22 Works
Data from: On the origin of mongrels: evolutionary history of free-breeding dogs in Eurasia
Małgorzata Pilot, Tadeusz Malewski, Andre E. Moura, Tomasz Grzybowski, Kamil Oleński, Anna Ruść, Stanisław Kamiński, Fernanda Fadel, Daniel S. Mills, Abdulaziz N. Alagaili, Osama B. Mohammed, Grzegorz Kłys, Innokentiy M. Okhlopkov, Ewa Suchecka, Wieslaw Bogdanowicz & Fernanda Ruiz Fadel
Although a large part of the global domestic dog population is free-ranging and free-breeding, knowledge of genetic diversity in these free-breeding dogs (FBDs) and their ancestry relations to pure-breed dogs is limited, and the indigenous status of FBDs in Asia is still uncertain. We analyse genome-wide SNP variability of FBDs across Eurasia, and show that they display weak genetic structure and are genetically distinct from pure-breed dogs rather than constituting an admixture of breeds. Our...
Data from: Ancient genomes revisit the ancestry of domestic and Przewalski’s horses
Charleen Gaunitz, Antoine Fages, Kristian Hanghøj, Anders Albrechtsen, Naveed Khan, Mikkel Schubert, Andaine Seguin-Orlando, Ivy J. Owens, Sabine Felkel, Olivier Bignon-Lau, Peter De Barros Damgaard, Alissa Mittnik, Azadeh F. Mohaseb, Hossein Davoudi, Saleh Alquraishi, Ahmed H. Alfarhan, Khaled A. S. Al-Rasheid, Eric Crubézy, Norbert Benecke, Sandra Olsen, Dorcas Brown, David Anthony, Ken Massy, Vladimir Pitulko, Aleksei Kasparov … & Ludovic Orlando
The Eneolithic Botai culture of the Central Asian steppes provides the earliest archaeological evidence for horse husbandry, ~5500 years ago, but the exact nature of early horse domestication remains controversial. We generated 42 ancient-horse genomes, including 20 from Botai. Compared to 46 published ancient- and modern-horse genomes, our data indicate that Przewalski’s horses are the feral descendants of horses herded at Botai and not truly wild horses. All domestic horses dated from ~4000 years ago...
Efficacy of treatments for polycystic ovarian syndrome management in adolescents: a systematic review and network meta-analysis
Reem Al Khalifah, Ivan Florez, Michael Zoratti, Brittany Dennis, Lehana Thabane & Ereny Bassilious
Limited evidence on treatment options for polycystic ovarian syndrome (PCOS) has led to considerable variation in healthcare practices. We aimed to compare the effects of metformin and/or oral contraceptive pills (OCPs) in combination with pioglitazone, spironolactone, flutamide, and lifestyle interventions among adolescents aged 11-19 years with PCOS. Literature searches were performed in Medline, Embase, and the Cochrane Central Register of Controlled Trials from database inception through December 2018, with no language restriction. Two reviewers screened...
Az Zabirah South Zone chemistry data
Paul Asimow
Tabular data for whole-rock chemistry of bauxite samples from the Az Zabirah South Zone bauxite deposit, Saudi Arabia.
Data from: Very high MHC Class IIB diversity without spatial differentiation in the Mediterranean population of Greater Flamingos
Mark A. F. Gillingham, Arnaud Béchet, Alexandre Courtiol, Manuel Rendón-Martos, Juan A. Amat, Boudjéma Samraoui, Ortaç Onmuş, Simone Sommer & Frank Cézilly
Background: Selective pressure from pathogens is thought to shape the allelic diversity of major histocompatibility complex (MHC) genes in vertebrates. In particular, both local adaptation to pathogens and gene flow are thought to explain a large part of the intraspecific variation observed in MHC allelic diversity. To date, however, evidence that adaptation to locally prevalent pathogens maintains MHC variation is limited to species with limited dispersal and, hence, reduced gene flow. On the one hand...
