Understudied Region Research Articles

Unlocking environmental archives in the Arctic—insights from modern diatom-environment relationships in lakes and ponds across Greenland

Given the current rate of Arctic warming, the associated ecological changes need to be put into a longer-term context of natural variability. Palaeolimnology offers tools to explore archives stored in the sediments of Arctic lakes and ponds. The interpretation of these archives requires a sound knowledge of the ecology and distribution of the sedimentary proxy organisms used. Here we explored the relationship between diatoms, a widely used proxy group of siliceous algae, and the environmental drivers defining their assemblages and diversity in 115 lakes and ponds in Greenland, a markedly understudied arctic region covering extensive climate and environmental gradients. The main environmental drivers of diatom communities were related to climate and lake ontogeny, including both measured and unmeasured (spatially structured) environmental variables. The lakes and ponds in the northern study regions showed a distinctive dominance of small benthic fragilarioid species, while diatom communities in the South(west) of Greenland were more varied, including many epiphytes, owing to the longer growing season and higher habitat diversity of these lakes and ponds. The newly established lakes in the Ilulissat region host markedly different communities compared to all other sites. Species diversity followed an overall clear latitudinal decline towards the North. Despite the large distances between our study regions, diatom dispersal appeared not to be limited. Based on our results, diatoms are an excellent proxy for climate-mediated lake ecosystem change in the Arctic and thus a valuable tool for climate reconstructions in the region. Particular consideration should be given to often unmeasured climate-related drivers, such as in-lake habitat availability, due to their apparent importance in defining Arctic diatom communities.

High readership on academic social platforms could poorly reflect conservation interest

AbstractSocial media are being used increasingly by the science community to share research output with a wide audience and to seek feedback. They are also used as alternatives to the traditional citation-based assessment of the impacts of scientific products and even to inform employment decisions in academia. One of these media platforms, ResearchGate, is a popular application with more than 20 million users who share and discuss scientific products. We report on a remarkably high level of interest in one of our publications on ResearchGate about the Eurasian wild pig Sus scrofa in Iran, a poorly studied species in a conservation priority region. The number of reads of our publication was c. 1,500 times higher than the mean per publication for scientists from a range of American and Asian universities. Comparison with other ResearchGate statistics and reader feedback indicates these reads resulted from data-gathering processes unrelated to the details of the research. Although this raises questions regarding the ability of ResearchGate and similar platforms to measure research interest and impacts reliably, we use the popularity of our article as an opportunity to advocate for conservation research in an understudied region and on an understudied species.

Hatching plasticity in a Southeast Asian tree frog mitigates submergence‐induced mortality

AbstractEnvironmentally cued hatching has been well‐documented in amphibians in response to a wide range of abiotic and biotic factors. The hatching of terrestrial amphibian eggs in response to flooding may be basal within the group, but amphibian lineages in tropical Asia and sub‐Saharan Africa have not received as much attention as their Neotropical counterparts. We investigated submergence‐induced hatching in Feihyla hansenae, a Rhacophorid tree frog with terrestrial eggs. We quantified natural rates of clutch submergence at our study site in Thailand. Using submergence experiments, we found that embryos are capable of hatching early to escape flooding, and that failure to hatch results in mortality. Among the embryos that were able to hatch early, only the earliest, youngest hatchlings experienced a trade‐off in body size that persisted for 6 days, while later, older hatchlings were not significantly smaller than spontaneous hatchlings under control conditions. By incorporating our natural and experimental data into Monte Carlo methods to simulate and compare survival probabilities with and without hatching plasticity, we found an overall 3.1% increase in submergence survival due to hatching plasticity. Our findings support the idea that flooding‐induced hatching is widespread across amphibians with terrestrial eggs and highlight the importance of researching understudied tropical regions. As climate change is projected to affect rainfall patterns, the ability of embryos to escape abiotic egg‐stage threats may be an indicator of species' ability to flexibly navigate a changing environment.

