26 results on '"Bahbahani, H."'
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2. Genetic structure of Arabian Peninsula dromedary camels revealed three geographic groups
- Author
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Almathen, F., primary, Bahbahani, H., additional, Elbir, H., additional, Alfattah, M., additional, Sheikh, A., additional, and Hanotte, O., additional
- Published
- 2021
- Full Text
- View/download PDF
3. Genetic structure of Arabian Peninsula dromedary camels revealed three geographic groups.
- Author
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Almathen, F., Bahbahani, H., Elbir, H., Alfattah, M., Sheikh, A., and Hanotte, O.
- Abstract
Dromedary camels (Camelus dromedarius) are widespread in the desert and semi-desert areas of Africa, the Arabian Peninsula, some parts of southwest Asia and Australia. In the Arabian Peninsula, these well-adapted species have been classified based on their ecology into Desert camels, found mainly in the north and center of the Peninsula, Mountain camels, distributed along the west and south of the Peninsula, and Beach camels, populating the west to southwest of the Peninsula. Here, we aimed to investigate the genetic relationship between 386 camels corresponding to 12 dromedary populations from different geographical locations and ecology in the Arabian Peninsula with the genotyping of 17 microsatellite loci. No significant deviation was observed in heterozygosity, allelic richness, F is (inbreeding coefficient) among the studied populations had a mean value of 0.5849, 4.808 and 0.04, respectively. A mean F st (fixation index) value of 0.0304 was calculated for the various populations with the highest value obtained between racing Omani and Awarik camel populations (0.079). Both the neighbor-joining phylogenetic tree and the STRUCTURE analysis divided the populations into three different groups corresponding to their Arabian Peninsula geographic location (North, Central and West, South-West, and South-East of the Arabian Peninsula), rather than their ecological classification, with a high level of genetic admixture and gene flow among them. Investigating the genetic relationship of dromedary populations in the Arabian Peninsula can be considered as the first milestone to conserve this well-adapted species. The results obtained here need to be further validated using whole genome sequencing data. [ABSTRACT FROM AUTHOR]
- Published
- 2022
- Full Text
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4. Tracking Zebu Introgression in Mediterranean Cattle Breeds
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Ajmone Marsan, P., Bahbahani, H., Ciani, E., D'Andrea, M., Decker, J., Gaouar, S., Landi, V., Lucchini, R., Marras, G., Medjugorac, I., Marroni, F., Mastrangelo, S., Nicolazzi, E., Pilla, F., Rocha, D., Simcic, M., Taylor, J., Valentini, A., P. Ajmone Marsan, H. M Bahbahani, E. Ciani, M. D'Andrea, J. E. Decker, S. Gaouar, V. Landi, R. Lucchini, G. Marra, I. Medjugorac, F. Marroni, S. Mastrangelo, E. L. Nicolazzi, F. Pilla, D. Rocha, M. Simcic, J. F. Taylor, and A. Valentini.
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Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico ,Zebù, SNPs, cattle breeds - Abstract
A recent work investigating genetic origin, admixture and population history of primitive European cattle highlighted, by using genome-wide single nucleotide polymorphisms, zebu gene flow in the Balkan and Italian Podolic cattle populations. Haemoglobin protein polymorphism analysis in Italian breeds highlighted the presence of zebuine markers in both Italian Podolic and Alpine Grey cattle. Based on the above evidences, we here specifically look for genomic regions of zebuine ancestry in a different dataset of 50K genotypes from Mediterranean breeds including 29 Marismena (Spain); 30 Bazadaise and 30 Gasconne (France); 24 Alpine Grey, 97 Piemontese, 51 Chianina, 5 Marchigiana, 121 Romagnola, 24 Podolica, 24 Modenese, 30 Reggiana, 30 Cinisara and 30 Modicana (Italy); 24 Guelmoise (Algeria); 24 Cika (Slovenia), 43 Illyrian Mountain Buša (Albania). Additional taurine and zebuine breeds from previously published studies are also included in the analyses. Special emphasis in genetic analyses is also given to the identification of genomic regions potentially associated with a phenotypic trait observed in several taurine breeds as well as in some zebuine breeds, characterized by calves having a fawn coat at birth, while turning to various shades of grey in adult animals. The obtained results contribute to a better characterization of history and genetic structure of Mediterranean cattle breeds.
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- 2017
5. P5004 Identification of signatures of selection and assessing the diversity of East African Shorthorn Zebu mitochondrial DNA
- Author
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Bahbahani, H., primary, Mwacharo, J., additional, and Hanotte, O., additional
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- 2016
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6. Genetic resistance: tolerance to vector-borne diseases and the prospects and challenges of genomics
- Author
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BAHBAHANI, H., primary and HANOTTE, O., additional
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- 2015
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7. Novel and known signals of selection for fat deposition in domestic sheep breeds from Africa and Eurasia
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Abulgasim Ahbara, Elena Ciani, Baldassare Portolano, Anne Da Silva, Salvatore Mastrangelo, Faisal Almathen, Ibrahim Belabdi, Olivier Hanotte, B. Moioli, Hussain Bahbahani, Fabio Pilla, Joram M. Mwacharo, Mohammed Al Abri, University of Palermo, Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Consiglio per la Ricerca in Agricoltura e l’analisi dell’economia agraria (CREA), University Park, Misurata University, Sultan Qaboos University (SQU), King Faisal University - College of Agriculture and Food Sciences, King Faisal University (KFU), Génomique AniMale, Amélioration, Adaptation (GAMAA), PEIRENE (PEIRENE), Institut Génomique, Environnement, Immunité, Santé, Thérapeutique (GEIST), Université de Limoges (UNILIM)-Université de Limoges (UNILIM)-Institut Génomique, Environnement, Immunité, Santé, Thérapeutique (GEIST), Université de Limoges (UNILIM)-Université de Limoges (UNILIM)-Institut National de la Recherche Agronomique (INRA), Université de Saâd Dahlab [Blida] (USDB ), International Center for Agricultural Research in the Dry Areas [Jordanie] (ICARDA), Università degli Studi del Molise (Unimol), Università degli Studi di Bari Aldo Moro, Mastrangelo S., Bahbahani H., Moioli B., Ahbara A., Al Abri M., Almathen F., Da Silva A., Belabdi I., Portolano B., Mwacharo J.M., Hanotte O., Pilla F., and Ciani E.
