A molecular phylogeny of the European nesticid spiders (Nesticidae, Araneae): Implications for their systematics and biogeography

Nesticidae is a small family of spiders with a worldwide distribution that includes 15 genera and 272 described species. Seven genera and 56 species are known from Europe, distributed from the Iberian Peninsula to the Caucasus and the Ural Mountains. Most of these European species are cave dwellers and many of them are troglobites. In this study we present the first molecular phylogeny of the family Nesticidae in Europe with a wide geographical sampling across the continent. In our analysis the European nesticid fauna is well represented, including six genera and 40 of the 56 currently accepted species including the type species of all sampled genera. We have included in the analysis representatives of the North American and Asian fauna to test the monophyly of the European species and the phylogenetic relationships of European lineages. Phylogenetic relationships were reconstructed using maximum likelihood and Bayesian inference. As part of our Bayesian analyses, we also dated the phylogeny using two approaches, one based only on fossil calibrations and one that included an additional biogeographical constraint. Our results show paraphyly of the European nesticids with respect to the Asian and North American taxa. We recover four main lineages within Europe. These four European lineages and all European genera have 100% bootstrap support and high posterior probability support in the BEAST2 analysis. The Typhlonesticus lineage is the earliest branching clade present in Europe and includes seven species, the five currently accepted species plus T. parvus from Bosnia and Herzegovina and T. silvestrii from western North America. The Eastern lineage includes the genus Aituaria and is the sister group of the Asian genera Nesticella and Wraios. The Domitius lineage is likely the sister group of the Central European lineage and spreads over the Iberian and Italian peninsulas. Finally, the Central European lineage includes three genera: Kryptonesticus, distributed from the karstic massifs of the Balkan Peninsula to Turkey, Nesticus with a single synanthropic species N. cellulanus and Carpathonesticus, exclusive to the Carpathian Mountains. With the exception of the genus Typhlonesticus, all European genera show an allopatric distribution (except for the two European synanthropic species). The results obtained in this study together with the revision of the original descriptions, redescriptions, and illustrations, lead us to propose 11 nomenclatural changes (new combinations) concerning the genera Typhlonesticus, Nesticus and Carpathonesticus.

Detection of multiple hypervirulent Klebsiella pneumoniae strains in a New York City hospital through screening of virulence genes

OBJECTIVES

The 'hypervirulent' variant of Klebsiella pneumoniae (hvKp) is a predominant cause of community-acquired pyogenic liver abscess in Asia, and is an emerging pathogen in Western countries. hvKp infections have demonstrated 'metastatic' dissemination in immunocompetent hosts, an unusual mode of infection associated with severe complications. Two cases alerted us to the possible presence of hvKp at our hospital, both involving elderly Hispanic males who presented with recurrent fever, bacteraemia, epigastric pain and liver abscesses/phlegmon, thus prompting an assessment of hvKp prevalence.

METHODS

A surveillance of K. pneumoniae blood, body fluid and wound isolates was conducted using real-time PCR to detect virulence-associated genes (uni-rmpA, iucA and peg344). Positive isolates were further characterized by wzi gene sequencing to determine capsular types (K-type) and by multilocus sequence typing and pulsed-field gel electrophoresis to determine strain relatedness.

RESULTS

Four-hundred and sixty-three K. pneumoniae isolates, derived from 412 blood, 21 body fluids and 30 abdominal wound specimens, were screened over a 3-year period. Isolates included 98 multidrug-resistant strains. Eighteen isolates from 17 patients, including two from the index patient, screened positive for all three virulence genes. Sixteen of 18 positive isolates had K-types associated with hvKp, and isolates from different patients were unrelated strains, indicating likely community acquisition. Of 13 patients with significant morbidity, five died; eight patients had co-existing hepatobiliary disease, and six had diabetes mellitus.