Tracking the emergence of antigenic variants in influenza A virus epidemics in Brazil.

Influenza A virus (IAV) circulation patterns differ in North America and South America, with influenza seasons often characterized by different subtypes and strains. However, South America is relatively undersampled considering the size of its population. To address this gap, we sequenced the complete genomes of 220 IAVs collected between 2009 and 2016 from hospitalized patients in southern Brazil. New genetic drift variants were introduced into southern Brazil each season from a global gene pool, including four H3N2 clades (3c, 3c2, 3c3, and 3c2a) and five H1N1pdm clades (clades 6, 7, 6b, 6c, and 6b1). In 2016, H1N1pdm viruses belonging to a new 6b1 clade caused a severe influenza epidemic in southern Brazil that arrived early and spread rapidly, peaking mid-autumn. Inhibition assays showed that the A/California/07/2009(H1N1) vaccine strain did not protect well against 6b1 viruses. Phylogenetically, most 6b1 sequences that circulated in southern Brazil belong to a single transmission cluster that rapidly diffused across susceptible populations, leading to the highest levels of influenza hospitalization and mortality seen since the 2009 pandemic. Continuous genomic surveillance is needed to monitor rapidly evolving IAVs for vaccine strain selection and understand their epidemiological impact in understudied regions.

Advances in Simulating the Global Spatial Heterogeneity of Air Quality and Source Sector Contributions: Insights into the Global South.

High-resolution simulations are essential to resolve fine-scale air pollution patterns due to localized emissions, nonlinear chemical feedbacks, and complex meteorology. However, high-resolution global simulations of air quality remain rare, especially of the Global South. Here, we exploit recent developments to the GEOS-Chem model in its high-performance implementation to conduct 1-year simulations in 2015 at cubed-sphere C360 (∼25 km) and C48 (∼200 km) resolutions. We investigate the resolution dependence of population exposure and sectoral contributions to surface fine particulate matter (PM2.5) and nitrogen dioxide (NO2), focusing on understudied regions. Our results indicate pronounced spatial heterogeneity at high resolution (C360) with large global population-weighted normalized root-mean-square difference (PW-NRMSD) across resolutions for primary (62-126%) and secondary (26-35%) PM2.5 species. Developing regions are more sensitive to spatial resolution resulting from sparse pollution hotspots, with PW-NRMSD for PM2.5 in the Global South (33%), 1.3 times higher than globally. The PW-NRMSD for PM2.5 for discrete southern cities (49%) is substantially higher than for more clustered northern cities (28%). We find that the relative order of sectoral contributions to population exposure depends on simulation resolution, with implications for location-specific air pollution control strategies.

Trends of legacy and emerging organic contaminants in a sediment core from Cienfuegos Bay, Cuba, from 1990 to 2015

Legacy and emerging organic pollutants pose an ever-expanding challenge for the marine environment. This study analysed a dated sediment core from Cienfuegos Bay, Cuba, to assess the occurrence of polychlorinated biphenyls (PCBs), organochlorine pesticides (OCPs), polybrominated diphenyl ethers (PBDEs), alternative halogenated flame retardants (aHFRs), organophosphate esters (OPEs), and phthalates (PAEs) from 1990 to 2015. The results evidence the continuing presence of historical regulated contaminants (PCBs, OCPs, and PBDEs) in the southern basin of Cienfuegos Bay. PCB contamination declined since 2007, likely in response to the gradual global phasing out of PCB containing materials. There have been relatively consistent low accumulation rates for OCPs and PBDEs at this location (in 2015 approximately 1.9 and 0.26ng/cm2/year, respectively, with 2.8ng/cm2/year for Σ6PCBs), with indications of recent local DDT use in response to public health emergencies. In contrast, sharp increases are observed between 2012 and 2015 for the contaminants of emerging concern (PAEs, OPEs, and aHFRs), and in the case of two PAEs (DEHP and DnBP) the concentrations were above the established environmental effect limits for sediment dwelling organisms. These increasing trends reflect the growing global usage of both alternative flame retardants and plasticizer additives. Local drivers for these trends include nearby industrial sources such as a plastic recycling plant, multiple urban waste outfalls, and a cement factory. The limited capacity for solid waste management may also contribute to the high concentrations of emerging contaminants, especially plastic additives. For the most recent year (2015), the accumulation rates for Σ17aHFRs, Σ19PAEs, and Σ17OPEs into sediment at this location were estimated to be 10, 46 000, and 750ng/cm2/year, respectively. This data provides an initial survey of emerging organic contaminants within this understudied region of the world. The increasing temporal trends observed for aHFRs, OPEs, and PAEs highlights the need for further research concerning the rapid influx of these emerging contaminants.

