80 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.

Lead-Immobilization, transformation, and induced toxicity alleviation in sunflower using nanoscale Fe°/BC: Experimental insights with Mechanistic validations

Muhammad Rizwan Aslam, Muhammad Waris, Ihsan Muhammad, Maqbool Ahmed, Zahid Khan, Zobia Jabeen, Mohammad Yakoob Zehri, Muhammad Arsalan, Sidra Rehman, Abeer M. Alnasrawi, Jawaher Alkahtani, Mohamed S. Elshikh, Muhammad Rizwan, Shoaib Raza, Jinsong Deng & Adnan Raza Altaf
Lead (Pb) is a biologically non-essential element in the soil that brutally affects plants and other living organisms in soil; hence, its removal has become a worldwide concern. In this work, a multifunctional nanoscale zerovalent-iron assisted biochar (nFe°/BC) was used to minimize the Pb bioavailability in soil with aim of alleviating the Pb-induced toxicity in sunflower. Results revealed that nFe°/BC treatment had significantly improved plant growth (58%), chlorophyll contents (66%), intracellular permeability (60%), and ratio...

Additional file 2 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 2. Analytical data for each of the 15 age determinations of Harrat Khaybar rock that was used in this study.

Additional file 1 of Biosynthesized silver nanoparticles and miR34a mimics mediated activation of death receptor in MCF-7 human breast cancer cell lines

Muhammad Javed Iqbal, Umer Rashid, Zeeshan Javed, Zara Hamid, Komal Imran, Ayesha Kabeer, Shahid Raza, Zainab M. Almarhoon, Željko Reiner, Iulia-Cristina Bagiu, Radu Vasile Bagiu, Ioan Sarac, Javad Sharifi-Rad, Alibek Ydyrys, Sevgi Durna Daştan, Monica Butnariu & William C. Cho
Additional file 1. Fold expression of DR4 and DR5 genes.

Recommendations for the treatment of rheumatoid arthritis in Saudi Arabia: adolopment of the 2021 American College of Rheumatology guidelines

Mohammed A. Omair, Hanan Al Rayes, Joanne Khabsa, Sally Yaacoub, Sultana Abdulaziz, Ghada A. Al Janobi, Abdulaziz Al Khalaf, Bader Al Mehmadi, Mahasin Al Nassar, Faisal AlBalawi, Abdullah S. AlFurayj, Ahmed Hamdan Al-Jedai, Haya Mohammed Almalag, Hajer Yousef Almudaiheem, Ali AlRehaily, Mohammed A. Attar, Lina El Kibbi, Hussein Halabi, Manal Hasan, Jasvinder A. Singh, Liana Fraenkel & Elie A. Akl
Abstract Background The 2021 American College of Rheumatology (ACR) rheumatoid arthritis (RA) guideline considers the specific context of the United States which differs from that of Saudi Arabia in many aspects that may impact recommendations. The objective of this project was to adapt a set of prioritized recommendations from the 2021 ACR guideline for the treatment of rheumatoid arthritis RA for the context of Saudi Arabia, by the Saudi Society for Rheumatology (SSR). Methods The...

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
Abstract Background Pancreatitis is an inflammatory disorder resulting from the autoactivation of trypsinogen in the pancreas. The genetic basis of the disease is an old phenomenon, and evidence is accumulating for the involvement of synonymous/non-synonymous codon variants in disease initiation and progression. Results The present study envisaged a panel of 26 genes involved in pancreatitis for their codon choices, compositional analysis, relative dinucleotide frequency, nucleotide disproportion, protein physical properties, gene expression, codon bias, and interrelated...

sj-pdf-1-trj-10.1177_00405175221145571 - Supplemental material for An image processing and machine learning solution to automate Egyptian cotton lint grading

Oliver J Fisher, Ahmed Rady, Aly AA El-Banna, Nicholas J Watson & Haitham H Emaish
Supplemental material, sj-pdf-1-trj-10.1177_00405175221145571 for An image processing and machine learning solution to automate Egyptian cotton lint grading by Oliver J Fisher, Ahmed Rady, Aly AA El-Banna, Nicholas J Watson and Haitham H Emaish in Textile Research Journal

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...

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: 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...

Is COVID-19 associated with self-reported audio-vestibular symptoms?

Arwa AlJasser, Walid Alkeridy, Kevin J. Munro & Christopher J. Plack
To determine if a positive test for COVID-19 is associated with self-reported audio-vestibular symptoms. Self-reported changes in hearing, tinnitus, hyperacusis, and dizziness/rotatory vertigo were assessed in hospitalised and non-hospitalised COVID-19 patients during and after the acute phase of the disease and compared to non-COVID controls. There were 150 severe cases of COVID-19 requiring hospital admission and 150 mild cases that were managed at home. Controls were 267 adults, 32 of whom had been hospitalised for...

Additional file 2 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 2. Analytical data for each of the 15 age determinations of Harrat Khaybar rock that was used in this study.

Additional file 5 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 5. Spatio-temporal probability isocontour maps obtained by multiplying the values of the spatial analysis of last 300 ka eruptions by their long-term average recurrence rate, 1.1 eruptions/10 kyr. (a, b, and c) Maps show the probabilities of occurrence of at least one eruption in Harrat Khaybar for the next 1, 10, and 1000 years, respectively.

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.