CONCLUSIONS

Multiple strains of hvKp are emerging in New York City and are associated with high mortality relative to multidrug-resistant and classical Klebsiella infections. Co-existing hepatobiliary disease appears to be a potential risk factor for these infections.

Land use and climate change impacts on distribution of plant species of conservation value in Eastern Ghats, India: a simulation study

Effective monitoring of the current status of species distributions and predicting future distributions are very important for conservation practices at the ecosystem and species levels. The human population, land use, and climate are important factors that influence the distributions of species. Even though future simulations have many uncertainties, such studies can provide a means of obtaining species distributions, range shifts, and food production and help mitigation and adaptation planning. Here, we simulate the population, land use/land cover and species distributions in the Eastern Ghats, India. A MaxEnt species distribution model was used to simulate the potential habitats of a group of endemic (28 species found in this region) and rare, endangered, and threatened (RET) (22 species found in this region) plant species on the basis of IPCC AR5 scenarios developed for 2050 and 2070. Simulations of populations in 2050 indicate that they will increase at a rate of 1.12% relative to the base year, 2011. These increases in population create a demand for more land for settlement and food productions. Land use land cover (LULC) simulations show an increase in built-up land from 3665.00 km² in 2015 to 3989.56 km² by 2050. There is a minor increase of 0.04% in the area under agriculture in 2050 compared with 2015. On the other hand, the habitat simulations show that the combined effects of climate and land use change have a greater influence on the decline of potential distributions of species. Climate change and the prevailing rate of LULC change will reduce the extents of the habitats of endemic and RET species (~ 60% and ~ 40%, respectively). The Eastern Ghats have become extensively fragmented due to human activities and have become a hotspot of endemic and RET species loss. Climate and LULC change will enhance the species loss and ecosystem services.

Balancing plant conservation and agricultural production in the Ecuadorian Dry Inter-Andean Valleys

Background

Conserving both biodiversity and ecosystem services is a major goal of the Convention on Biological Diversity. Hotspots for biodiversity in the Andes significantly overlap with areas with dense human populations that sustain their economy through agricultural production. Therefore, developing management forms that reconcile food provisioning services—such as agriculture—with biodiversity conservation must be addressed to avoid social conflicts and to improve conservation in areas where biodiversity co-occurs with other ecosystem services. Here, we present a high-resolution conservation plan for vascular plants and agriculture in the Ecuadorian Dry Inter-Andean Valleys (DIAV) hotspot. Trade-offs in conserving important areas for both biodiversity and agriculture were explored.

Methods

We used a dataset containing 5,685 presence records for 95 plant species occurring in DIAVs, of which 14 species were endemic. We developed habitat suitability maps for the 95 species using Maxent. Prioritization analyses were carried out using a conservation planning framework. We developed three conservation scenarios that selected important areas for: biodiversity only, agriculture only, and for both biodiversity and agriculture combined.

Results

Our conservation planning analyses, capture 33.5% of biodiversity and 11% of agriculture under a scenario solely focused on the conservation of biodiversity. On the other hand, the top 17% fraction of the agriculture only scenario captures 10% of biodiversity and 28% of agriculture. When biodiversity and agriculture were considered in combination, their representation varied according to the importance given to agriculture. The most balanced solution that gives a nearly equal representation of both biodiversity and agriculture, was obtained when agriculture was given a slightly higher importance over biodiversity during the selection process.

Discussion

This is the first evaluation of trade-offs between important areas for biodiversity and agriculture in Ecuadorian DIAV. Our results showed that areas with high agricultural productivity and high biodiversity partly overlapped. Our study suggests that a land-sharing strategy would be appropriate for conserving plant diversity and agriculture in the DIAV. Overall, our study reinforces the idea that friendly practices in agriculture can contribute to biodiversity conservation.

styriaca (Eastern Alps)

