Cryptic species and independent origins of allochronic populations within a seabird species complex (Hydrobates spp.)

Humans are inherently biased towards naming species based on morphological differences, which can lead to reproductively isolated species being mistakenly classified as one if they are morphologically similar. Recognising cryptic diversity is needed to understand drivers of speciation fully, and for accurate estimates of global biodiversity and assessments for conservation. We investigated cryptic species across the range of band-rumped storm-petrels (Hydrobates spp.): highly pelagic, nocturnal seabirds that breed on tropical and sub-tropical islands in the Atlantic and Pacific Oceans. In many breeding colonies, band-rumped storm-petrels have sympatric but temporally isolated (allochronic) populations; we sampled all breeding locations and allochronic populations. Using mitochondrial control region sequences from 754 birds, cytochrome b sequences from 69 birds, and reduced representation sequencing of the nuclear genomes of 133 birds, we uncovered high levels of genetic structuring. Population genomic analyses revealed up to seven unique clusters, and phylogenomic reconstruction showed that these represent seven monophyletic groups. We uncovered up to six independent breeding season switches across the phylogeny, spanning the continuum from genetically undifferentiated temporal populations to full allochronic species. Thus, band-rumped storm-petrels encompass multiple cryptic species, with non-geographic barriers potentially comprising strong barriers to gene flow

The Nihoku Ecosystem Restoration Project: A case study in predator exclusion fencing, ecosystem restoration, and seabird translocation

Reports were scanned in black and white at a resolution of 600 dots per inch and were converted to text using Adobe Paper Capture Plug-in.Newell’s Shearwater (Puffinus auricularis newelli; NESH) and Hawaiian Petrel (Pterodroma sandwichensis; HAPE) are both listed under the Endangered Species Act of 1973 and are declining due to collisions with power lines and structures, light attraction, predation by feral cats, pigs, rats, and introduced Barn Owls, habitat degradation by feral ungulates (pigs, goats) and invasive exotic plants. Protection of NESH and HAPE on their nesting grounds and reduction of collision and lighting hazards are high priority recovery actions for these species. Given the challenges in protecting nesting birds in their rugged montane habitats, it has long been desirable to also create breeding colonies of both species in more accessible locations that offer a higher level of protection. Translocation of birds to breeding sites within predator exclusion fences was ranked as priority 1 in the interagency 5-year Action Plan for Newell’s Shearwater and Hawaiian Petrel. In 2012, funding became available through several programs to undertake this action at Kilauea Point National Wildlife Refuge (KPNWR), which is home to one of the largest seabird colonies in the main Hawaiian Islands. The project was named the “Nihoku Ecosystem Restoration Project” after the area on the Refuge where the placement of the future colony was planned. The Nihoku Ecosystem Restoration Project is a result of a large partnership between multiple government agencies and non-profit groups who have come together to help preserve the native species of Hawaii. There were four stages to this multi-faceted project: permitting and biological monitoring, fence construction, restoration and predator eradication, followed by translocation of the birds to the newly secured habitat. The translocation component is expected to last five years and involve up to 90 individuals each of NESH and HAPE. Prior to fence construction, baseline monitoring data were collected in order to provide a record of initial site conditions and species diversity. Surveys were conducted quarterly from 2012-2014, investigating diversity and richness of plant, invertebrate, mammalian, and