Bioinformatics interoperability: all together now !

The following text presents some personal ideas about the way (bio)informatics is heading, along with some examples of how our institution the Royal Museum for Central Africa (RMCA) is gearing up for these new times ahead. It tries to find the important trends amongst the buzzwords, and to demonstrate how these will benefit the biological and scientific community. This text is based on a presentation given at the 7th Flora Malesiana Symposium in Leiden, The Netherlands, June 200

Exploring evidence gaps in clinical trials in thermal burns care: an umbrella review

BackgroundGaps in research evidence lead to research waste. In burns treatment, there is a paucity of reliable evidence or data. This contributes to inconsistent patient care, especially on a global scale, where low-resource countries often lack access to the latest research advancements. This umbrella review was undertaken as part of the James Lind Alliance Priorities in Global Burns Research Prioritisation Setting Partnership (PSP) and aimed to identify and assess the quality of evidence in thermal burns care. The objective was to map which interventions in thermal burns care are supported by a reliable evidence base and for which the evidence is lacking.MethodsSystematic reviews of randomised controlled trials in thermal burns were identified and assessed using reliability criteria determined a priori. Multiple systematic review databases were searched in June 2023, including the Cochrane Library, KSR Evidence database and NIHR Journals Library. Summary of findings and, where available, Grading of Recommendations Assessment, Development and Evaluation was used to assess certainty of evidence. Reliable reviews were mapped onto clinical categories identified by patients, carers and healthcare professionals as part of the PSP.Results232 systematic reviews were identified, of which 83 met reliability criteria and were included. The main reason for not meeting reliability criteria was poorly defined eligibility criteria (n=128). Of the 83 reliable reviews, most were conducted in pain (n=28) or wound management (n=14) and acute care (n=13). Certainty of evidence was mixed. Reviews mapped onto nine of the 17 clinical categories identified by the PSP.ConclusionThis review summarises the available high-quality evidence in burns care and identifies evidence gaps, indicating that many important clinical questions remain unanswered. There is a discrepancy between the treatments investigated in high-quality research and the clinical areas considered as most important to stakeholders. These findings provide direction for future research to improve global burns care

Measuring upper limb disability for patients with neck pain: evaluation of the feasibility of the Single Arm Military Press (SAMP) test

Background Non-specific neck pain (NSNP) is frequently associated with upper limb disability (ULD). Consequently, evaluation of ULD using an outcome measure is necessary during the management of patients with NSNP. The Single Arm Military Press (SAMP) test is a performance-based ULD measure developed for populations with neck pain. During the SAMP test, patients are asked to repeatedly lift a weight above their head for 30 seconds. The number of repetitions is counted. Its clinical utility in a patient group is still unknown. Objective This study investigates the feasibility of the SAMP test from patients and clinicians’ perspectives. Methods Seventy female patients with NSNP were randomly allocated into one of three groups. Participants in each group completed the SAMP test using one of three proposed weights (½kg, 1kg or 1½kg). The feasibility of the SAMP test was established using structured qualitative exit feedback interviews for patients and administrating clinicians. Results Participants using ½kg achieved the highest number of repetitions, but a high proportion reported the weight as extremely light, whereas those who tested using the 1½kg achieved the lowest number of repetitions and participants reported the weight as being heavy. Participants tested using 1kg achieved an average number of repetitions and a high proportion reported the weight as acceptably heavy. Clinicians and patients reported that the SAMP test was efficient and convenient. Conclusion The 1kg SAMP test is feasible for use in female patients with NSNP. The measurement properties of the SAMP test should be determined in a patient group

Global patterns of body size evolution in squamate reptiles are not driven by climate