BACKGROUND

The Carpathians and the Alps are the largest mountain ranges of the European Alpine System and important centres of endemism. Among the distinctive endemic species of this area is Saxifraga wahlenbergii, a Western Carpathians member of the speciose genus Saxifraga. It was frequently considered a taxonomically isolated Tertiary palaeopolyploid and palaeoendemic, for which the closest relatives could not yet be traced. A recently described narrow endemic of the Eastern Alps, S. styriaca, was hypothesized to be closely related to S. wahlenbergii based on shared presence of peculiar glandular hairs. To elucidate the origin and phylogenetic relationships of both species we studied nuclear and plastid DNA markers based on multiple accessions and analysed the data in a wide taxonomic context. We applied Sanger sequencing, followed by targeted next-generation sequencing (NGS) for a refined analysis of nrITS variants to detect signatures of ancient hybridization. The ITS data were used to estimate divergence times of different lineages using a relaxed molecular clock.

RESULTS

We demonstrate divergent evolutionary histories for the two mountain endemics. For S. wahlenbergii we revealed a complicated hybrid origin. Its maternal parent belongs to a Western Eurasian lineage of high mountain taxa grouped in subsect. Androsaceae and is most likely the widespread S. androsacea. The putative second parent was most likely S. adscendens, which belongs to the distantly related subsect. Tridactylites. While Sanger sequencing of nrITS only showed S. adscendens-related variants in S. wahlenbergii, our NGS screening revealed presence of sequences from both lineages with clear predominance of the paternal over the maternal lineage.

CONCLUSIONS

Saxifraga styriaca was unambiguously assigned to subsect. Androsaceae and is not the sister taxon of S. wahlenbergii. Accordingly, the similarity of the glandular hairs observed in both taxa rests on parallelism and both species do not constitute an example of a close evolutionary link between the floras of the Western Carpathians and Eastern Alps. With the origin of its paternal, S. adscendens-like ITS DNA estimated to ca. 4.7 Ma, S. wahlenbergii is not a relict of the mid-Tertiary climate optimum. Its hybrid origin is much younger and most likely took place in the Pleistocene.

Geophysical upheavals and evolutionary diversification of plant species in the Himalaya

The Himalaya is one of the youngest and the loftiest mountain chains of the world; it is also referred to as the water tower of Asia. The Himalayan region harbors nearly 10,000 plant species constituting approximately 2.5% of the global angiosperm diversity of which over 4,000 are endemics. The present-day Himalayan flora consists of an admixture of immigrant taxa and diversified species over the last 40 million years. The interesting questions about the Himalayan flora discussed here are: how did the Himalaya achieve high endemic plant diversity starting with immigrant taxa and what were the main drivers of this diversity? This contribution aims to answer these questions and raise some more. We review and analyze existing information from diverse areas of earth and climate sciences, palaeobiology and phytogeography to evolve a bio-chronological record of plant species divergence and evolution in the Himalaya. From the analysis we infer the effects of major environmental upheavals on plant diversity in the region. The understanding developed in the following discussion is based on the idea that Himalaya experienced at least five phases of major geophysical upheavals, namely: (i) mega-collision between India and Eurasian plates, (ii) tectonic uplift in phases and progressive landform elevation, (iii) onset of southwest (SW) Indian monsoon, (iv) spurring of arid conditions in Central Asia, and (v) cyclic phases of cooling and warming in the Quaternary. The geophysical upheavals that were potentially disrupting for the ecosystem stability had a key role in providing impetus for biological diversification. The upheavals produced new geophysical environments, new ecological niches, imposed physical and physiological isolation barriers, acted as natural selection sieves and led to the formation of new species. This contribution aims to develop a comprehensive understanding of the plant biodiversity profile of the Himalaya in the context of complex, interconnected and dynamic relationship between earth system processes, climate and plant diversity.