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0301 basic medicine ,Candidate gene ,Topography ,European People ,Heredity ,[SDV]Life Sciences [q-bio] ,Social Sciences ,Genome-wide association study ,Breeding ,Biochemistry ,Homozygosity ,Nucleotide diversity ,Fats ,Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico ,Cell Signaling ,Genotype ,Psychology ,Ethnicities ,Body Fat Distribution ,2. Zero hunger ,Mammals ,Islands ,sheep, fat tail, SNP, selection sigantures, candidate genes ,Multidisciplinary ,Animal Behavior ,Homozygote ,Eukaryota ,Single Nucleotide ,04 agricultural and veterinary sciences ,Ruminants ,Phenotype ,Lipids ,Breed ,Italian People ,Africa ,Animals ,Asia ,Genome-Wide Association Study ,Polymorphism, Single Nucleotide ,Sheep ,Selection, Genetic ,Vertebrates ,Medicine ,Genomic Signal Processing ,Research Article ,Signal Transduction ,Science ,Single-nucleotide polymorphism ,Genomics ,Quantitative trait locus ,Biology ,Animal Sexual Behavior ,Molecular Genetics ,03 medical and health sciences ,Genetic ,Genetics ,SNP ,Polymorphism ,Selection ,Molecular Biology ,Selection (genetic algorithm) ,Behavior ,Landforms ,0402 animal and dairy science ,Organisms ,Biology and Life Sciences ,Geomorphology ,Cell Biology ,040201 dairy & animal science ,030104 developmental biology ,Evolutionary biology ,Amniotes ,People and Places ,Earth Sciences ,Population Groupings ,Zoology - Abstract
International audience; Genomic regions subjected to selection frequently show signatures such as within-population reduced nucleotide diversity and outlier values of differentiation among differentially selected populations. In this study, we analyzed 50K SNP genotype data of 373 animals belonging to 23 sheep breeds of different geographic origins using the Rsb (extended haplotype homozygosity) and FST statistical approaches, to identify loci associated with the fat-tail phenotype. We also checked if these putative selection signatures overlapped with regions of high-homozygosity (ROH). The analyses identified novel signals and confirmed the presence of selection signature in genomic regions that harbor candidate genes known to affect fat deposition. Several genomic regions that frequently appeared in ROH were also identified within each breed, but only two ROH islands overlapped with the putative selection signatures. The results reported herein provide the most complete genome-wide study of selection signatures for fat-tail in African and Eurasian sheep breeds; they also contribute insights into the genetic basis for the fat tail phenotype in sheep, and confirm the great complexity of the mechanisms that underlie quantitative traits, such as the fat-tail.
- Published
- 2019
8. A comprehensive map of copy number variations in dromedary camels based on whole genome sequence data.
- Author
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Bahbahani H, Mohammad Z, Al-Ateeqi A, and Almathen F
- Subjects
- Animals, Whole Genome Sequencing methods, Genome, Chromosome Mapping, Camelus genetics, DNA Copy Number Variations genetics
- Abstract
Copy number variants (CNVs) are structural variants within the eukaryotic genome that vary among individuals of a species. These variants have been associated with different phenotypic traits, making them a valuable consideration as markers for designing breeding programmes. In this study, whole genome sequence data of 60 dromedary camel samples originating from the Arabian Peninsula were analyzed to construct a comprehensive dromedary CNV map. Utilizing four CNV callers employing read-depth, split-read and paired-end mapping approaches, a total of 37,519 CNV events (17,847 deletions and 19,672 duplications) were called on the dromedary autosomes. These CNV events were merged into 2,557 regions, categorized as 1,322 losses, 122 gains, and 1,113 "mixed regions" comprising both types. The cumulative size of the CNV regions amounted to 22.5 Mb, covering roughly 1.16% of the dromedary autosomes. Approximately 32% of the defined CNV regions (comprising 60% losses, 18% gains, and 0.27% mixed regions) were found in ≥ 90% of the dromedary samples, classifying them as prevalent regions. Genes with biological functions related to the different adaptive physiologies of dromedary camels, such as fertility, heat stress, musculoskeletal development, and fat metabolism, were overlapping with or in close proximity to ~ 68% of the defined CNV regions, demonstrating their potential role in dromedaries' physiology. This study presents the first comprehensive CNV map of dromedary camels and builds on the present knowledge in understanding the genetic structure of this species., (© 2024. The Author(s).)
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- 2024
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9. Long-range linkage disequilibrium events on the genome of dromedary camels as a signal of epistatic and directional positive selection.