An Eocene leaf flora from the northern Peruvian Andes

The fossil forest known as El Bosque Petrificado Piedra Chamana lies in close proximity to the village of Sexi in the Department of Cajamarca in northern Peru. The forest was deposited in either a lahar or pyroclastic flow, and ashfall deposits, as mineralized wood and leaf impressions 39 million years ago (late Middle Eocene). More than 30 types of non-monocot angiosperms have been described from the fossil wood, which is densely embedded in rock outcrops, scattered across the ground, and occasionally found in situ. Anatomical characteristics and identifications of the woods suggest a seasonally flooded lowland tropical forest with a dry period. This site also preserves a small leaf flora which has not received a full treatment in earlier works and is the focus of the present study. The leaves are described in detail using standard leaf architecture terminology. The flora has 31 non-monocot leaf morphotypes. The presence of more than 30 morphotypes suggests high diversity based on having only ∼210 non-monocot leaf specimens. The leaf collection also includes ∼10 monocot specimens. One of the leaf morphotypes shows similarities to the extant mangrove genus Avicennia, possibly confirming one of the fossil wood identifications. Most of the leaves are incomplete, but when the margin is preserved, it is untoothed. The lack of teeth indicates a warm, tropical climate (estimated mean annual temperature of >25 °C based on leaf margin analysis). Leaves in the collection are small with 28 of 31 morphotypes inferred as microphyll or notophyll in laminar size, providing support for the seasonal dryness indicated by the fossil woods. Despite the small size of the collection, this leaf flora is important to document as there are few Eocene plant macrofossil localities in Peru; it provides some insight into the Cenozoic forests in this understudied region.

Greening on the Bathurst caribou range in northern Canada: are erect shrubs responsible for remotely sensed trends?

Remote sensing has detected recent trends of increased vegetation productivity on the Bathurst caribou herd’s range. The cause of this spectral greening is unknown but is hypothesized to be the result of a change in the composition, establishment, structure, and/or growth of erect deciduous shrubs. We combined field investigation and dendroecology to compare shrubs between areas where productivity has increased (Greening sites) and areas where productivity has remained stable (No Change sites) based on a Moderate Resolution Imaging Spectroradiometer time series for the period from 2000 to 2017. Contrary to expectations, species composition, timing of stem establishment, stem density, stem length, and vertical and diameter growth rates did not differ between the two site types. However, shrub cover was 13% greater at Greening sites and shrubs at No Change sites had 9% more dead stems regardless of the size of the shrub. This suggests that the differences observed remotely are due to a combination of increased foliage production or survival at Greening sites and a dimming of the vegetation index at No Change sites. Our findings offer a population-level validation of specific shrub characteristics contributing to trends in spectral greening in an understudied region of the southern Arctic tundra.