avian species. A 650 m (2130 ft) long predator proof fence was completed at Nihoku in September 2014, enclosing 2.5 ha (6.2 ac), and all mammalian predators were eradicated by March 2015. From 2015-2017, approximately 40% of the fenced area (~1 ha) was cleared of non-native vegetation using heavy machinery and herbicide application. A water catchment and irrigation system was installed, and over 18,000 native plants representing 37 native species were outplanted in the restoration area. The plant species selected are low-in-stature, making burrow excavation easier for seabirds while simultaneously providing forage for Nene (Branta sandvicensis). Habitat restoration was done in phases (10-15% of the project per year) and will be continued until the majority of the area has been restored. In addition to habitat restoration, 50 artificial burrows were installed in the restoration to facilitate translocation activities. From 2012-2017 potential source colonies of NESH and HAPE were located by the Kauai Endangered Seabird Recovery Project (KESRP) with visual, auditory, and ground searching methods at locations around Kauai. The sites that were selected as source colonies for both species were Upper Limahuli Preserve (owned by the National Tropical Botanical Garden; NTBG) and several sites within the Hono o Na Pali Natural Area Reserve system. These sites had high call rates, high burrow densities to provide an adequate source of chicks for the translocation, and had active predator control operations in place to offset any potential impacts of the monitoring. Translocation protocols were developed based on previous methods developed in New Zealand; on the ground training was done by the translocation team by visiting active projects in New Zealand. In year one, 10 HAPE and eight NESH were translocated, and the goal is to translocate up to 20 in subsequent years for a cohort size of 90 birds of each species over a five year period. Post-translocation monitoring has been initiated to gauge the level of success, and social attraction has been implemented in an attempt to attract adults to the area. It is anticipated that the chicks raised during this project will return to breed at Nihoku when they are 65-6 years old; for the first cohort released in 2015 this would be starting in 2020. Once this occurs, Nihoku will be the first predator-free breeding area of both species in Hawaii.This project and manuscript are part of a large collaboration that spans beyond the agencies mentioned. Many individuals were consulted for advice and input along the way. For botanical and invertebrate advice, we thank: David Burney, Lida Burney, Natalia Tangalin, Emory Griffin‐Noyes, Kawika Winter, Kim Starr, Forest Starr, Sheldon Plentovich and Keren Gunderson. For assistance with translocation training and predator exclusion fence technical advice we thank Helen Gummer, John McLennan, Lindsay Wilson, and Darren Peters. For reviewing documents related to this project, and for feedback on techniques we thank the seabird hui, particularly Fern Duvall, Jay Penniman, Megan Laut, Darcy Hu and Cathleen Bailey. For their on the ground assistance at KPNWR, we thank: Shannon Smith, Chadd Smith, Warren Madeira, Rob Petersen, Jennifer Waipa, Padraic Gallagher, Carolyn Rushforth, Kristina Macaulay, Jimmy Macaulay, and Jillian Cosgrove. We would also like to thank Chris Mottley, Kyle Pias and the entire predator control team in Hono o Na Pali NAR and Kawika Winter, Chiemi Nagle, Merlin Edmonds and the entire predator control team in Upper Limahuli Preserve. We would also like to thank the Kaua‘i Island Utility Co‐operative (KIUC) for the funding that they provide – through a Habitat Conservation Plan – to provide predator control and seabird monitoring at several of the sites used for translocation. Lastly, we would like to thank all of the endangered seabird technicians within the Kauaʻi Endangered Seabird Recovery Project for all of their hard work in montane colonies. Mahalo