- Author
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Bahbahani H
- Abstract
The genome of dromedary camels has been subjected to various evolutionary forces, such as genetic admixture, natural positive selection, and epistatic selection. These forces are considered as main factors associated with the formation of long-range linkage disequilibrium (LRLD) events. We have analyzed whole-genome data of 56 dromedary camel samples from different geographical regions across the Arabian Peninsula for two main purposes: first, to assess the level of linkage disequilibrium, and second, to identify autosomal LRLD events. The analysis revealed a mean r
2 value of 0.25 (±0.028) over the dromedary autosomes, with a continuous decay until reaching a plateau at inter-variant distances >400 kb. A total of 1847 LRLD events were identified within the dromedary autosomes, which harbor 36 prevalent haplotypes. A level of genetic admixture was observed among the dromedary populations analyzed, which might be a source for the observed LRLD events. Four functional interactions were revealed among the genes found within the LRLD events, with some genes overlapping with prevalent haplotypes, indicative of potential epistatic selection. Genes related to renal function, fertility, thermal regulation, bone structure, and insulin regulation were found among the LRLD genes. These genes, along with the defined prevalent haplotypes, can be considered as hotspots for natural positive selection associated with the LRLD distribution on dromedary genomes. In this study, we have for the first time analyzed the genome of dromedary camels for LRLD events possibly influenced by forces including genetic admixture, epistatic and positive selection. The revealed LRLD elements and prevalent haplotypes should be accounted for when designing breeding programmes to conserve the genetic stock of this well-adapted domestic species., Competing Interests: The author declares that he has no financial competing interests., (© 2024 The Author. Published by Elsevier Ltd.)- Published
- 2024
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10. Assessing genetic diversity and defining signatures of positive selection on the genome of dromedary camels from the southeast of the Arabian Peninsula.
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Al Abri M, Alfoudari A, Mohammad Z, Almathen F, Al-Marzooqi W, Al-Hajri S, Al-Amri M, and Bahbahani H
- Abstract
Dromedary camels ( Camelus dromedarius ) are members of the Camelini tribe within the Camelidae family. They are distributed throughout North Africa, the Arabian Peninsula and Southeast Asia. This domestic species is characterized by its superior adaptability to the harsh desert environment. In this study, whole autosomal data of 29 dromedary samples from the Southeast Arabian Peninsula in Oman; 10 from Muscat, 14 from Al-Batinah, and 5 from Al-Sharqiya, were investigated to assess their genetic relationship and to define candidate signatures of positive selection. A minimal genetic distinction that separates Muscat dromedaries from the other two populations was observed, with a degree of genetic admixture between them. Using the de-correlated composite of multiple signals (DCMS) approach, a total of 47 candidate regions within the autosomes of these dromedary populations were defined with signatures of positive selection. These candidate regions harbor a total of 154 genes that are mainly associated with functional categories related to immune response, lipid metabolism and energy expenditure, optical and auditory functions, and long-term memory. Different functional genomic variants were called on the candidate regions and respective genes that warrant further investigation to find possible association with the different favorable phenotypes in dromedaries. The output of this study paves the way for further research efforts aimed at defining markers for use in genomic breeding programs, with the goal of conserving the genetic diversity of the species and enhancing its productivity., Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2023 Al Abri, Alfoudari, Mohammad, Almathen, Al-Marzooqi, Al-Hajri, Al-Amri and Bahbahani.)
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- 2023
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11. Impact of COVID-19 infection on the dialysis population prospective, observational, nationwide study.
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AlSahow A, AlQallaf A, AlYousef A, Bahbahani H, Bahbahani Y, AlHelal B, AlRajab H, AlMuhaiteeb A, Shalaby H, Elabbadi M, Elsebaei M, Abdallah E, Ayoub M, AbouTrabeh A, AlSarrajji M, AlAwadhi A, and Kumar R
- Subjects
- Male, Humans, Adult, Middle Aged, Aged, Female, Renal Dialysis adverse effects, Prospective Studies, Comorbidity, Hospitalization, COVID-19 complications, Kidney Failure, Chronic therapy
- Abstract
Introduction: Hemodialysis (HD) patients are at increased risk of severe COVID-19 infection but infection rates vary. Our objectives are to describe COVID-19 positive HD patients' characteristics, infection rates, and factors associated with mortality in HD COVID-19 cases in Kuwait., Methods: Data on demographics, comorbidities, and treatments received, as well as mortality for HD patients admitted to hospitals for COVID-19, from 1/March to 31/July 2020, prospectively collected and analyzed., Results: A total of 141 infected HD patients were admitted (Mean age 58 ± 16.1; Males 56%), representing 7% of the total HD population and 0.2% of all COVID-19 cases during the study period. Of those 141 infected HD patients, 27 (19%) died, and this represents 6% of total COVID-19-related mortality and 27% of the total HD mortality. In contrast, total covid-19-related mortality of all positive cases was only 0.7%, and total HD mortality during the study period was only 5%. COVID-19-positive HD patients who died were older and 59% were males. However, the differences were not statistically significant. Of the 61 infected HD patients who needed to be switched to continuous kidney replacement therapy (CKRT), 34% died, and of the 29 infected HD patients who needed admission to intensive care, 65% died., Conclusion: HD population represents a small fraction of the total population; however, positive HD COVID-19 cases represent a sizable proportion of COVID-19 cases and a significant percentage of total COVID-19-related mortality, and total HD mortality., (© 2022. The Author(s).)