Aim: Variation in body size across animal species underlies most ecological and evolutionary processes shaping local- and large-scale patterns of biodiversity. For well over a century, climatic factors have been regarded as primary sources of natural selection on animal body size, and hypotheses such as Bergmann's rule (the increase of body size with decreasing temperature) have dominated discussions. However, evidence for consistent climatic effects, especially among ectotherms, remains equivocal. Here, we test a range of key hypotheses on climate-driven size evolution in squamate reptiles across several spatial and phylogenetic scales. Location: Global. Time period: Extant. Major taxa studied: Squamates (lizards and snakes). Methods: We quantified the role of temperature, precipitation, seasonality and net primary productivity as drivers of body mass across ca. 95% of extant squamate species (9,733 spp.). We ran spatial autoregressive models of phylogenetically corrected median mass per equal-area grid cell. We ran models globally, across separate continents and for major squamate clades independently. We also performed species-level analyses using phylogenetic generalized least square models and linear regressions of independent contrasts of sister species. Results: Our analyses failed to identify consistent spatial patterns in body size as a function of our climatic predictors. Nearly all continent- and family-level models differed from one another, and species-level models had low explanatory power. Main conclusions: The global distribution of body mass among living squamates varies independently from the variation in multiple components of climate. Our study, the largest in spatial and taxonomic scale conducted to date, reveals that there is little support for a universal, consistent mechanism of climate-driven size evolution within squamates

Establishment of a core outcome set for burn care research: development and international consensus

Objective: To develop a core outcome set for international burn research.Design: Development and international consensus, from April 2017 to November 2019.Methods: Candidate outcomes were identified from systematic reviews and stakeholder interviews. Through a Delphi survey, international clinicians, researchers, and UK patients prioritised outcomes. Anonymised feedback aimed to achieve consensus. Pre-defined criteria for retaining outcomes were agreed. A consensus meeting with voting was held to finalise the core outcome set.Results: Data source examination identified 1021 unique outcomes grouped into 88 candidate outcomes. Stakeholders in round 1 of the survey, included 668 health professionals from 77 countries (18% from low or low middle income countries) and 126 UK patients or carers. After round 1, one outcome was discarded, and 13 new outcomes added. After round 2, 69 items were discarded, leaving 31 outcomes for the consensus meeting. Outcome merging and voting, in two rounds, with prespecified thresholds agreed seven core outcomes: death, specified complications, ability to do daily tasks, wound healing, neuropathic pain and itch, psychological wellbeing, and return to school or work.Conclusions: This core outcome set caters for global burn research, and future trials are recommended to include measures of these outcomes

The geography of snake reproductive mode: a global analysis of the evolution of snake viviparity

Aim : Although most reptiles are oviparous, viviparity is a commonmode of reproduction in squamates and has evolved multiple times in different lineages.We test two prevailing hypotheses regarding the biogeography of reptile reproductive modes to evaluate the selective forces driving the evolution of viviparity in snakes. The cold climate hypothesis posits that viviparity is selected for in cold climates, whereas the climatic predictability hypothesis predicts that viviparity is advantageous in seasonal climates. Methods : We collated detailed distribution maps and reproductive mode data for 2663 species of the world’s terrestrial alethinophidian snakes.We studied the relationship between snake reproductive mode and environmental predictors. We applied both an ecological and an evolutionary approach to study snake reproductive mode by performing the analyses at the assemblage level and species level, respectively. We analysed our data at the global and continental scales to learn whether tendencies to viviparity are similar world-wide. Results : We found strong support for the cold climate hypothesis and the assumption that viviparity is an adaptation to cold environments. There was little support for the climatic predictability hypothesis. Nonetheless, viviparous species are not restricted to cold environments. Main conclusions : We conclude that viviparity is adaptive in cold climates, but not necessarily in unpredictable/seasonal climates. Current distributions may not reflect the climate at the time and place of speciation.We suspect many viviparous snakes inhabiting warm climates are members of lineages that originated in colder regions, and their occurrence in maladaptive environments is a result of phylogenetic conservatism