Data from: Long-distance dispersal maximizes evolutionary potential during rapid geographic range expansion
Cécile Berthouly-Salazar, Cang Hui, Tim M. Blackburn, Coline Gaboriaud, Berndt J. Van Rensburg, Bettine Jansen Van Vuuren & Johannes J. Le Roux
Conventional wisdom predicts that sequential founder events will cause genetic diversity to erode in species with expanding geographic ranges, limiting evolutionary potential at the range margin. Here, we show that invasive European starlings (Sturnus vulgaris) in South Africa preserve genetic diversity during range expansion, possibly as a result of frequent long-distance dispersal events. We further show that unfavourable environmental conditions trigger enhanced dispersal, as indicated by signatures of selection detected across the expanding range. This...
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins
Ruth Fernández, Mikkel Schubert, A. M. Vargas-Velázquez, Andrew Brownlow, Gisli A. Víkingsson, Ursula Siebert, Lasse Fast Jensen, Nils Øien, Dave Wall, Emer Rogan, Bjarni Mikkelsen, Willy Dabin, Gilles Guillot, Ludovic Orlando, A. H. Alfarhan, S. A. Alquraishi & K. A. S. Al-Rasheid
The field of population genetics is rapidly moving into population genomics as the quantity of data generated by high-throughput sequencing platforms increases. In this study, we used restriction-site-associated DNA sequencing (RADSeq) to recover genomewide genotypes from 70 white-beaked (Lagenorhynchus albirostris) and 43 Atlantic white-sided dolphins (L. acutus) gathered throughout their north-east Atlantic distribution range. Both species are at a high risk of being negatively affected by climate change. Here, we provide a resource of 38...
Data from: Evolutionary patterns and processes: lessons from ancient DNA
Michela Leonardi, Pablo Librado, Clio Der Sarkissian, Mikkel Schubert, Ahmed H. Alfarhan, Saleh A. Alquraishi, Khaled A. S. Al-Rasheid, Cristina Gamba, Eske Willerslev & Ludovic Orlando
Ever since its emergence in 1984, the field of ancient DNA has struggled to overcome the challenges related to the decay of DNA molecules in the fossil record. With the recent development of high-throughput DNA sequencing technologies and molecular techniques tailored to ultra-damaged templates, it has now come of age, merging together approaches in phylogenomics, population genomics, epigenomics, and metagenomics. Leveraging on complete temporal sample series, ancient DNA provides direct access to the most important...
Description of Four Novel Species in Pleosporales associated with Coffee in Yunnan, China
Li Lu, Samantha C. Karunarathna, Dong-Qin Dai, Yin-ru Xiong, Nakarin Suwannarach, Steven L. Stephenson, Abdallah M. Elgorban, Salim Al-Rejaie, Ruvishika S. Jayawardena & Saowaluck Tibpromma
Based on molecular phylogenetic analyses of combined ITS, LSU, SSU, rpb2, and tef1-α sequence data and morphological characteristics, four new species viz. Deniquelata yunnanensis, Paraconiothyrium yunnanensis, Pseudocoleophoma puerensis and Pse. yunnanensis and three new records viz. Austropleospora keteleeriae, Montagnula thailandica and Xenocamarosporium acaciae in Pleosporales are introduced.
Data from: Phylogenomic analyses reveal convergent patterns of adaptive evolution in elephant and human ancestries
Morris Goodman, Kirstin N. Sterner, M. Munirul Islam, Monica Uddin, Chet C. Sherwood, Patrick R. Hof, Zhuo-Cheng Hou, Leonard Lipovich, Hui Jia, Lawrence I. Grossman, Derek E. Wildman, M. Islam & Z. C. Hou
Specific sets of brain-expressed genes, such as aerobic energy metabolism genes, evolved adaptively in the ancestry of humans and may have evolved adaptively in the ancestry of other large-brained mammals. The recent addition of genomes from two afrotherians (elephant and tenrec) to the expanding set of publically available sequenced mammalian genomes provided an opportunity to test this hypothesis. Elephants resemble humans by having large brains and long life spans; tenrecs, in contrast, have small brains...