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- 2023
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12. Signatures of purifying selection and site-specific positive selection on the mitochondrial DNA of dromedary camels (Camelus dromedarius).
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Bahbahani H, Al-Zoubi S, Ali F, Afana A, Dashti M, Al-Ateeqi A, Wragg D, Al-Bustan S, and Almathen F
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- Animals, Mitochondria genetics, Camelus genetics, DNA, Mitochondrial genetics, DNA, Mitochondrial chemistry
- Abstract
The two species of the Old World Camelini tribe, dromedary and Bactrian camels, show superior adaptability to the different environmental conditions they populate, e.g. desert, mountains and coastal areas, which might be associated with adaptive variations on their mitochondrial DNA. Here, we investigate signatures of natural selection in the 13-mitochondrial protein-coding genes of different dromedary camel populations from the Arabian Peninsula, Africa and southwest Asia. The full mitogenome sequences of 42 dromedaries, 38 domestic Bactrian, 29 wild Bactrian camels and 31 samples representing the New World Lamini tribe reveal species-wise genetic distinction among Camelidae family species, with no evidence of geographic distinction among dromedary camels. We observe gene-wide signals of adaptive divergence between the Old World and New World camels, with evidence of purifying selection among Old World camel species. Upon comparing the different Camelidae tribes, 27 amino acid substitutions across ten mtDNA protein-coding genes were found to be under positive selection, in which, 24 codons were defined to be under positive adaptive divergence between Old World and New World camels. Seven codons belonging to three genes demonstrated positive selection in dromedary lineage. A total of 89 codons were found to be under positive selection in Camelidae family based on investigating the impact of amino acid replacement on the physiochemical properties of proteins, including equilibrium constant and surrounding hydrophobicity. These mtDNA variants under positive selection in the Camelidae family might be associated with their adaptation to their contrasting environments., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2023 Elsevier B.V. and Mitochondria Research Society. All rights reserved.)
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- 2023
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13. Therapeutic role of immunomodulators during the COVID-19 pandemic- a narrative review.
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Al-Hajeri H, Baroun F, Abutiban F, Al-Mutairi M, Ali Y, Alawadhi A, Albasri A, Aldei A, AlEnizi A, Alhadhood N, Al-Herz A, Alkadi A, Alkanderi W, Almathkoori A, Almutairi N, Alsayegh S, Alturki A, Bahbahani H, Dehrab A, Ghanem A, Haji Hasan E, Hayat S, Saleh K, and Tarakmeh H
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- Humans, Immunization, Passive, Immunologic Factors therapeutic use, Pandemics, SARS-CoV-2, COVID-19 Serotherapy, COVID-19 therapy
- Abstract
The emergency state caused by COVID-19 saw the use of immunomodulators despite the absence of robust research. To date, the results of relatively few randomized controlled trials have been published, and methodological approaches are riddled with bias and heterogeneity. Anti-SARS-CoV-2 antibodies, convalescent plasma and the JAK inhibitor baricitinib have gained Emergency Use Authorizations and tentative recommendations for their use in clinical practice alone or in combination with other therapies. Anti-SARS-CoV-2 antibodies are predominating the management of non-hospitalized patients, while the inpatient setting is seeing the use of convalescent plasma, baricitinib, tofacitinib, tocilizumab, sarilumab, and corticosteroids, as applicable. Available clinical data also suggest the potential clinical benefit of the early administration of blood-derived products (e.g. convalescent plasma, non-SARS-CoV-2-specific immunoglobins) and the blockade of factors implicated in the hyperinflammatory state of severe COVID-19 (Interleukin 1 and 6; Janus Kinase). Immune therapies seem to have a protective effect and using immunomodulators alone or in combination with viral replication inhibitors and other treatment modalities might prevent progression into severe COVID-19 disease, cytokine storm and death. Future trials should address existing gaps and reshape the landscape of COVID-19 management.
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- 2022
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14. Homogeneity of Arabian Peninsula dromedary camel populations with signals of geographic distinction based on whole genome sequence data.
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Bahbahani H and Almathen F
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- Animals, Genetic Heterogeneity, Species Specificity, Camelus genetics, Genetic Variation, Genome, Polymorphism, Single Nucleotide, Whole Genome Sequencing
- Abstract
Dromedary camels in the Arabian Peninsula distribute along different geographical and ecological locations, e.g. desert, mountains and coasts. Here, we are aiming to explore the whole genome sequence data of ten dromedary populations from the Arabian Peninsula to assess their genetic structure, admixture levels, diversity and similarity indices. Upon including reference dromedary and Bactrian camel populations from Iran and Kazakhstan, we characterise inter-species and geographic genetic distinction between the dromedary and the Bactrian camels. Individual-based alpha genetic diversity profiles are found to be generally higher in Bactrian camels than dromedary populations, with the exception of five autosomes (NC_044525.1, NC_044534.1, NC_044540.1, NC_044542.1, NC_044544.1) at diversity orders (q ≥ 2). The Arabian Peninsula camels are generally homogenous, with a small degree of genetic distinction correlating with three geographic groups: North, Central and West; Southwest; and Southeast of the Arabian Peninsula. No significant variation in diversity or similarity indices are observed among the different Arabian Peninsula dromedary populations. This study contributes to our understanding of the genetic diversity of Arabian Peninsula dromedary camels. It will help conserve the genetic stock of this species and support the design of breeding programmes for genetic improvement of favorable traits., (© 2022. The Author(s).)
