Stand‐Alone Eastern Pacific Coastal Warming Events

A pronounced warm anomaly occurred at the Peruvian coast in early 2017. This “Coastal Niño” caused heavy rainfalls, leading to flooding in Peru and Ecuador. At the same time, neutral conditions prevailed in the equatorial Pacific. Using observational sea surface temperature data sets and an ocean reanalysis product for the time period 1900 to 2010, previous similar events are investigated. Eighteen coastal warming events without corresponding equatorial Pacific warming are identified. Further analysis shows, however, that only four of these events are not connected to the central equatorial Pacific. All other periods of strong coastal warm anomalies are directly followed or preceded by El Niño‐like conditions. The “stand‐alone” coastal warming events are characterized by comparatively low equatorial heat content. We thus hypothesize that the depleted heat content in the equatorial Pacific in the wake of the strong 2015/2016 El Niño prevented the warming to spread westward in 2017

Benchmarking Cities of 15 Minutes using Open Data and Tools within the MyFairShare Project

The "MyFairShare" project develops fair CO2 mobility budgets for individuals. Here, "fairness" mainly depends on the people's location as everyone should be capable to access all the destinations needed to perform everyday tasks. As such, a basic understanding about the accessibility within an area is needed, regarding all activities that must be performed. To achieve this, a software system for benchmarking areas has been developed. It is based on open source applications and uses data that - besides public transport data in GTFS format - is freely available throughout Europe

EVALLER: a web server for in silico assessment of potential protein allergenicity

Bioinformatics testing approaches for protein allergenicity, involving amino acid sequence comparisons, have evolved appreciably over the last several years to increased sophistication and performance. EVALLER, the web server presented in this article is based on our recently published ‘Detection based on Filtered Length-adjusted Allergen Peptides’ (DFLAP) algorithm, which affords in silico determination of potential protein allergenicity of high sensitivity and excellent specificity. To strengthen bioinformatics risk assessment in allergology EVALLER provides a comprehensive outline of its judgment on a query protein's potential allergenicity. Each such textual output incorporates a scoring figure, a confidence numeral of the assignment and information on high- or low-scoring matches to identified allergen-related motifs, including their respective location in accordingly derived allergens. The interface, built on a modified Perl Open Source package, enables dynamic and color-coded graphic representation of key parts of the output. Moreover, pertinent details can be examined in great detail through zoomed views. The server can be accessed at http://bioinformatics.bmc.uu.se/evaller.html

The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers

Summary: Rapid technological advances have led to an explosion of biomedical data in recent years. The pace of change has inspired new collaborative approaches for sharing materials and resources to help train life scientists both in the use of cutting-edge bioinformatics tools and databases and in how to analyse and interpret large datasets. A prototype platform for sharing such training resources was recently created by the Bioinformatics Training Network (BTN). Building on this work, we have created a centralized portal for sharing training materials and courses, including a catalogue of trainers and course organizers, and an announcement service for training events. For course organizers, the portal provides opportunities to promote their training events; for trainers, the portal offers an environment for sharing materials, for gaining visibility for their work and promoting their skills; for trainees, it offers a convenient one-stop shop for finding suitable training resources and identifying relevant training events and activities locally and worldwide. Availability and implementation: http://mygoblet.org/training-portal Contact: [email protected]

Social Cohesion as the Missing Link between Natural Resource Management and Peacebuilding: Lessons from Cocoa Production in Côte d’Ivoire and Colombia

Social cohesion plays a key role in processes of peacebuilding and sustainable development. Fostering social cohesion might present a potential to enhance the connection of natural resource management and peacebuilding and better functioning of sustainable land use systems. This contribution explores the nexus between social cohesion, natural resource management, and peacebuilding. We do so by (1) reviewing literature on the three concepts and (2) studying four different key action areas in the context of sustainable cocoa production for their potential to enhance social cohesion, namely (a) agroforestry; (b) cooperatives; (c) certification schemes; and (d) trade policies. Research is based on experience from cocoa production in two post-conflict countries, Côte d’Ivoire and Colombia. Our findings show that by fostering environmentally sustainable agricultural practices, these key action areas have a clear potential to foster social cohesion among cocoa producers and thus provide a valuable contribution to post-conflict peacebuilding in both countries. However, the actual effects strongly depend on a multitude of local factors which need to be carefully taken into consideration. Further, the focus in implementation of some of these approaches tends to be on increasing agricultural productivity and not directly on fostering cocoa farmers’ wellbeing and societal relations, and hence a shift toward social objectives is needed in order to strengthen these approaches as a part of overall peacebuilding strategies.Peer Reviewe

A Novel Unstable Duplication Upstream of HAS2 Predisposes to a Breed-Defining Skin Phenotype and a Periodic Fever Syndrome in Chinese Shar-Pei Dogs