Mortalidad de aves marinas producida por luces artificiales terrestres

Artificial lights at night cause high mortality of seabirds, one of the most endangered groups of birds globally. Fledglings of burrow-nesting seabirds, and to a lesser extent adults, are attracted to and then grounded (i.e., forced to land) by lights when they fly at night. We reviewed the current state of knowledge of seabird attraction to light to identify information gaps and propose measures to address the problem. Although species in families such as Alcidae and Anatidae can be grounded by artificial light, the most affected seabirds are petrels and shearwaters (Procellariiformes). At least 56 species of Procellariiformes, more than one-third of them (24) threatened, are subject to grounding by lights. Seabirds grounded by lights have been found worldwide, mainly on oceanic islands but also at some continental locations. Petrel breeding grounds confined to formerly uninhabited islands are particularly at risk from light pollution due to tourism and urban sprawl. Where it is impractical to ban external lights, rescue programs of grounded birds offer the most immediate and employed mitigation to reduce the rate of light-induced mortality and save thousands of birds every year. These programs also provide useful information for seabird management. However, these data are typically fragmentary, biased, and uncertain and can lead to inaccurate impact estimates and poor understanding of the phenomenon of seabird attraction to lights. We believe the most urgently needed actions to mitigate and understand light-induced mortality of seabirds are estimation of mortality and effects on populations; determination of threshold light levels and safe distances from light sources; documentation of the fate of rescued birds; improvement of rescue campaigns, particularly in terms of increasing recovery rates and level of care; and research on seabird-friendly lights to reduce attraction.RESUMEN: Las luces artificiales nocturnas causan una mortalidad alta de aves marinas, uno de los grupos de aves en mayor peligro de extinción a nivel mundial. Los polluelos de aves marinas que anidan en madrigueras, y en menor medida los adultos, son atraídos y forzados a aterrizar por las luces cuando vuelan de noche. Revisamos el estado actual del conocimiento sobre la atracción de las aves marinas por la luz para identificar vacíos de información y proponer medidas para resolver el problema. Aunque las especies de familias como Alcidae y Anatidae pueden ser forzadas a aterrizar por la luz artificial, las aves marinas más afectadas son los petreles y las pardelas (Procellariiformes). Por lo menos 56 especies de Procellariiformes, más de un tercio (24) de ellas amenazadas, son propensas al aterrizaje atraídas por las luces. Las aves marinas forzadas a aterrizar han sido halladas en todo el mundo, principalmente en islas oceánicas, pero también en algunas localidades continentales. Los sitios de anidación de los petreles confinados anteriormente a islas deshabitadas están particularmente en riesgo de sufrir contaminación lumínica debido al turismo y al crecimiento urbano. En donde no es práctico prohibir las luces externas, los programas de rescate de las aves accidentadas ofrecen la mitigación más inmediata y empleada para reducir la tasa de mortalidad inducida por la luz y salvar a miles de aves cada año. Estos programas también proporcionan información útil para el manejo de aves marinas. Sin embargo, estos datos están típicamente fragmentados, sesgados y son inciertos, y pueden llevar a estimaciones inexactas del impacto y a un entendimiento pobre del fenómeno de la atracción de las aves marinas por la luz. Creemos que las acciones necesarias de mayor urgencia para mitigar y entender la mortalidad de aves marinas producida por la luz son: la estimación de la mortalidad y los efectos sobre la población; la determinación de umbrales de niveles de luz y de distancias seguras a las fuentes de luz; el estudio del destino de las aves rescatadas; la mejora de las campañas de rescate, particularmente en términos de incrementar las tasas de recogida y el nivel de cuidado; y la investigación sobre las características de la luz para reducir la atracción de las aves marinas.This research was supported by a Marie Curie Intra European Fellowship within the 7th European Community Framework Programme (Project ID: 330655 FP7-PEOPLE-2012-IOF)info:eu-repo/semantics/publishedVersio

Genome-wide association and functional studies identify a role for matrix Gla protein in osteoarthritis of the hand

Objective Osteoarthritis (OA) is the most common form of arthritis and the leading cause of disability in the elderly. Of all the joints, genetic predisposition is strongest for OA of the hand; however, only few genetic risk loci for hand OA have been identified. Our aim was to identify novel genes associated with hand OA and examine the underlying mechanism. Methods We performed a genome-wide association study of a quantitative measure of hand OA in 12 784 individuals (discovery: 8743, replication: 4011). Genome-wide significant signals were followed up by analysing gene and allele-specific expression in a RNA sequencing dataset (n=96) of human articular cartilage. Results We found two significantly associated loci in the discovery set: at chr12 (p=3.5 × 10⁻¹⁰) near the matrix Gla protein (MGP) gene and at chr12 (p=6.1×10⁻⁹) near the CCDC91 gene. The DNA variant near the MGP gene was validated in three additional studies, which resulted in a highly significant association between the MGP variant and hand OA (rs4764133, Betameta=0.83, Pmeta=1.8*10⁻¹⁵). This variant is high linkage disequilibrium with a coding variant in MGP, a vitamin K-dependent inhibitor of cartilage calcification. Using RNA sequencing data from human primary cartilage tissue (n=96), we observed that the MGP RNA expression of the hand OA risk allele was significantly lowercompared with the MGP RNA expression of the reference allele (40.7%, p<5*10⁻¹⁶). Conclusions Our results indicate that the association between the MGP variant and increased risk for hand OA is caused by a lower expression of MGP, which may increase the burden of hand OA by decreased inhibition of cartilage calcification

