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Yin ZZ, Yao J, Wei FX, Chen CY, Yan HM, Zhang M. Targeted Next-Generation Sequencing Reveals a Large Novel β-Thalassemia Deletion that Removes the Entire HBB Gene. Hemoglobin 2022; 46:290-295. [PMID: 36412578 DOI: 10.1080/03630269.2022.2145964] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
β-Thalassemia (β-thal) is one of the most common monogenic recessive inherited diseases worldwide. The mutation spectrum of β-thal has been increasingly broadened by various genetic testing methods. The discovery and identification of novel and rare pathogenic thalassemia variants enable better disease prevention, especially in high prevalence regions. In this study, a Chinese thalassemia family with an unclear etiology was recruited to the Thalassemia Screening Program. Blood samples collected from them were primarily screened by hematology analysis and clinical routine genetic screening. Subsequently, targeted next-generation sequencing (NGS) and Sanger sequencing were performed to find and identify a novel deletion variant. The deletion, discovered by targeted NGS, was validated through real-time quantitative polymerase chain reaction (qPCR). First, a large novel β-thal deletion (3488 bp) related to a high Hb F level, NC_000011.9: g.5245533_5249020del (Chongqing deletion) (GRCh37/hg19), was found and identified in the proband and her mother. The deletion removed the entire β-globin gene and led to absent β-globin (β0). We then validated this large novel deletion in the proband and her mother by qPCR. We first discovered and identified a large novel β-thal deletion related to elevated Hb F level, it helps broaden the spectrum of pathogenic mutants that may cause β-thal intermedia (β-TI) or β-thal major (β-TM), paving the way for effective thalassemia screening. Next-generation sequencing has the potential of finding rare and novel thalassemia mutants.
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Affiliation(s)
- Zhen-Zhen Yin
- Nanfang College, Guangzhou, People's Republic of China
| | - Jian Yao
- Nanfang College, Guangzhou, People's Republic of China
| | - Feng-Xiang Wei
- The Genetics Laboratory, Shenzhen Longgang District Maternity and Child Healthcare Hospital, Shenzhen, People's Republic of China
| | - Chu-Yan Chen
- Nanfang College, Guangzhou, People's Republic of China
| | - Hong-Mei Yan
- Guangzhou Development District Hospital, Guangzhou, People's Republic of China
| | - Ming Zhang
- Nanfang College, Guangzhou, People's Republic of China
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Xian J, Wang Y, He J, Li S, He W, Ma X, Li Q. Molecular Epidemiology and Hematologic Characterization of Thalassemia in Guangdong Province, Southern China. Clin Appl Thromb Hemost 2022; 28:10760296221119807. [PMID: 35979587 PMCID: PMC9393661 DOI: 10.1177/10760296221119807] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
Introduction: About 2% of the population in the world are carriers
of the thalassemia gene. Thalassemia is highly prevalent in Southern China, and
traditional clinical testing methods would cause missed diagnosis of partial
static thalassemia. Here, we reviewed and summarized a set of simple and
clinically feasible thalassemia detection protocols adopted by the Prenatal
Diagnosis and Reproductive Center of our hospital. Methods: From
January 1, 2015, to December 31, 2020, 31 512 peripheral blood samples and 3828
prenatal samples were collected in our study. All the peripheral blood samples
were performed through thalassemia screening by routine blood tests and
hemoglobin electrophoresis and gene detection. The prenatal diagnosis would be
implemented for the fetus if the parents were carriers of the same type of
thalassemia. Results: A total of 6137 (19.48%) cases were diagnosed
as thalassemia, in which 4749 (15.07%) were α-thalassemia, 1196 (3.80%) were
β-thalassemia and 192 (0.61%) were co-inheritance of α- and β-thalassemia. For
prenatal samples, 3160 (82.55%) cases were diagnosed as thalassemia, in which
2021 (52.80%) were α-thalassemia, 997 (26.05%) were β-thalassemia and 142
(3.71%) were co-inheritance of α- and β-thalassemia. In addition, we also found
five novel mutations, including NC_000016.9:g.223681-227492del3812; HBA1:
c.301-31_301-24delCTCGGCCCinsG; HBA2: c.95+7C>T for α-thalassemia and HBB:
c.263_276delCACTGAGTGAGCTG; HBB: c.315+143G>A for β-thalassemia.
Conclusion: The present study updates the epidemiological
characteristics and mutation spectrum of thalassemia in Southern China and
demonstrated five novel mutations. Our research provides a reference for
clinical diagnosis and treatment, prenatal diagnosis, or reproductive genetic
counseling for patients with thalassemia in Guangdong.
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Affiliation(s)
- Jiajia Xian
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Yanchao Wang
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Jianchun He
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Shaoying Li
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Wenzhi He
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Xiaoyan Ma
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
| | - Qing Li
- Department of Obstetrics and Gynecology, Guangdong Provincial Key Laboratory of Major Obstetric Diseases, 117980The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Reproduction and Genetics of Guangdong Higher Education Institutes, Guangzhou, Guangdong, China
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Tepakhan W, Jomoui W. Rapid molecular diagnostics of large deletional β 0-thalassemia (3.5 kb and 45 kb) using colorimetric LAMP in various thalassemia genotypes. Heliyon 2021; 7:e08372. [PMID: 34816050 PMCID: PMC8591500 DOI: 10.1016/j.heliyon.2021.e08372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 10/09/2021] [Accepted: 11/10/2021] [Indexed: 11/21/2022] Open
Abstract
Background β-thalassemia is an inherited disorder that is reported worldwide. Two common β0-thalassemia mutations (3.5 kb and 45 kb deletions) are prevalent in Southeast Asia and Thailand. Identification of these defects is essential to population screening and prenatal diagnosis. We aimed to develop colorimetric LAMP based on a phenol red indicator and validate it on various thalassemia genotypes. Method Colorimetric LAMP assays for detecting β0-thalassemia 3.5- and 45-kb deletions were developed and validated on 254 routine clinical samples. The results of the assays could be interpreted by the naked eye and compared with the gold standard gap-PCR. Results A total of 254 samples related to seven phenotypes and 27 different genotype groups showed 100% concordance between the colorimetric LAMP assays and gap-PCR for detecting β0-thalassemia (3.5- and 45-kb deletions). The sensitivity, specificity, NPV, and PPV were calculated as 100% for both β0-thalassemia 3.5- and 45-kb deletion detection. The comparison of the usefulness of colorimetric LAMP assays and conventional methods was demonstrated in this study. Conclusions The developed colorimetric LAMP assays are rapid, simple, and highly cost effective and can be interpreted by the naked eye. These assays should be applied for screening deletional β0-thalassemia in routine settings or small community hospitals in remote areas where thalassemia is highly heterogeneous.
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Affiliation(s)
- Wanicha Tepakhan
- Department of Pathology, Faculty of Medicine, Prince of Songkla University, Songkhla, Thailand
| | - Wittaya Jomoui
- Department of Pathology, Maha Chakri Sirindhorn Medical Center, Faculty of Medicine, Srinakharinwirot University, Nakhon Nayok, Thailand
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Panichchob P, Iamdeelert P, Wongsariya P, Wongsariya P, Wongwattanasanti P, Tepakhan W, Jomoui W. Molecular Spectrum of β-Thalassemia Mutations in Central to Eastern Thailand. Hemoglobin 2021; 45:97-102. [PMID: 33966551 DOI: 10.1080/03630269.2021.1924193] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
The aim of this study was to determine the molecular spectrum of β-thalassemia (β-thal) mutations in eastern Thailand. We identified β-thal mutations using allele specific-polymerase chain reaction (ASPCR) and direct DNA sequencing. We found 18 different β-thal mutations in a total of 191 unrelated subjects. Six common β-thal mutations comprised 86.91% of all the mutations, including codons 41/42 (-TTCT) (HBB: c.126_129delCTTT) (35.60%), codon 17 (A>T) (HBB: c.52A>T) (18.85%), -28 (A>G) (HBB: c.-78A>G) (15.71%), IVS-II-654 (C>T) (HBB: c.316-197C>T) (6.28%), IVS-I-1 (G>T) (HBB: c.92+1G>T) (5.76%) and codon 19 (A>G) (HBB:(c.59A>G) (4.71%). In addition, a novel 60 kb deletion in two unrelated cases was characterized and initially suspected to originate from eastern Thailand. Moreover, we demonstrated the molecular spectrum of recent β-thal mutations in Thailand, and data from this study were compared with five reference laboratory centers in Thailand. This study is the first to identify the comprehensive molecular spectrum of β-thal mutations in eastern Thailand, information that may be essential for screening, genetic counseling and prenatal diagnosis (PND) in this region.
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Affiliation(s)
- Prapaporn Panichchob
- Department of Pathology, Maha Chakri Sirindhorn Medical Center, Faculty of Medicine, Srinakharinwirot University, Nakhon Nayok, Thailand
| | | | - Putita Wongsariya
- Faculty of Medicine, Srinakharinwirot University, Nakhon Nayok, Thailand
| | | | | | - Wanicha Tepakhan
- Department of Pathology, Faculty of Medicine, Prince of Songkla University, Songkhla, Thailand
| | - Wittaya Jomoui
- Department of Pathology, Maha Chakri Sirindhorn Medical Center, Faculty of Medicine, Srinakharinwirot University, Nakhon Nayok, Thailand
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