Role of sustainable refurbishment in the perception of quality of life of residential building occupants in Prishtina, Kosovo

PurposeThe aim of this research is to investigate the impact of thermal, acoustic and HVAC upgrades on the perception of the quality of life among residential building occupants.Design/methodology/approachThe present study used a quantitative research approach, utilizing a questionnaire as the research instrument. A survey was conducted with 1,119 residential apartment building occupants in Prishtina, Kosovo, using a stratified random sampling method for selection of participants.FindingsThe present study used quantitative research with a questionnaire as the research instrument. The survey was conducted with 1,119 residential apartment building occupants in Prishtina, Kosovo, using stratified random sampling. The study found that thermal retrofits, acoustic retrofits and HVAC upgrades as a whole model affect the perception of the quality of life of residential building occupants in Prishtina, Kosovo. However, the study found that not all dimensions of the constructed research model (thermal, acoustic and HVAC) affect the perception of the quality of life of residential building occupants. Specifically, thermal retrofitting seems to strongly influence the perception of quality of life, while HVAC upgrades do not seem to have an impact on the quality of life of occupants. Finally, acoustic retrofits also influence the perception of the quality of life, although not to the same degree as thermal retrofitting.Research limitations/implicationsThe present study contributes to understanding the role that thermal retrofits, acoustic retrofits and HVAC upgrades play in the perception of quality of life by building occupants in an understudied region with a booming real estate sector such as Kosovo. The study also highlights the need for further analysis to understand why HVAC upgrades do not seem to influence the perception of quality of life by residential building occupants in Kosovo.Originality/valueThe present study is the first to quantify the impact of thermal, acoustic and HVAC upgrades on the perception of the quality of life of residential building occupants in Prishtina, Kosovo.

A new species of naked-toed gecko Cyrtopodion sensu lato (Squamata: Sauria: Gekkonidae) from Gujarat, India

We describe a new species of naked-toed gecko of the genus Cyrtopodion Fitzinger, 1843, from the Dahod and Panchmahal districts of Gujarat state, India. The new species is diagnosable by the following suite of characters: a medium-sized Cyrtopodion (adult, snout to vent length up to 50 mm); dorsal scalation on trunk granular, intermixed with enlarged, regularly arranged transverse rows of 15 trihedral tubercles; 6 transverse rows of tubercles on the second segment of the tail; midbody scale rows across belly 20-22; midventral scales 89-97; males with a continuous series of 29-33 precloacal-femoral pores. The new species, Cyrtopodion vindhya sp. nov. is the fifth endemic species of reptile described in the last 15 years from the state of Gujarat that highlights the rich and unique diversity of this understudied region.

Walking alone or walking together: A spatial evaluation of children’s travel behavior to school

The purpose of this research is to extend our understanding of children’s walking behavior to school in an understudied region of the world, Istanbul, Turkey. Children (aged 11–17) and their parents were surveyed to comprehend subjective and objective factors on walking behavior to school when alone or with someone. Using participatory mapping and GIS, a route detour index was first created to highlight differences in walking behaviors. A robust spatial analysis, consisting of spatial statistics and a hierarchical spatial error model, then signified important survey responses, urban design factors from space syntax, and neighborhood composition and contextual variables on between-group route choices. Empirical and geovisual analysis confirmed that accompanied children deviated more from GIS shortest routes to school than their unaccompanied peers, and “hot-spot” analysis showed it was dependent on where children reside. The spatial error models exhibited notable relations among route choice, children’s age, health, and gender. Parent attitudes concerning greenspace positively affected children’s longer route choices, while street connectivity had the opposite influence. Surprisingly, neighborhood walkability did not impact children’s route choice decisions for either group. The results provide new insights on how to encourage additional walking trips to school.

Discovery of Avian Paramyxoviruses APMV-1 and APMV-6 in Shorebirds and Waterfowl in Southern Ukraine.