Future directions in conservation research on petrels and shearwaters

Shearwaters and petrels (hereafter petrels) are highly adapted seabirds that occur across all the world's oceans. Petrels are a threatened seabird group comprising 124 species. They have bet-hedging life histories typified by extended chick rearing periods, low fecundity, high adult survival, strong philopatry, monogamy and long-term mate fidelity and are thus vulnerable to change. Anthropogenic alterations on land and at sea have led to a poor conservation status of many petrels with 52 (42%) threatened species based on IUCN criteria and 65 (52%) suffering population declines. Some species are well-studied, even being used as bioindicators of ocean health, yet for others there are major knowledge gaps regarding their breeding grounds, migratory areas or other key aspects of their biology and ecology. We assembled 38 petrel conservation researchers to summarize information regarding the most important threats according to the IUCN Red List of threatened species to identify knowledge gaps that must be filled to improve conservation and management of petrels. We highlight research advances on the main threats for petrels (invasive species at breeding grounds, bycatch, overfishing, light pollution, climate change, and pollution). We propose an ambitious goal to reverse at least some of these six main threats, through active efforts such as restoring island habitats (e.g., invasive species removal, control and prevention), improving policies and regulations at global and regional levels, and engaging local communities in conservation efforts

Habitat suitability modeling for the endangered Hawaiian petrel on Kauai and analysis of predicted habitat overlap with the Newell’s shearwater

The endangered Hawaiian petrel (Pterodroma sandwichensis) is endemic to the main Hawaiian Islands and has undergone a breeding range contraction since the arrival of humans. Using abiotic and biotic environmental variables, we developed a terrestrial habitat suitability model for the species on the island of Kauai based on contemporary sites where the species is known (or strongly suspected) to nest, as well as a habitat/threat-isolation index that combined predictions from this suitability model with spatial information on two anthropogenic threats to the species. After accounting for large-scale relative spatial positioning of sites in modeling procedures, the habitat suitability model suggests that the probability that a location on Kauai could be suitable for Hawaiian petrel nesting activity increases with increasing mean annual wind speed, and may also increase somewhat with increasing slope and native vegetation cover. The habitat suitability model (which does not incorporate spatial information on anthropogenic threats to the species) predicts approximately 74 km2 of Kauai, mostly in the interior of the island, as being potentially suitable with predicted probability > 0.7 for Hawaiian petrel terrestrial activity, and about 35 km2 with predicted probability > 0.9. Encouragingly, almost 50 km2 of land with predicted probability > 0.7 and almost 24 km2 with predicted probability > 0.9 is currently protected, being located on either government or private reserve land. Based on the habitat/threat-isolation index, most land predicted to be both suitable (based on environmental variables) and as isolated from threats as a large number of the known contemporary Hawaiian petrel sites, is found in government and private reserves. Some degree of predicted habitat overlap between the Hawaiian petrel and Newell’s shearwater (Puffinus newelli), another Hawaiian seabird of conservation concern, suggests that some of the same larger tracts of land could potentially be managed jointly for both species, as currently done in Upper Limahuli Preserve and Hono O Na Pali Natural Area Reserve on Kauai

Migration strategies of the Yelkouan Shearwater Puffinus yelkouan

Although the Yelkouan Shearwater Puffinus yelkouan is listed as near threatened on the International Union for Conservation of Nature Red List, with many populations in serious decline, there is little detailed information on the location of its key foraging areas during the non-breeding season. To address this knowledge gap, adult Yelkouan Shearwaters at a breeding colony in Malta were fitted with geolocators in 2 consecutive years. Of the 13 birds tracked (two of which were tracked in both years), the majority (n = 10; 76.9 %) migrated in June–July to spend most of the non-breeding period in the Black Sea (n = 5), Aegean Sea (n = 2), Black and Aegean seas (n = 2), or Black and Adriatic seas (n = 1). The final three birds remained within the central Mediterranean area and did not move beyond 500 km of the breeding colony. There was considerable variation among individuals in terms of timing of the outward and return migrations, duration and location of periods of residency in different areas, and migration routes. However, migration patterns (including routes and areas visited) were very consistent in the two individuals tracked in consecutive years. All birds returned in November or December to waters closer to the breeding colony, concentrating between the North African coast and the southern Adriatic. This study has identified key areas during the non-breeding season for Yelkouan Shearwaters from Malta which are also likely to be important for other populations. Given the continuing decline of this species throughout its range, this information represents an essential step for improving international conservation efforts. At-sea threats in the wintering regions include by-catch in long-line and trawl fisheries, impacts of over-fishing, illegal hunting (particularly in Maltese waters), ingestion of plastics, pollution, and the potential impact of off-shore wind farms. These threats need to be addressed urgently in the areas identified by this study to prevent further declines