Ancient papillomavirus-host co-speciation in Felidae
Ancient papillomavirus-host co-speciation in Felidae
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DOI：
10.1186/gb-2007-8-4-r57
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发表时间：
2007-01-01
期刊：
影响因子：
12.3
通讯作者：
Van Ranst, Marc
中科院分区：
文献类型：
--
作者：
Rector, Annabel;Lemey, Philippe;Van Ranst, Marc
背景资料：估计缓慢进化的病毒，如乳头瘤病毒（PV）的进化速率是不可能使用化石校准直接或在几十年的时间尺度上采样的序列。然而，将它们的分歧与宿主物种相关联的能力可以提供一种准确估计这些病毒进化速率的方法。为了确定这种方法是否可行，我们对猫PV的完整基因组进行了测序，以前只对家猫进行了测序（Felis arcticus，FdPV 1），来自另外四种全球分布的猫科动物：Lynx rufus PV 1型、Puma concolor PV 1型、Panthera leo persica PV 1型和Uncia uncia PV 1型。猫PV都属于Lambdapillomavirus属，并且在早期和晚期蛋白质区域之间包含不寻常的第二非编码区，该区域仅存在于该属的成员中。我们的最大似然和贝叶斯系统发育分析表明，猫PV之间的进化关系完全反映了他们的猫主机，尽管复杂和动态的地理历史。通过应用宿主物种的分歧时间，我们提供了每个PV基因进化速率的第一个精确估计，总体进化速率为1.95 × 10（-8）（95%置信区间1.32 x 10（-8）至2.47 x 10（-8））核苷酸替换/位点/年。我们的工作为猫PV的长期病毒-宿主共物种形成提供了证据，表明缓慢进化的病毒中的病毒多样性可用于研究宿主物种进化。然而，这些发现，不应该外推到其他病毒谱系没有事先确认的病毒-宿主共趋异。
Background: Estimating evolutionary rates for slowly evolving viruses such as papillomaviruses ( PVs) is not possible using fossil calibrations directly or sequences sampled over a time-scale of decades. An ability to correlate their divergence with a host species, however, can provide a means to estimate evolutionary rates for these viruses accurately. To determine whether such an approach is feasible, we sequenced complete feline PV genomes, previously available only for the domestic cat ( Felis domesticus, FdPV1), from four additional, globally distributed feline species: Lynx rufus PV type 1, Puma concolor PV type 1, Panthera leo persica PV type 1, and Uncia uncia PV type 1.Results: The feline PVs all belong to the Lambdapapillomavirus genus, and contain an unusual second noncoding region between the early and late protein region, which is only present in members of this genus. Our maximum likelihood and Bayesian phylogenetic analyses demonstrate that the evolutionary relationships between feline PVs perfectly mirror those of their feline hosts, despite a complex and dynamic phylogeographic history. By applying host species divergence times, we provide the first precise estimates for the rate of evolution for each PV gene, with an overall evolutionary rate of 1.95 x 10(-8) ( 95% confidence interval 1.32 x 10(-8) to 2.47 x 10(-8)) nucleotide substitutions per site per year for the viral coding genome.Conclusion: Our work provides evidence for long-term virus-host co-speciation of feline PVs, indicating that viral diversity in slowly evolving viruses can be used to investigate host species evolution. These findings, however, should not be extrapolated to other viral lineages without prior confirmation of virus-host co-divergence.