Data from: A highly sensitive LC-MS/MS method to determine novel Bruton's tyrosine kinase inhibitor spebrutinib: application to metabolic stability evaluation
Ali Abdelhameed, Mohamed Attwa, Nasser S. Al-Shaklia & Adnan Ahmed Kadi
Spebrutinib (SBT) is a Bruton's tyrosine kinase inhibitor. SBT is currently in phase II and phase I clinical trials for the management of rheumatoid arthritis and chronic lymphocytic leukaemia, respectively. We developed and validated a liquid chromatography tandem mass spectrometry analytical method to quantify SBT and investigate its metabolic stability. SBT and the naquotinib as internal standard were isocratically eluted on a C18 column. The linearity of the developed method is 5-500 ng/mL (r2≥ 0.9999)...
Description of Four Novel Species in Pleosporales associated with Coffee in Yunnan, China
Li Lu, Samantha C. Karunarathna, Dong-Qin Dai, Yin-ru Xiong, Nakarin Suwannarach, Steven L. Stephenson, Abdallah M. Elgorban, Salim Al-Rejaie, Ruvishika S. Jayawardena & Saowaluck Tibpromma
Based on molecular phylogenetic analyses of combined ITS, LSU, SSU, rpb2, and tef1-α sequence data and morphological characteristics, four new species viz. Deniquelata yunnanensis, Paraconiothyrium yunnanensis, Pseudocoleophoma puerensis and Pse. yunnanensis and three new records viz. Austropleospora keteleeriae, Montagnula thailandica and Xenocamarosporium acaciae in Pleosporales are introduced.
Additional file 1 of An investigation of codon usage pattern analysis in pancreatitis associated genes
Yuanyang Li, Rekha Khandia, Marios Papadakis, Athanasios Alexiou, Alexander Nikolaevich Simonov & Azmat Ali Khan
Additional file 1:
African smoke particles act as cloud condensation nuclei in the wintertime tropical North Atlantic boundary layer over Barbados
Haley Royer, Mira Pöhlker, Ovid Oktavian Krueger, Edmund Blades, Peter Sealy, Nurun Nahar Lata, Zezhen Cheng, Swarup China, Andrew Ault, Patricia Quinn, Paquita Zuidema, Christopher Pöhlker, Ulrich Pöschl, Meinrat Andreae & Cassandra Gaston
The number concentration and properties of aerosol particles serving as cloud condensation nuclei (CCN) are important for understanding cloud properties, including in the tropical Atlantic marine boundary layer (MBL), where marine cumulus clouds reflect incoming solar radiation and obscure the low-albedo ocean surface. Studies linking aerosol source, composition, and water uptake properties in this region have been conducted primarily during the summertime dust transport season, despite the region receiving a variety of aerosol particle types...
COVID-19 Vaccination perceptions of HCWs
Mazin Barry
Objectives: This study aimed to identify COVID-19 vaccine perception, acceptance, confidence, hesitancy, and barriers among healthcare workers (HCW). Methods: An online national cross-sectional pilot-validated questionnaire was self-administered by HCW in Saudi Arabia, a nation with MERS-CoV experience. The main outcome variable was HCW’s acceptance of COVID-19 vaccine candidates. The associated factors of vaccination acceptance were identified through a logistic regression analysis and the level of anxiety using a validated instrument to measure general anxiety levels....
Additional file 1 of Spatio-temporal forecasting of future volcanism at Harrat Khaybar, Saudi Arabia
Abdullah Alohali, Daniel Bertin, Shanaka de Silva, Shane Cronin, Robert Duncan, Saleh Qaysi & Mohammed R. Moufti
Additional file 1. Excel file containing separate sheets for each dataset analyzed in this study. It includes spatial and temporal datasets for Harrat Khaybar such as vent and fissure locations, bandwidth matrices, age data, recurrence rates, and spatio-temporal cumulative probabilities.
