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Understanding the influence of the changing Arctic on mid-latitude weather is complex, and a challenge for researchers. This Perspective considers current approaches and proposes a way forward based on accepting the chaotic nature of the atmospheric circulation. Are continuing changes in the Arctic influencing wind patterns and the occurrence of extreme weather events in northern mid-latitudes? The chaotic nature of atmospheric circulation precludes easy answers. The topic is a major science challenge, as continued Arctic temperature increases are an inevitable aspect of anthropogenic climate change. We propose a perspective that rejects simple cause-and-effect pathways and notes diagnostic challenges in interpreting atmospheric dynamics. We present a way forward based on understanding multiple processes that lead to uncertainties in Arctic and mid-latitude weather and climate linkages. We emphasize community coordination for both scientific progress and communication to a broader public.

Landfills provide seasonally reliable food resources to many bird species, including those perceived to be pest or invasive species. However, landfills often contain multiple habitat types that could attract diverse species, including those of conservation concern. To date, little is known about the characteristics and composition of bird communities at landfills relative to local and regional pools. Here we used the community science database eBird to extract avian species occurrence data at landfills across the US. We compared species richness and community similarity across space in comparison to similarly-sampled reference sites, and further quantified taxonomic and dietary traits of bird communities at landfills. While landfills harbored marginally lower species richness than reference sites (respective medians of 144 vs 160), landfill community composition, and its turnover across space, were similar to reference sites. Consistent with active waste disposal areas attracting birds, species feeding at higher trophic levels, especially gulls, were more frequently observed at landfills than reference sites. However, habitat specialists including two declining grassland species, Eastern Meadowlark ( Sturnella magna ) and Savannah Sparrow ( Passerculus sandwichensis ), as well as migratory waterfowl, were more frequently encountered at landfills than reference sites. Together, these results suggest that landfills harbor comparable avian diversity to neighboring sites, and that habitats contained within landfill sites can support species of conservation concern. As covered landfills are rarely developed or forested, management of wetlands and grasslands at these sites represents an opportunity for conservation.

Recent studies note a significant increase in high-pressure blocking over the Greenland region (Greenland Blocking Index, GBI) in summer since the 1990s. Such a general circulation change, indicated by a negative trend in the North Atlantic Oscillation (NAO) index, is generally highlighted as a major driver of recent surface melt records observed on the Greenland Ice Sheet (GrIS). Here we compare reanalysis-based GBI records with those from the Coupled Model Intercomparison Project 5 (CMIP5) suite of global climate models over 1950–2100. We find that the recent summer GBI increase lies well outside the range of modelled past reconstructions and future GBI projections (RCP4.5 and RCP8.5). The models consistently project a future decrease in GBI (linked to an increase in NAO), which highlights a likely key deficiency of current climate models if the recently observed circulation changes continue to persist. Given well-established connections between atmospheric pressure over the Greenland region and air temperature and precipitation extremes downstream, e.g. over northwest Europe, this brings into question the accuracy of simulated North Atlantic jet stream changes and resulting climatological anomalies over densely populated regions of northern Europe as well as of future projections of GrIS mass balance produced using global and regional climate models.

Haplotype-resolved genome assemblies are important for understanding how combinations of variants impact phenotypes. To date, these assemblies have been best created with complex protocols, such as cultured cells that contain a single-haplotype (haploid) genome, single cells where haplotypes are separated, or co-sequencing of parental genomes in a trio-based approach. These approaches are impractical in most situations. To address this issue, we present FALCON-Phase, a phasing tool that uses ultra-long-range Hi-C chromatin interaction data to extend phase blocks of partially-phased diploid assembles to chromosome or scaffold scale. FALCON-Phase uses the inherent phasing information in Hi-C reads, skipping variant calling, and reduces the computational complexity of phasing. Our method is validated on three benchmark datasets generated as part of the Vertebrate Genomes Project (VGP), including human, cow, and zebra finch, for which high-quality, fully haplotype-resolved assemblies are available using the trio-based approach. FALCON-Phase is accurate without having parental data and performance is better in samples with higher heterozygosity. For cow and zebra finch the accuracy is 97% compared to 80–91% for human. FALCON-Phase is applicable to any draft assembly that contains long primary contigs and phased associate contigs. Methods to produce haplotype-resolved genome assemblies often rely on access to family trios. The authors present FALCON-Phase, a tool that combines ultra-long range Hi-C chromatin interaction data with a long read de novo assembly to extend haplotype phasing to the contig or scaffold level.

Temperature shapes the geographic distribution, seasonality, and magnitude of mosquito-borne disease outbreaks. Models predicting transmission often use mosquito and pathogen thermal responses measured at constant temperatures. However, mosquitoes live in fluctuating temperatures. Rate summation––non-linear averaging of trait values measured at constant temperatures—is commonly used to infer performance in fluctuating environments, but its accuracy is rarely validated. We measured three traits that impact transmission—bite rate, survival, fecundity—in a malaria mosquito ( Anopheles stephensi ) across three diurnal temperature ranges (0, 9, and 12 °C). We compared transmission thermal suitability models with temperature-trait relationships observed under constant temperatures, fluctuating temperatures, and those predicted by rate summation. We mapped results across An. stephenesi ’s native Asian and invasive African ranges. We found: 1) daily temperature fluctuation trait values substantially differ from both constant temperature experiments and rate summation; 2) rate summation partially captured decreases in performance near thermal optima, yet incorrectly predicted increases near thermal limits; and 3) while thermal suitability across constant temperatures did not perfectly capture fluctuating environments, it was better than rate summation for estimating and mapping thermal limits. Our study provides insight into methods for predicting mosquito-borne disease risk and emphasizes the need to improve understanding of organismal performance under fluctuating conditions. Malaria transmission is sensitive to temperature and models of malaria typically account for daily fluctuations in temperature through a ‘rate summation’ approach. Here, the authors conduct experimental and modeling work to investigate the accuracy of rate summation in predicting thermal suitability of malaria transmission by Anopheles stephensi .