Biosynthesized silver nanoparticles and miR34a mimics mediated activation of death receptor in MCF-7 human breast cancer cell lines

Muhammad Javed Iqbal, Umer Rashid, Zeeshan Javed, Zara Hamid, Komal Imran, Ayesha Kabeer, Shahid Raza, Zainab M. Almarhoon, Željko Reiner, Iulia-Cristina Bagiu, Radu Vasile Bagiu, Ioan Sarac, Javad Sharifi-Rad, Alibek Ydyrys, Sevgi Durna Daştan, Monica Butnariu & William C. Cho
Abstract Nano-biotechnology-based clinical applications to cure health-related issues have gained huge attention among the scientific community and hold great promise to limit cancer metastasis. In this study, green-derived silver nanoparticles were synthesized by using leaf extract of Litchi chinensis. Characterization of biosynthesized silver nanoparticles was performed by using UV–Vis spectroscopy, FTIR, XRD, EDS, and SEM analysis. The clinical application of green-drive nanoparticles was investigated by using MCF-7 cancer cell lines. MCF-7 breast cancer cell lines...

Additional file 2 of Emergence of equine influenza virus H3Nx Florida clade 2 in Arabian racehorses in Egypt

Basem Mohamed Ahmed, Mahmoud Mohamed Bayoumi, Mohamed Ali Farrag, Mahmoud Aly Elgamal, Janet Mary Daly & Haitham Mohamed Amer
Additional file 2. Supplementary Table 1: Accession codes for EIV HA1 sequences included in phylogenetic analysis figures 1. The bold sequences indicate the GISAID obtained sequences representing 2015-2016 EI outbreak in Scotland and England. Supplementary Table 2: Accession codes for sequences used in table 2 and figure 2 alignments. GISAID accession numbers are highlighted in bold.

Lead-Immobilization, transformation, and induced toxicity alleviation in sunflower using nanoscale Fe°/BC: Experimental insights with Mechanistic validations

Muhammad Rizwan Aslam, Muhammad Waris, Ihsan Muhammad, Maqbool Ahmed, Zahid Khan, Zobia Jabeen, Mohammad Yakoob Zehri, Muhammad Arsalan, Sidra Rehman, Abeer M. Alnasrawi, Jawaher Alkahtani, Mohamed S. Elshikh, Muhammad Rizwan, Shoaib Raza, Jinsong Deng & Adnan Raza Altaf
Lead (Pb) is a biologically non-essential element in the soil that brutally affects plants and other living organisms in soil; hence, its removal has become a worldwide concern. In this work, a multifunctional nanoscale zerovalent-iron assisted biochar (nFe°/BC) was used to minimize the Pb bioavailability in soil with aim of alleviating the Pb-induced toxicity in sunflower. Results revealed that nFe°/BC treatment had significantly improved plant growth (58%), chlorophyll contents (66%), intracellular permeability (60%), and ratio...

Additional file 3 of Recommendations for the treatment of rheumatoid arthritis in Saudi Arabia: adolopment of the 2021 American College of Rheumatology guidelines

Mohammed A. Omair, Hanan Al Rayes, Joanne Khabsa, Sally Yaacoub, Sultana Abdulaziz, Ghada A. Al Janobi, Abdulaziz Al Khalaf, Bader Al Mehmadi, Mahasin Al Nassar, Faisal AlBalawi, Abdullah S. AlFurayj, Ahmed Hamdan Al-Jedai, Haya Mohammed Almalag, Hajer Yousef Almudaiheem, Ali AlRehaily, Mohammed A. Attar, Lina El Kibbi, Hussein Halabi, Manal Hasan, Jasvinder A. Singh, Liana Fraenkel & Elie A. Akl
Additional file 3. Evidence to Decision tables.

Recommendations for the treatment of rheumatoid arthritis in Saudi Arabia: adolopment of the 2021 American College of Rheumatology guidelines

Mohammed A. Omair, Hanan Al Rayes, Joanne Khabsa, Sally Yaacoub, Sultana Abdulaziz, Ghada A. Al Janobi, Abdulaziz Al Khalaf, Bader Al Mehmadi, Mahasin Al Nassar, Faisal AlBalawi, Abdullah S. AlFurayj, Ahmed Hamdan Al-Jedai, Haya Mohammed Almalag, Hajer Yousef Almudaiheem, Ali AlRehaily, Mohammed A. Attar, Lina El Kibbi, Hussein Halabi, Manal Hasan, Jasvinder A. Singh, Liana Fraenkel & Elie A. Akl
Abstract Background The 2021 American College of Rheumatology (ACR) rheumatoid arthritis (RA) guideline considers the specific context of the United States which differs from that of Saudi Arabia in many aspects that may impact recommendations. The objective of this project was to adapt a set of prioritized recommendations from the 2021 ACR guideline for the treatment of rheumatoid arthritis RA for the context of Saudi Arabia, by the Saudi Society for Rheumatology (SSR). Methods The...

An image processing and machine learning solution to automate Egyptian cotton lint grading

Oliver J Fisher, Ahmed Rady, Aly AA El-Banna, Nicholas J Watson & Haitham H Emaish
Egyptian cotton is one of the most important commodities for the Egyptian economy and is renowned globally for its quality, which is largely assessed and graded by manual inspection. This grading has several drawbacks, including significant labor requirements, low inspection efficiency, and influence from inspection conditions such as light and human subjectivity. This work proposes a low-cost solution to replace manual inspection with classification models to grade Egyptian cotton lint using images captured by a...

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...

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