Emerging RNA virus infections are a growing concern among domestic poultry industries due to the severe impact they can have on flock health and economic livelihoods. Avian paramyxoviruses (APMV; avulaviruses, AaV) are pathogenic, negative-sense RNA viruses that cause serious infections in the respiratory and central nervous systems. APMV was detected in multiple avian species during the 2017 wild bird migration season in Ukraine and studied using PCR, virus isolation, and sequencing. Of 4090 wild bird samples collected, mostly from southern Ukraine, eleven isolates were grown in ovo and identified for APMV serotype by hemagglutinin inhibition test as: APMV-1, APMV-4, APMV-6, and APMV-7. To build One Health's capacity to characterize APMV virulence and analyze the potential risks of spillover to immunologically naïve populations, we sequenced virus genomes in veterinary research labs in Ukraine using a nanopore (MinION) platform. RNA was extracted and amplified using a multiplex tiling primer approach to specifically capture full-length APMV-1 (n = 5) and APMV-6 (n = 2) genomes at high read depth. All APMV-1 and APMV-6 fusion (F) proteins possessed a monobasic cleavage site, suggesting these APMVs were likely low virulence, annually circulating strains. Utilization of this low-cost method will identify gaps in viral evolution and circulation in this understudied but important critical region for Eurasia.

Biodiversity surveys of grassland and coastal habitats in 2021 as a documentation of pre-war status in southern Ukraine.

This paper presents two sampling-event datasets with occurrences of vascular plants, bryophytes and lichens collected in May-June 2021 in southern Ukraine. We aimed to collect high-quality biodiversity data in an understudied region and contribute it to international databases and networks. The study was carried out during the 15th Eurasian Dry Grassland Group (EDGG) Field Workshop in southern Ukraine and the Dark Diversity Network (DarkDivNet) sampling in the Kamianska Sich National Nature Park. By chance, these datasets were collected shortly before the major escalation of the Russian invasion in Ukraine. Surveyed areas in Kherson and Mykolaiv Regions, including established monitoring plots, were severely affected by military actions in 2022. Therefore, collected data are of significant value in the context of biodiversity documentation. The knowledge about the biodiversity of this area will help to assess the environmental impact of the war and plan restoration of the damaged or destroyed habitats. The first preliminary analysis of collected data demonstrates the biodiversity richness and conservation value of studied grassland habitats. We provide sampling-event datasets with 7467 occurrences, which represent 708 taxa (vascular plants, bryophytes and lichens) collected in 275 vegetation relevés. Amongst them, vascular plants are represented by 6665 occurrences (610 taxa), lichens - 420 (46) and bryophytes - 381 (51). Several new species were reported for the first time at the national or regional level. In particular, one vascular plant species (Torilispseudonodosa) and two lichen species (Cladoniaconista, Endocarponloscosii) were new to Ukraine. One vascular plant (Stipatirsa), two species of bryophytes (Rhynchostegiummegapolitanum, Ptychostomumtorquescens) and three species of lichens (Cladoniacervicornis, C.symphycarpa, Involucropyreniumbreussi) were recorded for the first time for the Kherson Region. Additionally, these datasets contain occurrences of taxa with narrow distribution, specialists of rare habitat types and, therefore, represented by a low number of occurrences in relevant biodiversity databases and particularly in GBIF. This publication highlights the diversity of natural vegetation and its flora in southern Ukraine and raises conservation concerns.

Sperm whale acoustic ecology investigations using Jeffrey Nystuen‘s Passive Aquatic Listeners

When Jeffrey Nystuen invented the Passive Aquatic Listener (PAL) for quantifying rainfall and wind speed using underwater sound spectra, he considered all biological sounds in the recordings as noise. Using this noise data, I built a doctoral thesis, comprised of three published papers. None of this would have happened without Jeff’s continuous encouragement and support. Here, we present results from analyzing (1) five years (2007–2012) of PAL recordings from Ocean Station PAPA (OSP) in the offshore Gulf of Alaska; and (2) 19 months of PAL data from two sites, Pylos and Athos Stations (in the Hellenic Trench and North Aegean Trough respectively), in the Greek Seas, investigating the acoustic ecology of sperm whales (Physeter macrocephalus). Results of the bioacoustic analysis revealed the year-round presence of sperm whales at OSP and the Ionian Sea, with higher detections during the warm seasons. The sperm whale time series from OSP was correlated with in situ and remotely-sensed oceanographic variables to improve our understanding of global-warming-driven changes in the pelagic ecosystem of the NE Subarctic Pacific. Results from the Hellenic Trench emphasize the risk from increased shipping noise and contribute to the conservation efforts for the small, endangered sperm whale population in an understudied region.