The global biogeography of lizard functional groups

Aim: Understanding the mechanisms determining species richness is a primary goal of biogeography. Richness patterns of sub-groups within a taxon are usually assumed to be driven by similar processes. However, if richness of distinct ecological strategies respond differently to the same processes, inferences made for an entire taxon may be misleading. We deconstruct the global lizard assemblage into functional groups and examine the congruence among richness patterns between them. We further examine the species richness – functional richness relationship to elucidate the way functional diversity contributes to the overall species richness patterns. Location: Global. Methods: Using comprehensive biological trait databases we classified the global lizard assemblage into ecological strategies based on body size, diet, activity times and microhabitat preferences, using Archetypal Analysis. We then examined spatial gradients in the richness of each strategy at the one-degree grid cell, biomes and realm scales. Results: We found that lizards can best be characterized by seven 'ecological strategies': scansorial, terrestrial, nocturnal, herbivorous, fossorial, large and semiaquatic. There are large differences among the global richness patterns of these strategies. While the major richness hotspot for lizards in general is in Australia, several strategies exhibit highest richness in the Amazon Basin. Importantly, the global maximum in lizard species richness is achieved at intermediate values of functional diversity and increasing functional diversity further result in a shallow decline of species richness. Main conclusions: The deconstruction of the global lizard assemblage along multiple ecological axes offers a new way to conceive lizard diversity patterns. It suggests that local lizard richness mostly increases when species belonging to particular ecological strategies become hyper-diverse there, and not because more ecological types are present in the most species rich localities. Thus maximum richness and maximum ecological diversity do not overlap. These results shed light on the global richness pattern of lizards, and highlight previously unidentified spatial patterns in understudied functional groups

A systematic review of objective burn scar measurements

BackgroundProblematic scarring remains a challenging aspect to address in the treatment of burns and can significantly affect the quality of life of the burn survivor. At present, there are few treatments available in the clinic to control adverse scarring, but experimental pharmacological anti-scarring strategies are now beginning to emerge. Their comparative success must be based on objective measurements of scarring, yet currently the clinical assessment of scars is not carried out systematically and is mostly based on subjective review of patients. However, several techniques and devices are being introduced that allow objective analysis of the burn scar. The aim of this article is to evaluate various objective measurement tools currently available and recommend a useful panel that is suitable for use in clinical trials of anti-scarring therapies.MethodsA systematic literature search was done using the Web of Science, PubMed and Cochrane databases. The identified devices were then classified and grouped according to the parameters they measured.The tools were then compared and assessed in terms of inter- and intra-rater reproducibility, ease of use and cost.ResultsAfter duplicates were removed, 5062 articles were obtained in the search. After further screening, 157 articles which utilised objective burn scar measurement systems or tools were obtained. The scar measurement devices can be broadly classified into those measuring colour, metric variables, texture, biomechanical properties and pathophysiological disturbances.ConclusionsObjective scar measurement tools allow the accurate and reproducible evaluation of scars, which is important for both clinical and scientific use. However, studies to evaluate their relative performance and merits of these tools are scarce, and there remain factors, such as itch and pain, which cannot be measured objectively. On reviewing the available evidence, a panel of devices for objective scar measurement is recommended consisting of the 3D cameras (Eykona/Lifeviz/Vectra H1) for surface area and volume, DSM II colorimeter for colour, Dermascan high-frequency ultrasound for scar thickness and Cutometer for skin elasticity and pliability

Top ten research priorities in global burns care: findings from the James Lind Alliance Global Burns Research Priority Setting Partnership

Flores, Orlando; Gabriel, Vincent; Dhruv Ghosh; Gondwe, Jotham; Harada, Teruichi; Jagnoor, Jagnoor; Ranjan Keshri, Vikash; Luo, Goaxing; Mc Kittrick, Andrea; Meyers, Natalie; Pargal, Pinki; Parrish, Carisa; Pelchat, Marie-Claude; Rezaeian, Mohsen; Sanyang, Edrisa; Suroy, Atul; Taibi, Khaled; Ait Abderrahim, Leila; Molina Vana, Luiz Philipe; Wang, Katie; Zia, Nukhba; Blazeby, Jane; Young, Amber.Versión Publicad