Papillomaviruses (PVs) infecting artiodactyls are very diverse, and only second in number to PVs infecting primates. PVs associated to lesions in economically important ruminant species have been isolated from cattle and sheep. Potential PV DNA from teat lesions of a Damascus goat was isolated, cloned and sequenced. The PV genome was analyzed using bioinformatics approaches to detect open reading frames and to predict potential features of encoded proteins as well as putative regulatory elements. Sequence comparison and phylogenetic analyses using the concatenated E1E2L2L1 nucleotide and amino acid alignments was used to reveal the relationship of the new PV to the known PV diversity and its closest relevants. We isolated and characterized the full-genome of novel Capra hircus papillomavirus. We identified the E6, E7, E1, E2, L2, L1 open reading frames with protein coding potential and putative active elements in the ChPV2 proteins and putative regulatory genome elements. Sequence similarities of L1 and phylogenetic analyses using concatenated E1E2L2L1 nucleotide and amino acid alignments suggest the classification as a new PV type designated ChPV2 with a phylogenetic position within the XiPV genus, basal to the XiPV1 species. ChPV2 is not closely related to ChPV1, the other known goat PV isolated from healthy skin, although both of them belong confidently into a clade composed of PVs infecting cervids and bovids. Interestingly, ChPV2 contains an E6 open reading frame whereas all closely related PVs do not ChPV2 is a novel goat PV closely related to the Xi-PV1 species infecting bovines. Phylogenetic relationships and genome architecture of ChPV2 and closely related PV types suggest at least two independent E6 losses within the XiPV clade.

中文翻译：

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ChPV2 的基因组和系统发育特征，一种与感染牛的 Xi-PV1 物种密切相关的新型山羊 PV

感染偶蹄动物的乳头瘤病毒 (PV) 非常多样化，在数量上仅次于感染灵长类动物的 PV。已从牛和羊中分离出与具有重要经济意义的反刍动物的病变相关的 PV。来自大马士革山羊乳头病变的潜在 PV DNA 被分离、克隆和测序。使用生物信息学方法分析 PV 基因组以检测开放阅读框并预测编码蛋白质的潜在特征以及推定的调控元件。使用串联的 E1E2L2L1 核苷酸和氨基酸比对的序列比较和系统发育分析用于揭示新 PV 与已知 PV 多样性及其最密切相关的关系。我们分离并表征了新型 Capra hircus papillomavirus 的全基因组。我们确定了 E6、E7、E1、E2、L2、具有蛋白质编码潜力的 L1 开放阅读框和 ChPV2 蛋白质中的假定活性元件和假定的调节基因组元件。L1 的序列相似性和使用串联 E1E2L2L1 核苷酸和氨基酸比对的系统发育分析表明该分类为一种新的 PV 类型，命名为 ChPV2，在 XiPV 属内具有系统发育位置，是 XiPV1 物种的基础。ChPV2 与 ChPV1 没有密切关系，ChPV1 是另一种从健康皮肤中分离出来的已知山羊 PV，尽管它们都自信地属于由感染鹿科动物和牛科动物的 PV 组成的进化枝。有趣的是，ChPV2 包含一个 E6 开放阅读框，而所有密切相关的 PV 都没有 ChPV2 是一种与感染牛的 Xi-PV1 物种密切相关的新型山羊 PV。