Mapping the Unmapped: Investigating Big Data Companies via Online Sources

Since the 2010s, big data has become a trendy term across government, business, and academia. There is a great deal of ambiguity in the definition of big data and the so-called big data sector it gives rise to. It is thus still debatable what companies can be considered big data firms. Studying such an emerging field and collecting firm-level data through surveys in understudied regions are particularly challenging due to the lack of an established and accessible firm directory. Drawing on a research project on Guizhou, the earliest and most prominent national big data pilot zone in China, this article advances an activity-based approach and advocates a triangulation of methods to identify firms that belong to the big data sector. Corporate information query platforms are used and context-specific solutions are proposed. This article would be of interest to researchers who wish to investigate emerging industries when the target population is vaguely defined and hard to identify.

The manifold role of octapeptide repeats in prion protein assembly.

Prion protein misfolding is associated with fatal neurodegenerative disorders such as kuru, Creutzfeldt-Jakob disease, and several animal encephalopathies. While the C-terminal 106-126 peptide has been well studied for its role in prion replication and toxicity, the octapeptide repeat (OPR) sequence found within the N-terminal domain has been relatively under explored. Recent findings that the OPR has both local and long-range effects on prion protein folding and assembly, as well as its ability to bind and regulate transition metal homeostasis, highlights the important role this understudied region may have in prion pathologies. This review attempts to collate this knowledge to advance a deeper understanding on the varied physiologic and pathologic roles the prion OPR plays, and connect these findings to potential therapeutic modalities focused on OPR-metal binding. Continued study of the OPR will not only elucidate a more complete mechanistic model of prion pathology, but may enhance knowledge on other neurodegenerative processes underlying Alzheimer's, Parkinson's, and Huntington's diseases.

Clinical and Imaging Phenotypes and Outcomes in a Costa Rican Cohort of Acute Ischemic Stroke Survivors: A Retrospective Study.

We characterized clinical and imaging phenotypes and their association with clinical outcomes in acute ischemic stroke (AIS) survivors in the understudied region of Costa Rica. We conducted a retrospective cohort study in AIS patients treated at a tertiary stroke center in Costa Rica from 2011-2015. Participants underwent detailed phenotyping for cardiovascular risk factors and stroke etiology. We assessed the association of ischemic brain lesion features and clinical outcomes using the Oxfordshire Community Stroke Project (OCSP) classification. We included 684 AIS survivors (60.2% males, aged 68.1 ± 13.6 years, mean ± SD). While the cardiovascular risk profiles and mortality rates of our patients were similar to populations in European and North American countries, only 20.2% of patients with atrial fibrillation (AF) received anticoagulation. On multivariable analysis, patients with total anterior circulation infarct (TACI) displayed an increased risk of complications (OR: 4.2; 95% CI: 2.2-7.8; p < 0.001), higher mortality (OR: 6.9; 95% CI: 2.9-16.1; p < 0.001) and lower chance of functional independence at discharge (OR: 8.9; 95% CI: 4.1-19; p < 0.001) compared to non-TACI. The comorbidity of bronchopneumonia increased the probability of death by 14.5 times. Our observations in a Costa Rican cohort of AIS survivors might help improve local measures for preventing and managing AIS.