Over the past decade, advances in genetic testing, particularly the advent of next-generation sequencing, have led to a paradigm shift in the diagnosis of molecular diseases and disorders. Despite our present collective ability to interrogate more than 90% of the human genome, portions of the genome have eluded us, resulting in stagnation of diagnostic yield with existing methodologies. Here we show how application of a new technology, long-read sequencing, has the potential to improve molecular diagnostic rates. Whole genome sequencing by long reads was able to cover 98% of next-generation sequencing dead zones, which are areas of the genome that are not interpretable by conventional industry-standard short-read sequencing. Through the ability of long-read sequencing to unambiguously call variants in these regions, we discovered an immunodeficiency due to a variant in IKBKG in a subject who had previously received a negative genome sequencing result. Additionally, we demonstrate the ability of long-read sequencing to detect small variants on par with short-read sequencing, its superior performance in identifying structural variants, and thirdly, its capacity to determine genomic methylation defects in native DNA. Though the latter technical abilities have been demonstrated, we demonstrate the clinical application of this technology to successfully identify multiple types of variants using a single test.

New Zealand’s temperate climate and bountiful flora are well suited to managed honey bees, and its geographic isolation and strict biosecurity laws have made sure that some pests and diseases affecting bees elsewhere are not present. Nevertheless, given the importance of pollination and high-value export honey to the economy, New Zealand began systematically measuring winter colony losses in 2015. The New Zealand Colony Loss Survey is modelled on the COLOSS survey but has been adapted to the New Zealand apicultural context. Some 49% of New Zealand beekeepers completed the winter 2021 survey. Between 2015 and 2021, overall colony loss rates increased monotonically from 8.37% [95% CI: 7.66%, 9.15%] to 13.59% [95% CI: 13.21%, 13.99%]. Whereas beekeepers most commonly attributed losses to queen problems between 2015 and 2020, attributions to varroa have escalated year-on-year to become the largest attributed cause of colony loss. Losses to varroa are perhaps amplified by the 23.4% of respondents who did not monitor mite loads and the 4.4% of beekeepers who did not treat varroa during the 2020/21 season. Indeed, most beekeepers consider their treatment to be effective and note that treating at the wrong time and reinvasion were major drivers of losses to varroa.

Standard economic theory predicts that exploitation alone is unlikely to result in species extinction because of the escalating costs of finding the last individuals of a declining species. We argue that the human predisposition to place exaggerated value on rarity fuels disproportionate exploitation of rare species, rendering them even rarer and thus more desirable, ultimately leading them into an extinction vortex. Here we present a simple mathematical model and various empirical examples to show how the value attributed to rarity in some human activities could precipitate the extinction of rare species-a concept that we term the anthropogenic Allee effect. The alarming finding that human perception of rarity can precipitate species extinction has serious implications for the conservation of species that are rare or that may become so, be they charismatic and emblematic or simply likely to become fashionable for certain activities.

Seasonal migrations are fascinating and ecologically important, but many migratory species are declining as climate change and land‐use change alter the habitats used by migrants across the annual cycle. While some migratory birds use a single wintering site, others undertake large‐scale post‐migratory movements during the nonbreeding season. Technological advances that enable tracking individual birds are uncovering more examples of post‐migratory nonbreeding movements. Documenting these movements is important for conservation, which requires understanding when and where migrants use habitats throughout their range. Here, we reviewed existing literature and collected information on the post‐migratory nonbreeding movements of 92 migratory bird species from 18 orders across six continents. Among these records, the most commonly reported drivers of movements were resource availability and climate. This strong dependence of post‐migratory nonbreeding movements on birds' abiotic and biotic environments suggests that environmental change will impact the patterns of these movements and potentially the fitness of species that undertake them. We also reviewed post‐migratory nonbreeding movements in North American‐breeding thrushes from the genus Catharus to examine the drivers of these movements in five closely related migratory species. We find that species that are less territorial are more likely to use multiple sites during the nonbreeding season; however, there is little evidence for dietary, evolutionary, or environmental differences between thrush species that move during winter and those that are stationary. While we believe our study represents the most comprehensive list of species exhibiting post‐migratory nonbreeding movements to date, biases in sampling, a lack of common terminology for these movements, and the still‐nascent availability of inexpensive, lightweight tracking devices mean that there are probably more populations that undertake such movements. Future research into the consequences of post‐migratory nonbreeding movements for individual fitness and ecosystem services would advance our understanding of their conservation importance and their evolution. While many migratory birds are conceptualized as using a single wintering site, technological advances that enable detailed tracking of individual birds are uncovering more examples of post‐migratory movements in diverse species and locations during the nonbreeding season. Here, we reviewed existing literature and collected information on the within‐winter movements of 92 migratory bird species from 18 orders across six continents. We argue that these movements form an important piece of the full annual cycle ecology of birds and provide critical information for the conservation of migrants under environmental change.