Are species-pairs diverging lineages? A nine-locus analysis uncovers speciation among species-pairs of the Lobaria meridionalis-group (Ascomycota)

In spite of considerable effort to verify the theory of species-pairs, uncertainty still exists about the relationship between sexually or vegetatively reproducing populations of morphologically indistinguishable, sympatric lichen species. The current paper studies putative species-pairs within the Asian Lobaria meridionalis-group, using a nine-locus and time calibrated species-tree approach. Analyses demonstrate that pairs of sexually or vegetatively reproducing lineages split into highly supported monophyletic clades-confirming molecularly the species-pair concept for the L. meridionalis-group. In the broader context of evolution and speciation dynamics in lichenized fungi, this paper attempts to synthesize molecular findings from the last two decades to promote a more modern perception of the species-pair concept. Taxonomically, eight species were found to currently conform to the L. meridionalis-group, which differentiated during the Pliocene and Pleistocene. The coincidence of paleoclimatic events with estimated dates of divergence support a bioclimatic hypothesis for the evolution of species in the L. meridionalis-group, which also explains their current eco-geographic distribution patterns. Greater recognition for species with a long and independent evolutionary history, which merit high conservation priority, will be especially critical for preserving geographically restricted endemics from Southeast Asia, where habitat loss is driving rapid declines.

Avian community characteristics and demographics reveal how conservation value of regenerating tropical dry forest changes with forest age

Expansion of secondary forests following the abandonment of agriculture may have important implications for bird conservation, but few studies have examined the dynamics of this process. We studied bird use of a chronosequence of differently-aged abandoned pastures regenerating to dry forest to better understand how the value of these habitats to birds changes over time. In a five year study on Hispaniola, we recorded 7,315 net captures of 60 species of landbirds in sites that began the study at two, five, 10, and 20 years post-abandonment, and in mature native dry forest. Twenty-five species made up 97% of all net captures. Highest capture rates were in the two youngest sites. These early-successional habitats had many over-wintering Neotropical migrants; among residents, granivores and frugivores predominated. In contrast, both the twenty-year-old and mature forest sites had few migrants, more resident insectivores and omnivorous species, and a greater proportion of endemics. Age and sex ratios, body condition and site persistence suggest early successional sites were sub-optimal for most over-wintering migrants, but habitat improved with age for three migratory species; results for permanent residents varied among species. Remnant trees and understory shrubs in the agroecological matrix likely contributed to avian diversity in regenerating dry forest sites, and proximity to mature forest also likely affected the diversity and abundance of birds in regenerating habitat. Our study shows that regenerating forests do not fully compensate for loss of mature dry forest habitat, even after 24 years of regeneration; natural restoration of complex microhabitats in dry forest sites converted to agriculture may take decades or longer. The highest value of regenerating forests may be as habitat for some over-wintering Neotropical migrants, and in creating a buffer zone that enhances biodiversity conservation by re-integrating these lands into the protected tracts of mature forest needed by the islands more unique and endemic bird species.

The diversity and antibiotic properties of actinobacteria associated with endemic deepwater amphipods of Lake Baikal

The emergence of pathogenic bacteria resistant to antibiotics increases the need for discovery of new effective antimicrobials. Unique habitats such as marine deposits, wetlands and caves or unexplored biological communities are promising sources for the isolation of actinobacteria, which are among the major antibiotic producers. The present study aimed at examining cultivated actinobacteria strains associated with endemic Lake Baikal deepwater amphipods and estimating their antibiotic activity. We isolated 42 actinobacterial strains from crustaceans belonging to Ommatogammarus albinus and Ommatogammarus flavus. To our knowledge, this is the first report describing the isolation and initial characterization of representatives of Micromonospora and Pseudonocardia genera from Baikal deepwater invertebrates. Also, as expected, representatives of the genus Streptomyces were the dominant group among the isolated species. Some correlations could be observed between the number of actinobacterial isolates, the depth of sampling and the source of the strains. Nevertheless, >70% of isolated strains demonstrated antifungal activity. The dereplication analysis of extract of one of the isolated strains resulted in annotation of several known compounds that can help to explain the observed biological activities. The characteristics of ecological niche and lifestyle of deepwater amphipods suggests that the observed associations between crustaceans and isolated actinobacteria are not random and might represent long-term symbiotic interactions.

