nor clutch size. lncubation period was significantly correlated with mean hatchling size, but not with either clutch size or maternal length. No female died after oviposition, thus suggesting a very low incidence of mortality rates dueto starvation and reproductive costs. A case of long-term sperm storage deriving from autumnal mating is described. Population size estimates are provided for both study areas. Key words: Natrix maura, Ecology, Mediterranean region, Sardinia

Analysis of nucleotide diversity of NAT2 coding region reveals homogeneity across Native American populations and high intra-population diversity.

N-acetyltransferase 2 (NAT2), an important enzyme in clinical pharmacology, metabolizes antibiotics such as isoniazid and sulfamethoxazole, and catalyzes the transformation of aromatic and heterocyclic amines from the environment and diet into carcinogenic intermediates. Polymorphisms in NAT2 account for variability in the acetylator phenotype and the pharmacokinetics of metabolized drugs. Native Americans, settled in rural areas and large cities of Latin America, are under-represented in pharmacogenetics studies; therefore, we sequenced the coding region of NAT2 in 456 chromosomes from 13 populations from the Americas, and two from Siberia, detecting nine substitutions and 11 haplotypes. Variants *4 (37%), *5B (23%) and *7B (24%) showed high frequencies. Average frequencies of fast, intermediate and slow acetylators across Native Americans were 18, 56 and 25%, respectively. NAT2 intra-population genetic diversity for Native Americans is higher than East Asians and similar to the rest of the world, and NAT2 variants are homogeneously distributed across native populations of the continent

Best practices: in the 21st century, taxonomic decisions in herpetology are acceptable only when supported by a body of evidence and published via peer-review

This paper was written by nine authors from five continents, and supported by a further 80 academics and many major herpetological societies including the World Congress of Herpetology, in reaction to burgeoning number of species descriptions being published in herpetology by a small number of individuals through their own self-published "journals" which lack any peer-review

Inferring Signatures of Positive Selection in Whole-Genome Sequencing Data: An Overview of Haplotype-Based Methods

Signatures of positive selection in the genome are a characteristic mark of adaptation that can reveal an ongoing, recent, or ancient response to environmental change throughout the evolution of a population. New sources of food, climate conditions, and exposure to pathogens are only some of the possible sources of selective pressure, and the rise of advantageous genetic variants is a crucial determinant of survival and reproduction. In this context, the ability to detect these signatures of selection may pinpoint genetic variants that are responsible for a significant change in gene regulation, gene expression, or protein synthesis, structure, and function. This review focuses on statistical methods that take advantage of linkage disequilibrium and haplotype determination to reveal signatures of positive selection in whole-genome sequencing data, showing that they emerge from different descriptions of the same underlying event. Moreover, considerations are provided around the application of these statistics to different species, their suitability for ancient DNA, and the usefulness of discovering variants under selection for biomedicine and public health in an evolutionary medicine framework

Human pangenomics: promises and challenges of a distributed genomic reference

A pangenome is a collection of the common and unique genomes that are present in a given species. It combines the genetic information of all the genomes sampled, resulting in a large and diverse range of genetic material. Pangenomic analysis offers several advantages compared to traditional genomic research. For example, a pangenome is not bound by the physical constraints of a single genome, so it can capture more genetic variability. Thanks to the introduction of the concept of pangenome, it is possible to use exceedingly detailed sequence data to study the evolutionary history of two different species, or how populations within a species differ genetically. In the wake of the Human Pangenome Project, this review aims at discussing the advantages of the pangenome around human genetic variation, which are then framed around how pangenomic data can inform population genetics, phylogenetics, and public health policy by providing insights into the genetic basis of diseases or determining personalized treatments, targeting the specific genetic profile of an individual. Moreover, technical limitations, ethical concerns, and legal considerations are discussed

Gut microbiome of the Hadza hunter-gatherers

Human gut microbiota directly influences health and provides an extra means of adaptive potential to different lifestyles. To explore variation in gut microbiota and to understand how these bacteria may have co-evolved with humans, here we investigate the phylogenetic diversity and metabolite production of the gut microbiota from a community of human hunter-gatherers, the Hadza of Tanzania. We show that the Hadza have higher levels of microbial richness and biodiversity than Italian urban controls. Further comparisons with two rural farming African groups illustrate other features unique to Hadza that can be linked to a foraging lifestyle. These include absence of Bifidobacterium and differences in microbial composition between the sexes that probably reflect sexual division of labour. Furthermore, enrichment in Prevotella, Treponema and unclassified Bacteroidetes, as well as a peculiar arrangement of Clostridiales taxa, may enhance the Hadza’s ability to digest and extract valuable nutrition from fibrous plant foods

The genetic variability of APOE in different human populations and its implications for longevity

Human longevity is a complex phenotype resulting from the combinations of context-dependent gene-environment interactions that require analysis as a dynamic process in a cohesive ecological and evolutionary framework. Genome-wide association (GWAS) and whole-genome sequencing (WGS) studies on centenarians pointed toward the inclusion of the apolipoprotein E (APOE) polymorphisms \u3b52 and \u3b54, as implicated in the attainment of extreme longevity, which refers to their effect in age-related Alzheimer\u2019s disease (AD) and cardiovascular disease (CVD). In this case, the available literature on APOE and its involvement in longevity is described according to an anthropological and population genetics perspective. This aims to highlight the evolutionary history of this gene, how its participation in several biological pathways relates to human longevity, and which evolutionary dynamics may have shaped the distribution of APOE haplotypes across the globe. Its potential adaptive role will be described along with implications for the study of longevity in different human groups. This review also presents an updated overview of the worldwide distribution of APOE alleles based on modern day data from public databases and ancient DNA samples retrieved from literature in the attempt to understand the spatial and temporal frame in which present-day patterns of APOE variation evolved

Between Andes and Amazon: The genetic profile of the Arawak-speaking Yanesha

The Yanesha are a Peruvian population who inhabit an environment transitional between the Andes and Amazonia. They present cultural traits characteristic of both regions, including in the language they speak: Yanesha belongs to the Arawak language family (which very likely originated in the Amazon/Orinoco lowlands), but has been strongly influenced by Quechua, the most widespread language family of the Andes. Given their location and cultural make-up, the Yanesha make for an ideal case study for investigating language and population dynamics across the Andes-Amazonia divide. In this study, we analyze data from high and mid-altitude Yanesha villages, both Y chromosome (17 STRs and 16 SNPs diagnostic for assigning haplogroups) and mtDNA data (control region sequences and 3 SNPs and one INDEL diagnostic for assigning haplogroups). We uncover sex-biased genetic trends that probably arose in different stages: first, a male-biased gene flow from Andean regions, genetically consistent with highland Quechua-speakers and probably dating back to Inca expansion; and second, traces of European contact consistent with Y chromosome lineages from Italy and Tyrol, in line with historically documented migrations. Most research in the history, archaeology and linguistics of South America has long been characterized by perceptions of a sharp divide between the Andes and Amazonia; our results serve as a clear case-study confirming demographic flows across that \u2018divide\u2019