Hereditary periodic fever syndromes are characterized by recurrent episodes of fever and inflammation with no known pathogenic or autoimmune cause. In humans, several genes have been implicated in this group of diseases, but the majority of cases remain unexplained. A similar periodic fever syndrome is relatively frequent in the Chinese Shar-Pei breed of dogs. In the western world, Shar-Pei have been strongly selected for a distinctive thick and heavily folded skin. In this study, a mutation affecting both these traits was identified. Using genome-wide SNP analysis of Shar-Pei and other breeds, the strongest signal of a breed-specific selective sweep was located on chromosome 13. The same region also harbored the strongest genome-wide association (GWA) signal for susceptibility to the periodic fever syndrome (praw = 2.3×10−6, pgenome = 0.01). Dense targeted resequencing revealed two partially overlapping duplications, 14.3 Kb and 16.1 Kb in size, unique to Shar-Pei and upstream of the Hyaluronic Acid Synthase 2 (HAS2) gene. HAS2 encodes the rate-limiting enzyme synthesizing hyaluronan (HA), a major component of the skin. HA is up-regulated and accumulates in the thickened skin of Shar-Pei. A high copy number of the 16.1 Kb duplication was associated with an increased expression of HAS2 as well as the periodic fever syndrome (p<0.0001). When fragmented, HA can act as a trigger of the innate immune system and stimulate sterile fever and inflammation. The strong selection for the skin phenotype therefore appears to enrich for a pleiotropic mutation predisposing these dogs to a periodic fever syndrome. The identification of HA as a major risk factor for this canine disease raises the potential of this glycosaminoglycan as a risk factor for human periodic fevers and as an important driver of chronic inflammation

The heart microbiome of insectivorous bats from Central and South Eastern Europe

Host associated microbiome not only may affect the individual health-status or provide insights into the species- or group specific bacterial communities but may act as early warning signs in the assessment of zoonotic reservoirs, offering clues to predict, prevent and control possible episodes of emerging zoonoses. Bats may be carriers and reservoirs of multiple pathogens such as viruses, bacteria and parasites, showing in the same time robust immunity against many of them. The microbiota plays a fundamental role on the induction, training and function of the host immune system and the immune system has largely evolved in order to maintain the symbiotic relationship of the host with these diverse microbes. Thus, expanding our knowledge on bat-associated microbiome it can be usefully in understanding bats’ outstanding immune capacities. The aim of this study was to investigate the presence of different bacterial communities in heart tissue of insectivorous bats, Nyctalus noctula, Pipistrellus pipistrellus and Rhinoplophus hipposideros, from Central and Eastern Europe using high-throughput sequencing of variable regions of the 16S rRNA. In addition, species-specific PCRs were used to validate the presence of the vector-borne pathogens Bartonella spp. and Rickettsia spp. In this study we identified a wide variety of bacterial groups, with the most abundant phyla being Proteobacteria and Firmicutes. The results showed that at individual level, the year or location had no effect on the diversity and composition of the microbiome, however host species determined both structure and abundance of the bacterial community. We report the presence of vector-borne bacteria Bartonella spp. in samples of N. noctula and indications of Rickettsia spp. in R. hipposideros. Our results provide a first insight into the bacterial community found in heart tissue of bats from Central and South Eastern Europe.Instituto de BiotecnologíaFil: Corduneanu, Alexandra. University of Agricultural Sciences and Veterinary Medicine of Cluj-Napoca. Department of Parasitology and Parasitic Diseases; RumaniaFil: Mihalca, Andrei Daniel. University of Agricultural Sciences and Veterinary Medicine of Cluj-Napoca. Department of Parasitology and Parasitic Diseases; RumaniaFil: Sandor, Attila D. University of Agricultural Sciences and Veterinary Medicine of Cluj-Napoca. Department of Parasitology and Parasitic Diseases; RumaniaFil: Sandor, Attila D. University of Veterinary Medicine. Department of Parasitology and Zoology; HungríaFil: Hornok, Sándor. University of Veterinary Medicine. Department of Parasitology and Zoology; HungríaFil: Malmberg, Maja. Swedish University of Agricultural Sciences. Department of Biomedical Sciences and Veterinary Public Health. Section of Virology; SueciaFil: Malmberg, Maja. Swedish University of Agricultural Sciences. Department of Animal Breeding and Genetics. SLU Global Bioinformatics Centre; SueciaFil: Pin Viso, Natalia Daniela. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Pin Viso, Natalia Daniela. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Bongcam-Rudloff, Erik. Swedish University of Agricultural Sciences. Department of Animal Breeding and Genetics. SLU Global Bioinformatics Centre; Sueci