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- 2022
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15. Accessibility to biologics and its impact on disease activity and quality of life in patients with rheumatoid arthritis in Kuwait.
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Al-Herz A, Saleh K, Al-Awadhi A, Al-Kandari W, Hasan E, Ghanem A, Hussain M, Ali Y, Nahar E, Alenizi A, Hayat S, Abutiban F, Aldei A, Alhajeri H, Alhadhood N, Bahbahani H, Tarakmeh H, Mokaddem K, Khadrawy A, Fazal A, Zaman A, Mazloum G, Bartella Y, Hamed S, Alsouk R, and Al-Saber A
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- Adult, Humans, Kuwait epidemiology, Quality of Life, Antirheumatic Agents therapeutic use, Arthritis, Rheumatoid drug therapy, Biological Products therapeutic use
- Abstract
Objective: Biologics are indicated in rheumatoid arthritis (RA) in case of persistent high disease activity despite conventional disease-modifying anti-rheumatic drugs (cDMARDs) or patients with contraindications to cDMARDs or poor prognostic factors. The purpose of this study was to compare the prescription rates of biologics in Kuwaiti and non-Kuwaiti patients and to assess whether this had an impact on disease activity and quality of life in RA patients., Methods: Data were extracted from the Kuwait Registry for Rheumatic Diseases. Adult patients who satisfied the ACR classification criteria for RA from four major hospitals in Kuwait were evaluated from February 2013 through May 2018. The treatment agents, disease activity, and quality of life of Kuwaiti patients were compared with non-Kuwaiti patients., Results: A total of 1651 RA patients were included; 806 (48.8%) were Kuwaiti patients. Among Kuwaiti patients, 62.5% were on biologic drugs in comparison with 14% of non-Kuwaiti patients. In comparison with non-Kuwaiti patients, Kuwaiti patients had significantly lower numbers of swollen joints (p < 0.001) and disease activity score-28 scores (p = 0.02) and less steroid use (p < 0.001) yet a significantly higher health assessment questionnaire-disability index (p < 0.001). Regression analysis showed that DAS-28 scores were significantly associated with the treatment type (p < 0.001) and that nationality was significantly predictive of the treatment type (p < 0.001)., Conclusion: In the setting of easy accessibility to treatment for Kuwaiti patients, biologics were prescribed by rheumatologists at a higher rate than for non-Kuwaitis. This may explain the lower disease activity and the lower rate of steroid use in Kuwaiti patients than non-Kuwaitis., Key Points: • Significant discrepancies in the rates of prescribing biologic therapies between KP and NKP in Kuwait were observed. • Several treatment outcomes were significantly better in the KP group than in the NKP group even after adjustment of confounding factors. • The poor access to biologic therapies was suggested to limit the effectiveness of RA treatments in the NKP group.
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- 2021
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16. Genome Diversity and Signatures of Selection for Production and Performance Traits in Dromedary Camels.
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Bahbahani H, Musa HH, Wragg D, Shuiep ES, Almathen F, and Hanotte O
- Abstract
Dromedary camels ( Camelus dromedarius ) are single-humped animals found throughout the deserts of Africa, the Arabian Peninsula, and the southwest of Asia. This well-adapted species is mainly used for milk and meat production, although some specific types exhibit superior running performance and are used in racing competitions. However, neither performance nor production camels are bred under intensive genomic selection programs with specific aims to improve these traits. In this study, the full genome sequence data of six camels from the Arabian Peninsula and the genotyping-by-sequencing data of 44 camels (29 packing and 15 racing) from Sudan were analyzed to assess their genome diversities, relationships, and candidate signatures of positive selection. Genome ADMIXTURE and principle component analyses indicate clear geographic separation between the Sudanese and the Arabian Peninsula camels, but with no population-specific genetic distinction within populations. Camel samples from the Arabian Peninsula show higher mean heterozygosity (0.560 ± 0.003) than those from Sudan (0.347 ± 0.003). Analyses of signatures of selection, using pooled heterozygosity ( Hp ) approach, in the Sudanese camels revealed 176, 189, and 308 candidate regions under positive selection in the combined and packing and racing camel populations, respectively. These regions host genes that might be associated with adaptation to arid environment, dairy traits, energy homeostasis, and chondrogenesis. Eight regions show high genetic differentiation, based on Fst analysis, between the Sudanese packing and racing camel types. Genes associated with chondrogenesis, energy balance, and urinary system development were found within these regions. Our results advocate for further detailed investigation of the genome of the dromedary camel to identify and characterize genes and variants associated with their valuable phenotypic traits. The results of which may support the development of breeding programs to improve the production and performance traits of this unique domesticated species., (Copyright © 2019 Bahbahani, Musa, Wragg, Shuiep, Almathen and Hanotte.)
- Published
- 2019
- Full Text
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17. Novel and known signals of selection for fat deposition in domestic sheep breeds from Africa and Eurasia.