Avian community structure and habitat use of Polylepis forests along an elevation gradient

Background

As one of the highest forest ecosystems in the world, Polylepis forests are recognized both as center of endemism and diversity along the Andes and as an ecosystem under serious threat from habitat loss, fragmentation, and climate change due to human activities. Effective conservation efforts are limited, in part, by our poor understanding of the ecology and habitat needs of the ecosystem’s flora and fauna.

Methods

In 2014–2015, we studied bird communities and 19 associated local and landscape attributes within five forested glacial valleys within the Cordillera Blanca and Huascaran National Park, Peru. We surveyed birds during the dry (May–August) and wet (January–April) seasons at 130 points distributed along an elevational gradient (3,300–4,700 m) and analyzed our data using Canonical Correspondence Analysis (CCA).

Results

We associated a total of 50 species of birds, including 13 species of high conservation concern, with four basic habitat types: (1) Polylepis sericea forests at low elevations, (2) P. weberbaueri forests at high elevations, (3) Puna grassland and (4) shrublands. Four species of conservation priority (e.g., Microspingus alticola) were strongly associated with large forest patches (∼10-ha) of P. sericea at lower elevations (<3,800 m), whereas another four (e.g., Anairetes alpinus) were associated with less disturbed forests of P. weberbaueri at higher elevations (>4,200 m).

Discussion

Results suggest two key strategies form the cornerstones of conservation efforts: (a) protect large remnant (>10-ha) P. sericea forests at lower elevations and (b) maintain all relicts of P. weberbaueri, irrespective of size, at high elevations (>4,200 m).

Frequent discordance between morphology and mitochondrial DNA in a species group of European water beetles (Coleoptera: Dytiscidae)

The Hydroporus memnonius species group includes both widespread and range restricted diving beetle taxa in the western Palaearctic, some of which have been divided into a number of geographical subspecies. Of these, Hydroporus necopinatus is distributed in the far west of Europe, from central Spain to southern Britain, and has been split into three subspecies, occurring in Iberia (necopinatus sst.), France (robertorum) and England (roni) respectively—the last of these being a rare example of an insect taxon apparently endemic to northern Europe. Here we explore inter-relationships between populations and subspecies of H. necopinatus and related members of the Hydroporus melanarius subgroup, using mitochondrial COI sequence data. We reveal widespread discordance between mitochondrial DNA sequence variation and morphology in areas where H. necopinatus and H. melanarius come into contact, consistent with historical introgressive hybridization between these taxa. In light of this discordance, the lack of clear genetic divergence between H. necopinatus subspecies, and the fact that both robertorum and roni are morphologically intermediate between H. necopinatus sstr. and H. melanarius, we suggest that these taxa may be of hybridogenic origin, rather than representing discrete evolutionary lineages.

New host/parasite record for very rare chewing louse Cuculotogaster arabicus (Clay, 1938) (Phthiraptera: Ischnocera) on endemic mountain partridges of Arabian Peninsula

The endemic avifauna of Arabia is unique and characteristic through the whole region. Little is known about these birds and their ectoparasites. The Arabian partridge Alectoris melanocephala (Rüppell, 1835) and Philby's partridge Alectoris philbyi Lowe, 1934 are two endemic species which are distributed through the Sarawat Mountains in Saudi Arabia and Yemen. Captive breeding population of these birds were examined for chewing lice at the National Wildlife Research Center (NWRC) near Ta'if. Only one rare species of louse, Cuculotogaster arabicus (Clay 1938), was found to infest these birds. The occurrence of such species is considered a first record of the genus Cuculotogaster from Saudi Arabia, and the association of C. arabicus with Philby's partridge is considered a new host/parasite association. The clear diagnostic characters, high definition photos, and drawing of male genitalia are available through this paper.