Species richness of bat flies and their associations with host bats in a subtropical East Asian region

BackgroundUnderstanding the interactions between bat flies and host bats offer us fundamental insights into the coevolutionary and ecological processes in host-parasite relationships. Here, we investigated the identities, host specificity, and patterns of host association of bat flies in a subtropical region in East Asia, which is an understudied region for bat fly research.MethodsWe used both morphological characteristics and DNA barcoding to identify the bat fly species found on 11 cavernicolous bat species from five bat families inhabiting Hong Kong. We first determined the phylogenetic relationships among bat fly species. Then, we elucidated the patterns of bat-bat fly associations and calculated the host specificity of each bat fly species. Furthermore, we assembled the mitogenomes of three bat fly species from two families (Nycteribiidae and Streblidae) to contribute to the limited bat fly genetic resources available.ResultsWe examined 641 individuals of bat flies and found 20 species, of which many appeared to be new to science. Species of Nycteribiidae included five Nycteribia spp., three Penicillidia spp., two Phthiridium spp., one Basilia sp., and one species from a hitherto unknown genus, whereas Streblidae included Brachytarsina amboinensis, three Raymondia spp., and four additional Brachytarsina spp. Our bat-bat fly association network shows that certain closely related bat flies within Nycteribiidae and Streblidae only parasitized host bat species that are phylogenetically more closely related. For example, congenerics of Raymondia only parasitized hosts in Rhinolophus and Hipposideros, which are in two closely related families in Rhinolophoidea, but not other distantly related co-roosting species. A wide spectrum of host specificity of these bat fly species was also revealed, with some bat fly species being strictly monoxenous, e.g. nycteribiid Nycteribia sp. A, Phthiridium sp. A, and streblid Raymondia sp. A, while streblid B. amboinensis is polyxenous.ConclusionsThe bat fly diversity and specificity uncovered in this study have shed light on the complex bat-bat fly ecology in the region, but more bat-parasite association studies are still needed in East Asian regions like China as a huge number of unknown species likely exists. We highly recommend the use of DNA barcoding to support morphological identification to reveal accurate host-ectoparasite relationships for future studies.Graphical

Processes at lithium-hydride/deuteride surfaces upon low energy impact of H/D

Sputtering, reflection, and retention processes at amorphous and crystalline lithium hydride surfaces due to impact of low energy (1–100 eV) hydrogen and deuterium atoms over the range of 0o −85o angle of incidence at 300 K surface temperature were investigated by atomistic computational methods. Classical molecular dynamics simulations were performed with improved reactive bond-order force field (ReaxFF) potentials that include long-range polarization effects. In addition to probabilities of surface processes, the energy and angular spectra of ejected particles were obtained. Comparison of these results with those previously obtained on pristine lithium surfaces indicates the importance of saturation of the Li surface and near-surface region with hydrogen. We show that such saturation, which is typical in both laboratory and fusion device experiments with lithium coating of the plasma-facing surfaces, significantly changes the surface processes with hydrogen irradiation in the understudied low-energy region of impact energies.

SVhound: detection of regions that harbor yet undetected structural variation

BackgroundRecent population studies are ever growing in number of samples to investigate the diversity of a population or species. These studies reveal new polymorphism that lead to important insights into the mechanisms of evolution, but are also important for the interpretation of these variations. Nevertheless, while the full catalog of variations across entire species remains unknown, we can predict which regions harbor additional not yet detected variations and investigate their properties, thereby enhancing the analysis for potentially missed variants.ResultsTo achieve this we developed SVhound (https://github.com/lfpaulin/SVhound), which based on a population level SVs dataset can predict regions that harbor unseen SV alleles. We tested SVhound using subsets of the 1000 genomes project data and showed that its correlation (average correlation of 2800 tests r = 0.7136) is high to the full data set. Next, we utilized SVhound to investigate potentially missed or understudied regions across 1KGP and CCDG. Lastly we also apply SVhound on a small and novel SV call set for rhesus macaque (Macaca mulatta) and discuss the impact and choice of parameters for SVhound.ConclusionsSVhound is a unique method to identify potential regions that harbor hidden diversity in model and non model organisms and can also be potentially used to ensure high quality of SV call sets.