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Mastrangelo S, Bahbahani H, Moioli B, Ahbara A, Al Abri M, Almathen F, da Silva A, Belabdi I, Portolano B, Mwacharo JM, Hanotte O, Pilla F, and Ciani E
- Subjects
- Africa, Animals, Asia, Genome-Wide Association Study, Genotype, Homozygote, Phenotype, Polymorphism, Single Nucleotide, Body Fat Distribution, Breeding, Selection, Genetic, Sheep genetics
- Abstract
Genomic regions subjected to selection frequently show signatures such as within-population reduced nucleotide diversity and outlier values of differentiation among differentially selected populations. In this study, we analyzed 50K SNP genotype data of 373 animals belonging to 23 sheep breeds of different geographic origins using the Rsb (extended haplotype homozygosity) and FST statistical approaches, to identify loci associated with the fat-tail phenotype. We also checked if these putative selection signatures overlapped with regions of high-homozygosity (ROH). The analyses identified novel signals and confirmed the presence of selection signature in genomic regions that harbor candidate genes known to affect fat deposition. Several genomic regions that frequently appeared in ROH were also identified within each breed, but only two ROH islands overlapped with the putative selection signatures. The results reported herein provide the most complete genome-wide study of selection signatures for fat-tail in African and Eurasian sheep breeds; they also contribute insights into the genetic basis for the fat tail phenotype in sheep, and confirm the great complexity of the mechanisms that underlie quantitative traits, such as the fat-tail., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2019
- Full Text
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18. Genome-Wide Variation, Candidate Regions and Genes Associated With Fat Deposition and Tail Morphology in Ethiopian Indigenous Sheep.
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Ahbara A, Bahbahani H, Almathen F, Al Abri M, Agoub MO, Abeba A, Kebede A, Musa HH, Mastrangelo S, Pilla F, Ciani E, Hanotte O, and Mwacharo JM
- Abstract
Variations in body weight and in the distribution of body fat are associated with feed availability, thermoregulation, and energy reserve. Ethiopia is characterized by distinct agro-ecological and human ethnic farmer diversity of ancient origin, which have impacted on the variation of its indigenous livestock. Here, we investigate autosomal genome-wide profiles of 11 Ethiopian indigenous sheep populations using the Illumina Ovine 50 K SNP BeadChip assay. Sheep from the Caribbean, Europe, Middle East, China, and western, northern and southern Africa were included to address globally, the genetic variation and history of Ethiopian populations. Population relationship and structure analysis separated Ethiopian indigenous fat-tail sheep from their North African and Middle Eastern counterparts. It indicates two main genetic backgrounds and supports two distinct genetic histories for African fat-tail sheep. Within Ethiopian sheep, our results show that the short fat-tail sheep do not represent a monophyletic group. Four genetic backgrounds are present in Ethiopian indigenous sheep but at different proportions among the fat-rump and the long fat-tail sheep from western and southern Ethiopia. The Ethiopian fat-rump sheep share a genetic background with Sudanese thin-tail sheep. Genome-wide selection signature analysis identified eight putative candidate regions spanning genes influencing growth traits and fat deposition ( NPR2, HINT2, SPAG8, INSR ), development of limbs and skeleton, and tail formation ( ALX4, HOXB13, BMP4 ), embryonic development of tendons, bones and cartilages ( EYA2, SULF2 ), regulation of body temperature ( TRPM8 ), body weight and height variation ( DIS3L2 ), control of lipogenesis and intracellular transport of long-chain fatty acids ( FABP3 ), the occurrence and morphology of horns ( RXFP2 ), and response to heat stress ( DNAJC18) . Our findings suggest that Ethiopian fat-tail sheep represent a uniquely admixed but distinct genepool that presents an important resource for understanding the genetic control of skeletal growth, fat metabolism and associated physiological processes.
- Published
- 2019
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19. Polymorphisms in MC1R and ASIP Genes are Associated with Coat Color Variation in the Arabian Camel.
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Almathen F, Elbir H, Bahbahani H, Mwacharo J, and Hanotte O
- Subjects
- Animals, Genetic Variation, Agouti Signaling Protein genetics, Camelus genetics, Hair Color genetics, Receptor, Melanocortin, Type 1 genetics
- Abstract
Pigmentation in mammals is primarily determined by the distribution of eumelanin and pheomelanin, the ratio of which is mostly controlled by the activity of melanocortin 1 receptor (MC1R) and agouti signaling protein (ASIP) genes. Using 91 animals from 10 Arabian camel populations, that included the 4 predominant coat color phenotypes observed in the dromedary (light brown, dark brown, black, and white), we investigated the effects of the MC1R and ASIP sequence variants and identified candidate polymorphisms associated with coat color variation. In particular, we identified a single nucleotide polymorphism (SNP), found in the coding region of MC1R (901C/T), linked to the white coat color, whereas a 1-bp deletion (23delT/T) and a SNP (25G/A) in exon 2 of ASIP are associated with both black and dark-brown coat colors. Our results also indicate support that the light-brown coat color is likely the ancestral coat color for the dromedary. These sequence variations at the MC1R and ASIP genes represent the first documented evidence of candidate polymorphisms associated with Mendelian traits in the dromedary.
- Published
- 2018
- Full Text
- View/download PDF
20. Genomic signatures of adaptive introgression and environmental adaptation in the Sheko cattle of southwest Ethiopia.
- Author
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Bahbahani H, Afana A, and Wragg D
- Subjects
- Animals, Breeding, Cattle immunology, Cattle physiology, Ethiopia, Fertility, Genome, Genotype, Haplotypes, Homozygote, Immunity, Quantitative Trait Loci, Thermotolerance, Cattle genetics, Genomics methods, Polymorphism, Single Nucleotide, Selection, Genetic
- Abstract
Although classified as an African taurine breed, the genomes of Sheko cattle are an admixture of Asian zebu and African taurine ancestries. They populate the humid Bench Maji zone in Sheko and Bench districts in the south-western part of Ethiopia and are considered as a trypanotolerant breed with high potential for dairy production. Here, we investigate the genome of Sheko cattle for candidate signatures of adaptive introgression and positive selection using medium density genome-wide SNP data. Following locus-ancestry deviation analysis, 15 and 72 genome regions show substantial excess and deficiency in Asian zebu ancestry, respectively. Nine and 23 regions show candidate signatures of positive selection following extended haplotype homozygosity (EHH)-based analyses (iHS and Rsb), respectively. The results support natural selection before admixture for one iHS, one Rsb and three zebu ancestry-deficient regions. Genes and/or QTL associated with bovine immunity, fertility, heat tolerance, trypanotolerance and lactation are present within candidate selected regions. The identification of candidate regions under selection in Sheko cattle warrants further investigation of a larger sample size using full genome sequence data to better characterise the underlying haplotypes. The results can then support informative genomic breeding programmes to sustainably enhance livestock productivity in East African trypanosomosis infested areas., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2018
- Full Text
- View/download PDF
21. Warfarin anticoagulation in hemodialysis patients with atrial fibrillation: comparison of nephrologist-led and anticoagulation clinic-led management.
- Author
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Bahbahani H, AlTurki A, Dawas A, and Lipman ML
- Subjects
- Aged, Atrial Fibrillation diagnosis, Cohort Studies, Disease Management, Drug Monitoring standards, Female, Humans, Male, Nephrologists standards, Retrospective Studies, Treatment Outcome, Anticoagulants therapeutic use, Atrial Fibrillation drug therapy, Drug Monitoring trends, Nephrologists trends, Renal Dialysis trends, Warfarin therapeutic use
- Abstract
Background: There is conflicting evidence of benefit versus harm for warfarin anticoagulation in hemodialysis patients with atrial fibrillation. This equipoise may be explained by suboptimal Time in Therapeutic Range (TTR), which correlates well with thromboembolic and bleeding complications. This study aimed to compare nephrologist-led management of warfarin therapy versus that led by specialized anticoagulation clinic., Methods: In a retrospective cohort of chronic hemodialysis patients from two institutions (Institution A: Nephrologist-led warfarin management, Institution B: Anticoagulation clinic-led warfarin management), we identified patients with atrial fibrillation who were receiving warfarin for thromboembolic prophylaxis. Mean TTRs, proportion of patients achieving TTR ≥ 60%, and frequency of INR testing were compared using a logistic regression model., Results: In Institution A, 16.7% of hemodialysis patients had atrial fibrillation, of whom 36.8% were on warfarin. In Institution B, 18% of hemodialysis patients had atrial fibrillation, and 55.5% were on warfarin. The mean TTR was 61.8% (SD 14.5) in Institution A, and 60.5% (SD 15.8) in Institution B (p-value 0.95). However, the proportion of patients achieving TTR ≥ 60% was 65% versus 43.3% (Adjusted OR 2.22, CI 0.65-7.63) and mean frequency of INR testing was every 6 days versus every 13.9 days in Institutions A and B respectively., Conclusions: There was no statistical difference in mean TTR between nephrologist-led management of warfarin and that of clinic-led management. However, the former achieved a trend toward a higher proportion of patients with optimal TTR. This improved therapeutic results was associated with more frequent INR monitoring.
- Published
- 2018
- Full Text
- View/download PDF
22. Signatures of positive selection in African Butana and Kenana dairy zebu cattle.
- Author
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Bahbahani H, Salim B, Almathen F, Al Enezi F, Mwacharo JM, and Hanotte O
- Subjects
- Animals, Cattle classification, Genome, Polymorphism, Single Nucleotide, Quantitative Trait Loci, Sudan, Cattle genetics, Dairying, Selection, Genetic
- Abstract
Butana and Kenana are two types of zebu cattle found in Sudan. They are unique amongst African indigenous zebu cattle because of their high milk production. Aiming to understand their genome structure, we genotyped 25 individuals from each breed using the Illumina BovineHD Genotyping BeadChip. Genetic structure analysis shows that both breeds have an admixed genome composed of an even proportion of indicine (0.75 ± 0.03 in Butana, 0.76 ± 0.006 in Kenana) and taurine (0.23 ± 0.009 in Butana, 0.24 ± 0.006 in Kenana) ancestries. We also observe a proportion of 0.02 to 0.12 of European taurine ancestry in ten individuals of Butana that were sampled from cattle herds in Tamboul area suggesting local crossbreeding with exotic breeds. Signatures of selection analyses (iHS and Rsb) reveal 87 and 61 candidate positive selection regions in Butana and Kenana, respectively. These regions span genes and quantitative trait loci (QTL) associated with biological pathways that are important for adaptation to marginal environments (e.g., immunity, reproduction and heat tolerance). Trypanotolerance QTL are intersecting candidate regions in Kenana cattle indicating selection pressure acting on them, which might be associated with an unexplored level of trypanotolerance in this cattle breed. Several dairy traits QTL are overlapping the identified candidate regions in these two zebu cattle breeds. Our findings underline the potential to improve dairy production in the semi-arid pastoral areas of Africa through breeding improvement strategy of indigenous local breeds.
- Published
- 2018
- Full Text
- View/download PDF
23. Signatures of Selection for Environmental Adaptation and Zebu × Taurine Hybrid Fitness in East African Shorthorn Zebu.
- Author
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Bahbahani H, Tijjani A, Mukasa C, Wragg D, Almathen F, Nash O, Akpa GN, Mbole-Kariuki M, Malla S, Woolhouse M, Sonstegard T, Van Tassell C, Blythe M, Huson H, and Hanotte O
- Abstract
The East African Shorthorn Zebu (EASZ) cattle are ancient hybrid between Asian zebu × African taurine cattle preferred by local farmers due to their adaptability to the African environment. The genetic controls of these adaptabilities are not clearly understood yet. Here, we genotyped 92 EASZ samples from Kenya (KEASZ) with more than 770,000 SNPs and sequenced the genome of a pool of 10 KEASZ. We observe an even admixed autosomal zebu × taurine genomic structure in the population. A total of 101 and 165 candidate regions of positive selection, based on genome-wide SNP analyses ( meta-SS, Rsb, iHS , and Δ AF ) and pooled heterozygosity ( Hp ) full genome sequence analysis, are identified, in which 35 regions are shared between them. A total of 142 functional variants, one novel, have been detected within these regions, in which 30 and 26 were classified as of zebu and African taurine origins, respectively. High density genome-wide SNP analysis of zebu × taurine admixed cattle populations from Uganda and Nigeria show that 25 of these regions are shared between KEASZ and Uganda cattle, and seven regions are shared across the KEASZ, Uganda, and Nigeria cattle. The identification of common candidate regions allows us to fine map 18 regions. These regions intersect with genes and QTL associated with reproduction and environmental stress (e.g., immunity and heat stress) suggesting that the genome of the zebu × taurine admixed cattle has been uniquely selected to maximize hybrid fitness both in terms of reproduction and survivability.
- Published
- 2017
- Full Text
- View/download PDF
24. Signatures of positive selection in East African Shorthorn Zebu: A genome-wide single nucleotide polymorphism analysis.
- Author
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Bahbahani H, Clifford H, Wragg D, Mbole-Kariuki MN, Van Tassell C, Sonstegard T, Woolhouse M, and Hanotte O
- Subjects
- Africa, Eastern, Animals, Breeding, Cattle, Genotype, Haplotypes, Homozygote, Quantitative Trait Loci, Selection, Genetic, X Chromosome, Genome, Polymorphism, Single Nucleotide
- Abstract
The small East African Shorthorn Zebu (EASZ) is the main indigenous cattle across East Africa. A recent genome wide SNP analysis revealed an ancient stable African taurine x Asian zebu admixture. Here, we assess the presence of candidate signatures of positive selection in their genome, with the aim to provide qualitative insights about the corresponding selective pressures. Four hundred and twenty-five EASZ and four reference populations (Holstein-Friesian, Jersey, N'Dama and Nellore) were analysed using 46,171 SNPs covering all autosomes and the X chromosome. Following FST and two extended haplotype homozygosity-based (iHS and Rsb) analyses 24 candidate genome regions within 14 autosomes and the X chromosome were revealed, in which 18 and 4 were previously identified in tropical-adapted and commercial breeds, respectively. These regions overlap with 340 bovine QTL. They include 409 annotated genes, in which 37 were considered as candidates. These genes are involved in various biological pathways (e.g. immunity, reproduction, development and heat tolerance). Our results support that different selection pressures (e.g. environmental constraints, human selection, genome admixture constrains) have shaped the genome of EASZ. We argue that these candidate regions represent genome landmarks to be maintained in breeding programs aiming to improve sustainable livestock productivity in the tropics.
- Published
- 2015
- Full Text
- View/download PDF
25. Polycythemia vera presenting as acute myocardial infarction: An unusual presentation.
- Author
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Bahbahani H, Aljenaee K, and Bella A
- Abstract
Acute myocardial infarction (AMI) is usually seen in the setting of atherosclerosis and its associated risk factors. Myocardial infarction in the young poses a particular challenge, as the disease is less likely, due to atherosclerosis. We report the case of a 37-year-old female patient who presented with ST segment elevation anterolateral AMI. The only abnormality on routine blood investigation was raised hemoglobin and hematocrit. After further testing, she was diagnosed according to the World Health Organization (WHO) criteria with polycythemia vera. This case illustrates the importance of recognizing polycythemia vera as an important cause of thrombosis, which can present initially as AMI, and to emphasize the early recognition of the disease in order to initiate appropriate management strategies.
- Published
- 2015
- Full Text
- View/download PDF
26. Umbilical cord blood stem cells - potential therapeutic tool for neural injuries and disorders.
- Author
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Ali H and Bahbahani H
- Subjects
- Clinical Trials as Topic, Humans, Cord Blood Stem Cell Transplantation, Fetal Blood cytology, Nervous System Diseases therapy, Stem Cells physiology, Trauma, Nervous System therapy
- Abstract
Brain limited self-renewal capability is the main element behind the seriousness of neurodegenerative diseases and neural injuries. Any possible attempts to use cell replacement-therapy approaches rely on: first, the ability of such cells to generate neural cells and tissues with developmental and functional similarities to human brain cells and second, development of safe and effective protocols for cells transplantations. Many recent studies showed that human umbilical cord blood stem cells have the potential to generate cells with neuronal characteristics. It has also been shown that these stem cells have a positive impact on animal models of neural injuries and diseases. Umbilical cord blood stem cells are a potential candidate for clinical therapies for neural injuries and neural degenerative diseases for which current mode of therapy is inadequate. In addition, they might provide an in-vitro model of parenchymal neural cells for toxicology and drugs testing research.
- Published
- 2010
- Full Text
- View/download PDF
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