Epidemiology and evolution of novel deltacoronaviruses in birds in central China
Epidemiology and evolution of novel deltacoronaviruses in birds in central China
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中国中部地区鸟类新型三角洲冠状病毒的流行病学和进化
DOI：
10.1111/tbed.14029
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发表时间：
2020-09
影响因子：
4.3
通讯作者：
Xing-Yi Ge
中科院分区：
文献类型：
--
作者：
Qiong Wang;Zhi-Jian Zhou;Zhi You;Deng-Yu Wu;Shu-Jing Liu;Wan-Lin Zhang;Ke-Rui Fan;Rui Luo;Ye Qiu;Xing-Yi Ge
摘要冠状病毒在自然宿主动物中的多样性和广泛性，很可能通过种间传播引起流行病，近几十年来，由于冠状病毒的频繁流行，引起了人们的广泛关注。鸟类是各种病毒的天然宿主，但中国中部地区野生鸟类中冠状病毒的存在几乎没有研究。一些鸟类冠状病毒属于三角洲冠状病毒属。为了探索中国中部地区鸟类δ冠状病毒的多样性，我们检测了中国湖南省415种野生鸟类的粪便样品。通过RT-PCR检测，我们鉴定了8份来自普通喜鹊的δ冠状病毒阳性样本，其中4份成功扩增出与目前已知的δ冠状病毒不同的完整δ冠状病毒基因组，表明4种新型δ冠状病毒毒株（HNU 1 - 1、HNU 1 - 2、HNU 2和HNU 3）。对4株病毒基因组序列的比较分析表明，这3株病毒共有3个不同的S基因，其中HNU 1 - 1和HNU 1 - 2与鹅口疮冠状病毒HKU 12的S基因氨基酸同源性为93.8%，HNU 2 S与白色眼冠状病毒HKU 16的S基因氨基酸同源性为71.9%，HNU 3 S与麻雀冠状病毒HKU 17的氨基酸同源性为72.4%。分离分析表明，S基因的频繁重组事件发生在这些deltacoronavirus株。在HNU冠状病毒的非结构蛋白中发现了两个新的切割位点，贝叶斯地理分析表明，中国南部沿海可能是中国内陆存在的禽三角洲冠状病毒的潜在起源地。综上所述，这些结果表明，中国普通喜鹊携带了多种具有新型基因组特征的δ冠状病毒，表明其是与人类社区密切相关的环境冠状病毒的重要来源，这可能为未来冠状病毒疫情的防控提供关键信息。
Abstract The variety and widespread of coronavirus in natural reservoir animals is likely to cause epidemics via interspecific transmission, which has attracted much attention due to frequent coronavirus epidemics in recent decades. Birds are natural reservoir of various viruses, but the existence of coronaviruses in wild birds in central China has been barely studied. Some bird coronaviruses belong to the genus of Deltacoronavirus. To explore the diversity of bird deltacoronaviruses in central China, we tested faecal samples from 415 wild birds in Hunan Province, China. By RT‐PCR detection, we identified eight samples positive for deltacoronaviruses which were all from common magpies, and in four of them, we successfully amplified complete deltacoronavirus genomes distinct from currently known deltacoronavirus, indicating four novel deltacoronavirus stains (HNU1‐1, HNU1‐2, HNU2 and HNU3). Comparative analysis on the four genomic sequences showed that these novel magpie deltacoronaviruses shared three different S genes among which the S genes of HNU1‐1 and HNU1‐2 showed 93.8% amino acid (aa) identity to that of thrush coronavirus HKU12, HNU2 S showed 71.9% aa identity to that of White‐eye coronavirus HKU16, and HNU3 S showed 72.4% aa identity to that of sparrow coronavirus HKU17. Recombination analysis showed that frequent recombination events of the S genes occurred among these deltacoronavirus strains. Two novel putative cleavage sites separating the non‐structural proteins in the HNU coronaviruses were found. Bayesian phylogeographic analysis showed that the south coast of China might be a potential origin of bird deltacoronaviruses existing in inland China. In summary, these results suggest that common magpie in China carries diverse deltacoronaviruses with novel genomic features, indicating an important source of environmental coronaviruses closed to human communities, which may provide key information for prevention and control of future coronavirus epidemics.
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DOI：
10.3760/cma.j.cn112338-20200427-00659
发表时间：
2020-12
影响因子：
--
作者：
Chaolin Huang;Ye-ming Wang;Xing-wang Li;L. Ren;Jianping Zhao;Y. Hu;Li Zhang;Guohui Fan;
通讯作者：
Chaolin Huang;Ye-ming Wang;Xing-wang Li;L. Ren;Jianping Zhao;Y. Hu;Li Zhang;Guohui Fan;
影响因子：
5
作者：
Shi Z;Hu Z
通讯作者：
Hu Z
DOI：
10.1128/genomea.00945-15
发表时间：
2015-09-03
期刊：
Genome announcements
影响因子：
--
作者：
Wang YW;Yue H;Fang W;Huang YW
通讯作者：
Huang YW
影响因子：
11.7
作者：
Zhou, Zhi-Jian;Qiu, Ye;Ge, Xing-Yi
通讯作者：
Ge, Xing-Yi
影响因子：
4.3
作者：
Sailleau, Corinne;Dumarest, Marine;Le Poder, Sophie
通讯作者：
Le Poder, Sophie