Molecular characterization of the Hepatitis B virus genotypes in Colombia: A Bayesian inference on the genotype F
Molecular characterization of the Hepatitis B virus genotypes in Colombia: A Bayesian inference on the genotype F
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DOI：
10.1016/j.meegid.2010.10.003
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发表时间：
2011-01-01
影响因子：
3.2
通讯作者：
Rebello Pinho, Joao Renato
中科院分区：
文献类型：
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作者：
Alvarado Mora, Monica Viviana;Romano, Camila Malta;Rebello Pinho, Joao Renato
乙型肝炎是一个全球性的健康问题，影响约20亿人，超过3.5亿人是该病毒的慢性携带者。九种HBV基因型（A到I）已被描述。由于来自世界某些地区的样本数量有限，HBV基因型的地理分布尚未完全了解。哥伦比亚就是这样一个例子，在那里很少有研究描述HBV基因型。在这项研究中，我们对来自哥伦比亚的143名hbsag阳性志愿献血者的HBV基因型进行了分析。扩增并测序了部分由HBsAg和DNA聚合酶编码区（S/POL）组成的1306 bp片段。使用马尔可夫链蒙特卡罗（MCMC）方法进行贝叶斯系统发育分析，使用BEAST v.1.5.3获得最大进化枝可信度（MCC）树。在所有样本中，68个阳性，52个成功测序。基因型F在该人群中最普遍（77%），基因亚型F3（75%）和Fib（2%）。G基因型（7.7%）和A2亚基因型（15.3%）。基因型G序列分析表明该基因型在国内有不同的引种。此外，我们使用两个不同的数据集估计了每个HBV/F亚基因型和哥伦比亚F3序列的最近共同祖先（TMRCA）的时间：(i) 77个序列包含1306 bp的S/POL区，（ii） 283个序列包含681 bp的S/POL区。我们还使用了另外两个先前估计的进化速率：(i) 2.60 x 10(-4) s/s/y和（ii） 1.5 x 10(-5) s/s/y。在这里，我们报告了在哥伦比亚流行的HBV基因型，并估计了基因型f (C) 2010四种不同亚基因型的TMRCA。
Hepatitis B is a worldwide health problem affecting about 2 billion people and more than 350 million are chronic carriers of the virus. Nine HBV genotypes (A to I) have been described. The geographical distribution of HBV genotypes is not completely understood due to the limited number of samples from some parts of the world. One such example is Colombia, in which few studies have described the HBV genotypes. In this study, we characterized HBV genotypes in 143 HBsAg-positive volunteer blood donors from Colombia. A fragment of 1306 bp partially comprising HBsAg and the DNA polymerase coding regions (S/POL) was amplified and sequenced. Bayesian phylogenetic analyses were conducted using the Markov Chain Monte Carlo (MCMC) approach to obtain the maximum clade credibility (MCC) tree using BEAST v.1.5.3. Of all samples, 68 were positive and 52 were successfully sequenced. Genotype F was the most prevalent in this population (77%) - subgenotypes F3 (75%) and Fib (2%). Genotype G (7.7%) and subgenotype A2 (15.3%) were also found. Genotype G sequence analysis suggests distinct introductions of this genotype in the country. Furthermore, we estimated the time of the most recent common ancestor (TMRCA) for each HBV/F subgenotype and also for Colombian F3 sequences using two different datasets: (i) 77 sequences comprising 1306 bp of S/POL region and (ii) 283 sequences comprising 681 bp of S/POL region. We also used two other previously estimated evolutionary rates: (i) 2.60 x 10(-4) s/s/y and (ii) 1.5 x 10(-5) s/s/y. Here we report the HBV genotypes circulating in Colombia and estimated the TMRCA for the four different subgenotypes of genotype F. (C) 2010 Elsevier B.V. All rights reserved.