Additional file 1 of Spatio-temporal forecasting of future volcanism at Harrat Khaybar, Saudi Arabia
Abdullah Alohali, Daniel Bertin, Shanaka de Silva, Shane Cronin, Robert Duncan, Saleh Qaysi & Mohammed R. Moufti
Additional file 1. Excel file containing separate sheets for each dataset analyzed in this study. It includes spatial and temporal datasets for Harrat Khaybar such as vent and fissure locations, bandwidth matrices, age data, recurrence rates, and spatio-temporal cumulative probabilities.
Data from: Accuracy and readability of cardiovascular entries on Wikipedia: are they reliable learning resources for medical students?
Samy A. Azer, Nourah M. Al-Swaidan, Lama A. Al-Shwairikh & Jumana M. Al-Shammari
Objective: To evaluate accuracy of content and readability level of English Wikipedia articles on cardiovascular diseases, using quality and readability tools. Methods: Wikipedia was searched on the 6 October 2013 for articles on cardiovascular diseases. Using a modified DISCERN (DISCERN is an instrument widely used in assessing online resources), articles were independently scored by three assessors. The readability was calculated using Flesch-Kincaid Grade Level. The inter-rater agreement between evaluators was calculated using the Fleiss κ...
Data from: Susceptibility to type 2 diabetes may be modulated by haplotypes in G6PC2, a target of positive selection
Nasser M. Al-Daghri, Chiara Pontremoli, Rachele Cagliani, Diego Forni, Majed S. Alokail, Omar S. Al-Attas, Shaun Sabico, Stefania Riva, Mario Clerici & Manuela Sironi
Background: The endoplasmic reticulum enzyme glucose-6-phosphatase catalyzes the common terminal reaction in the gluconeogenic/glycogenolytic pathways and plays a central role in glucose homeostasis. In most mammals, different G6PC subunits are encoded by three paralogous genes (G6PC, G6PC2, and G6PC3). Mutations in G6PC and G6PC3 are responsible for human mendelian diseases, whereas variants in G6PC2 are associated with fasting glucose (FG) levels. Results: We analyzed the evolutionary history of G6Pase genes. Results indicated that the three...
Data from: Identification of reactive intermediate formation and bioactivation pathways in Abemaciclib metabolism by LC–MS/MS: in vitro metabolic investigation
Adnan A. Kadi, Hany W. Darwish, Hatem A. Abuelizz, Thamer A. Alsubi & Mohamed W. Attwa
Abemaciclib (Verzenio®) is approved as tyrosine kinase inhibitor (TKI) for breast cancer treatment. In this study, in vitro phase I metabolic profiling of Abemaciclib (ABC) was done using rat liver microsomes (RLMs). We checked the formation of reactive intermediates in ABC metabolism using (RLMs) in the presence of potassium cyanide (KCN) that was used as capturing agent for iminium reactive intermediates forming a stable complex that can be characterized by LC-MS/MS. Nine in vitro phase...
Animal lifestyle affects acceptable mass limits for attached tags
Rory Wilson, Kayleigh Rose, Richard Gunner, Mark Holton, Nikki Marks, Nigel Bennett, Stephen Bell, Joshua Twining, Jamie Hesketh, Carlos Duarte, Neil Bezodis, Milos Jezek, Michael Painter, Vaclav Silovsky, Margaret Crofoot, Roi Harel, John Arnould, Blake Allan, Desley Whisson, Abdulaziz Alagaili & David Scantlebury
Animal-attached devices have transformed our understanding of vertebrate ecology. To minimize any associated harm, researchers have long advocated that tag masses should not exceed 3% of carrier body mass. However, this ignores tag forces resulting from animal movement. Using data from collar-attached accelerometers on 10 diverse free-ranging terrestrial species from koalas to cheetahs, we detail a tag-based acceleration method to clarify acceptable tag mass limits. We quantify animal athleticism in terms of fractions of animal...
Additional file 1 of An investigation of codon usage pattern analysis in pancreatitis associated genes
Yuanyang Li, Rekha Khandia, Marios Papadakis, Athanasios Alexiou, Alexander Nikolaevich Simonov & Azmat Ali Khan
Additional file 1: