Molecular analysis of 76 Chinese hemophilia B pedigrees and the identification of 10 novel mutations
MOLECULAR GENETICS & GENOMIC MEDICINE
Authors: Huang, Limin; Li, Liyan; Lin, Sheng; Chen, Juanjuan; Li, Kun; Fan, Dongmei; Jin, Wangjie; Li, Yihong; Yang, Xu; Xiong, Yufeng; Li, Fenxia; Yang, Xuexi; Li, Ming; Li, Qiang
Abstract
Background Hemophilia B (HB) is an X-linked recessive inherited bleeding disorder caused by mutations in theF9gene that lead to plasma factor IX deficiency. To identify the causative mutations in HB, a molecular analysis of HB pedigrees in China was performed. Methods Using next-generation sequencing (NGS) and an in-house bioinformatics pipeline, 76 unrelated HB pedigrees were analyzed. The mutations identified were validated by comparison with the results of Sanger sequencing or Multiplex Ligation-dependent Probe Amplification assays. The pathogenicity of the causative mutations was classified following the American College of Medical Genetics and Genomics guidelines. Results The mutation detection rate was 94.74% (72/76) using NGS. Of the 76 HB pedigrees analyzed, 59 causative variants were found in 72 pedigrees, with 38 (64.41%) missense mutations, 9 (15.25%) nonsense mutations, 2 (3.39%) splicing mutations, 5 (8.47%) small deletions, 4 (6.78%) large deletions, and 1 intronic mutation (1.69%). Of the 59 differentF9mutations, 10 were novel: c.190T>G, c.199G>T, c.290G>C, c.322T>A, c.350_351insACAATAATTCCTA, c.391+5delG, c.416G>T, c.618_627delAGCTGAAACC, c.863delA, and c.1024_1027delACGA. Of these 10 novel mutations, a mosaic mutation, c.199G>T(p.Glu67Ter), was identified in a sporadic HB pedigree. Usingin-silicoanalysis, these novel variants were predicted to be disease-causing. However, no potentially causative mutations were found in theF9coding sequences of the four remaining HB pedigrees. In addition, two HB pedigrees carrying additionalF8/F9mutations were discovered. Conclusion The identification of these mutations enriches the spectrum ofF9mutations and provides further insights into the pathogenesis of HB in the Chinese population.
Studbook and molecular analyses for the endangered black-lion-tamarin; an integrative approach for assessing genetic diversity and driving management in captivity
SCIENTIFIC REPORTS
Authors: Ayala-Burbano, Paola Andrea; Galetti Junior, Pedro Manoel; Wormell, Dominic; Pissinatti, Alcides; Marques, Mara Cristina; de Freitas, Patricia Domingues
Abstract
Breeding strategies based on molecular markers have been adopted by ex-situ conservation programs to assess alternative parameters for the genetic diversity estimates. In this work we evaluated molecular and studbook data for captive populations of black-lion-tamarin (BLT), an endangered primate endemic to Brazil's Atlantic Forest. Pedigree analyses were performed using BLT studbook information collected from 1973 to 2018. We analyzed the whole captive population since its foundation; the current captive population (CCP); and all extant BLTs in the Brazilian captive population (BCP), separately. Microsatellite analyses were implemented on the BCP individuals from the eighth generation (BCP-F8) only to avoid generation overlap. The expected heterozygosity for BCP-F8, using molecular, data was 0.45, and the initial expected heterozygosity was 0.69. Kinship parameters showed high genetic relationships in both pedigree and molecular analyses. The genealogy-based endogamy evidenced a high inbreeding coefficient, while the molecular analyses suggested a non-inbreeding signature. The Mate Suitability Index showed detrimental values for the majority of potential pairs in the CCP. Nevertheless, some individuals evidenced high individual heterozygosity and allele representation, demonstrating good potential to be used as breeders. Thus, we propose the use of molecular data as a complementary parameter to evaluate mating-pairs and to aid management decision-making.