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Khan N, Shah K, Fozia F, Khan SA, Muhammad N, Nasir A, Ahmad I, Rehman ZU, Jan A, Muhammad N, Khan S. Biallelic mutations in FLG, TGM1, and STS genes segregated with different types of ichthyoses in eight families of Pakistani origin. Int J Dermatol 2023; 62:672-680. [PMID: 36789964 DOI: 10.1111/ijd.16614] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 12/08/2022] [Accepted: 01/20/2023] [Indexed: 02/16/2023]
Abstract
BACKGROUND Congenital ichthyosis is a diverse group of keratinization disorders associated with generalized scaling of skin of varying severity. The non-syndromic forms of congenital ichthyosis are further grouped into common ichthyosis (ichthyosis vulgaris and X-linked ichthyosis), autosomal recessive congenital ichthyosis, and keratopathic ichthyosis. OBJECTIVE To identify sequence variants involved in different forms of hereditary ichthyoses. METHODS We studied eight families with different types of ichthyosis including four families with autosomal recessive congenital ichthyosis and four families with common ichthyosis. Whole exome sequencing and PCR based genotyping was carried out to find out the molecular basis of disease. RESULTS In one family, a novel duplication sequence variant NM_002016.2:c.2767dupT; NP_002007.1:p.Ser923PhefsTer2 was identified in FLG gene; in four families a previously reported nonsense sequence variant NM_000359.3:c.232C>T; NP_002007.1:p.Arg78Ter was identified in TGM1 gene, while, in three families of X-linked recessive ichthyosis, the whole STS gene (NM_001320752.2; NP_001307681.2) regions were deleted. STUDY LIMITATION Gene expression studies have not been performed that would have strengthened the findings of computational analysis. CONCLUSION This study highlights the significance of the c.232C>T variant in the TGM1 gene as a possible founder mutation, complete STS gene deletion as reported previously in Pakistani population, while novel sequence variant in the FLG gene expands the spectrum of variations in this gene. These findings may be used for genetic counseling of the studied families.
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Affiliation(s)
- Niamatullah Khan
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Khadim Shah
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad, Pakistan
| | - Fozia Fozia
- Department of Biochemistry, KMU Institute of Medical Sciences (KIMS), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Sher A Khan
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Nazif Muhammad
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Abdul Nasir
- Hospital of Zhengzhou University, Zhengzhou, China
| | - Ijaz Ahmad
- Department of Chemistry, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Zia U Rehman
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Abid Jan
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Noor Muhammad
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
| | - Saadullah Khan
- Department of Biotechnology and Genetic Engineering, Kohat University of Science & Technology (KUST), Kohat, Khyber Pakhtunkhwa, Pakistan
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Abstract
The XPG/ERCC5 endonuclease was originally identified as the causative gene for Xeroderma Pigmentosum complementation group G. Ever since its discovery, in depth biochemical, structural and cell biological studies have provided detailed mechanistic insight into its function in excising DNA damage in nucleotide excision repair, together with the ERCC1–XPF endonuclease. In recent years, it has become evident that XPG has additional important roles in genome maintenance that are independent of its function in NER, as XPG has been implicated in protecting replication forks by promoting homologous recombination as well as in resolving R-loops. Here, we provide an overview of the multitasking of XPG in genome maintenance, by describing in detail how its activity in NER is regulated and the evidence that points to important functions outside of NER. Furthermore, we present the various disease phenotypes associated with inherited XPG deficiency and discuss current ideas on how XPG deficiency leads to these different types of disease.
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Lima DFPDA, da Cruz VAR, Pereira GL, Curi RA, Costa RB, de Camargo GMF. Genomic Regions Associated with the Position and Number of Hair Whorls in Horses. Animals (Basel) 2021; 11:ani11102925. [PMID: 34679946 PMCID: PMC8532986 DOI: 10.3390/ani11102925] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2021] [Revised: 10/06/2021] [Accepted: 10/06/2021] [Indexed: 12/31/2022] Open
Abstract
Simple Summary Whorls have been used to indicate the temperaments of domestic animals; however, little is known about the biological events that drive this association. The present study is the first that aims to find the main genomic regions that influence the whorl traits in livestock, with horses as a model. Genes related to hair follicle growth were found. Interestingly, some of these genes also influence psychiatric diseases and neurological disorders, thus evidencing a consistent biological explanation for the association. Abstract The position and number of hair whorls have been associated with the behavior, temperament, and laterality of horses. The easy observation of whorls assists in the prediction of reactivity, and thus permits the development of better measures of handling, training, mounting, and riding horses. However, little is known about the genetics involved in the formation of hair whorls. Therefore, the aim of this study was to perform a genome-wide association analysis to identify chromosome regions and candidate genes associated with hair whorl traits. Data from 342 Quarter Horses genotyped for approximately 53,000 SNPs were used in an association study using a single-step procedure. The following traits were analyzed: vertical position of hair whorl on the head, number of whorls on the head, and number of whorls on the left and right sides of the neck. The traits had between one and three genomic windows associated. Each of them explained at least 4% of the additive variance. The windows accounted for 20–80% of additive variance for each trait analyzed. Many of the prospected genes are related to hair follicle growth. Some of these genes exert a pleiotropic effect on neurological and behavioral traits. This is the first indication of biological and physiological activity that might explain the association of hair whorls and temperament.
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Affiliation(s)
- Diogo Felipe Pereira de Assis Lima
- Escola de Medicina Veterinária e Zootecnia, Universidade Federal da Bahia (UFBA), Salvador 40170-110, BA, Brazil; (D.F.P.d.A.L.); (V.A.R.d.C.); (R.B.C.)
| | - Valdecy Aparecida Rocha da Cruz
- Escola de Medicina Veterinária e Zootecnia, Universidade Federal da Bahia (UFBA), Salvador 40170-110, BA, Brazil; (D.F.P.d.A.L.); (V.A.R.d.C.); (R.B.C.)
| | - Guilherme Luís Pereira
- Departamento de Melhoramento e Nutrição Animal, Universidade Estadual Paulista (Unesp), Botucatu 18618-681, SP, Brazil; (G.L.P.); (R.A.C.)
| | - Rogério Abdallah Curi
- Departamento de Melhoramento e Nutrição Animal, Universidade Estadual Paulista (Unesp), Botucatu 18618-681, SP, Brazil; (G.L.P.); (R.A.C.)
| | - Raphael Bermal Costa
- Escola de Medicina Veterinária e Zootecnia, Universidade Federal da Bahia (UFBA), Salvador 40170-110, BA, Brazil; (D.F.P.d.A.L.); (V.A.R.d.C.); (R.B.C.)
| | - Gregório Miguel Ferreira de Camargo
- Escola de Medicina Veterinária e Zootecnia, Universidade Federal da Bahia (UFBA), Salvador 40170-110, BA, Brazil; (D.F.P.d.A.L.); (V.A.R.d.C.); (R.B.C.)
- Correspondence:
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Ali M, Farhat SM, Saeed RF, Amraiz D, Mehmood S, Akbar S. Climate beast: a potential threat for repercussions of disease status in Pakistan. REVIEWS ON ENVIRONMENTAL HEALTH 2021; 36:177-183. [PMID: 33544529 DOI: 10.1515/reveh-2020-0108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Accepted: 01/05/2021] [Indexed: 06/12/2023]
Abstract
Pakistan is amongst the developing countries, which have been strongly affected by several emerging and re-emerging disease outbreaks as a consequence of climate change. Various studies have clearly demonstrated the impact of climate change on human health in Pakistan. This has increased the rate of morbidity and mortality, related not only to vector-borne, water-borne and food-borne diseases but has also contributed to the prevalence of neurological, cardiovascular and respiratory disorders. It is therefore important to take adequate measurements for water management and improve sanitary conditions especially in case of natural disasters. In order to effectively control the emerging and re-emerging infections in the country, an early, more Rigorous response is required, by the national health department, to monitor and evaluate the spread of infections in future. Therefore, precise planning and management strategies should be defined in order to circumvent the damage caused by the natural disasters associated with climate changes. This mini-review gives an overview about the public health issues associated with environmental change with special reference to Pakistan. This will provide a baseline for policymakers to develop public health surveillance programs in Pakistan.
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Affiliation(s)
- Mahwish Ali
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Syeda Mehpara Farhat
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Rida Fatima Saeed
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Deeba Amraiz
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Sabba Mehmood
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Samina Akbar
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
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Ijaz A, Shah K, Aziz A, Rehman FU, Ali Y, Tareen AM, Khan K, Ayub M, Wali A. Novel Frameshift Mutations in XPC Gene Underlie Xeroderma Pigmentosum in Pakistani Families. Indian J Dermatol 2021; 66:220-222. [PMID: 34188291 PMCID: PMC8208272 DOI: 10.4103/ijd.ijd_63_20] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
Affiliation(s)
- Ambreen Ijaz
- Department of Biotechnology, Faculty of Life Sciences and Informatics, BUITEMS, Quetta, Pakistan. E-mail: .,Department of Zoology, SBK Women's University, Quetta, Pakistan
| | - Khadim Shah
- Department of Biotechnology, COMSATS University Islamabad, Abbotabbad Campus, Abbottabad, Pakistan
| | - Abdul Aziz
- Department of Computer Sciences and Bioinformatics, Khushal Khan Khattak University, Karak, Pakistan
| | - Fazal U Rehman
- Department of Microbiology, University of Balochistan, Quetta, Pakistan
| | - Yasir Ali
- Department of Computer Sciences and Bioinformatics, Khushal Khan Khattak University, Karak, Pakistan
| | - Abdul M Tareen
- Department of Microbiology, University of Balochistan, Quetta, Pakistan
| | - Kafaitullah Khan
- Department of Microbiology, University of Balochistan, Quetta, Pakistan
| | - Muhammad Ayub
- Institute of Biochemistry, University of Balochistan, Quetta, Pakistan
| | - Abdul Wali
- Department of Biotechnology, Faculty of Life Sciences and Informatics, BUITEMS, Quetta, Pakistan. E-mail:
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Weustenfeld M, Eidelpes R, Schmuth M, Rizzo WB, Zschocke J, Keller MA. Genotype and phenotype variability in Sjögren-Larsson syndrome. Hum Mutat 2018; 40:177-186. [PMID: 30372562 PMCID: PMC6587760 DOI: 10.1002/humu.23679] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2018] [Revised: 10/10/2018] [Accepted: 10/25/2018] [Indexed: 12/24/2022]
Abstract
The Sjögren-Larsson syndrome (SLS) is a rare autosomal recessive disorder caused by pathogenic variants in the ALDH3A2 gene, which codes for fatty aldehyde dehydrogenase (FALDH). FALDH prevents the accumulation of toxic fatty aldehydes by converting them into fatty acids. Pathogenic ALDH3A2 variants cause symptoms such as ichthyosis, spasticity, intellectual disability, and a wide range of less common clinical features. Interpreting patient-to-patient variability is often complicated by inconsistent reporting and negatively impacts on establishing robust criteria to measure the success of SLS treatments. Thus, with this study, patient-centered literature data was merged into a concise genotype-based, open-access database (www.LOVD.nl/ALDH3A2). One hundred and seventy eight individuals with 90 unique SLS-causing variants were included with phenotypic data being available for more than 90%. While the three lead symptoms did occur in almost all cases, more heterogeneity was observed for other frequent clinical manifestations of SLS. However, a stringent genotype-phenotype correlation analysis was hampered by the considerable variability in reporting phenotypic features. Consequently, we compiled a set of recommendations of how to generate comprehensive SLS patient descriptions in the future. This will be of benefit on multiple levels, for example, in clinical diagnosis, basic research, and the development of novel treatment options for SLS.
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Affiliation(s)
| | - Reiner Eidelpes
- Center for Molecular Biosciences Innsbruck (CMBI), Institute of Organic Chemistry, University of Innsbruck, Innsbruck, Austria
| | - Matthias Schmuth
- Department of Dermatology, Venereology and Allergology, Medical University of Innsbruck, Innsbruck, Austria
| | - William B Rizzo
- Department of Pediatrics, UNMC Child Health Research Institute, University of Nebraska Medical Center, Omaha, NE, USA
| | - Johannes Zschocke
- Division of Human Genetics, Medical University of Innsbruck, Innsbruck, Austria
| | - Markus A Keller
- Division of Human Genetics, Medical University of Innsbruck, Innsbruck, Austria
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