Molecular characterization of a new highly divergent Mobala related arenavirus isolated from Praomys sp. rodents.
Molecular characterization of a new highly divergent Mobala related arenavirus isolated from Praomys sp. rodents.
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DOI：
10.1038/s41598-021-88046-5
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发表时间：
2021-05-13
影响因子：
4.6
通讯作者：
Berthet N
中科院分区：
文献类型：
--
作者：
Simo Tchetgna H;Descorps-Declère S;Selekon B;Kwasiborski A;Vandenbogaert M;Manuguerra JC;Gessain A;Caro V;Nakouné E;Berthet N
沙粒病毒代表天然存在于啮齿类动物中的属于鼠亚科、新鼠亚科或Sigmodontinae的病毒家族。除了拉沙病毒，关于其他旧世界沙粒病毒的信息很少。在这里，我们描述了菌株AnRB 3214，一种病毒分离自一种假定的Praomys属啮齿动物在中非共和国于1981年，并分配到Ippy病毒的抗原相似性的基础上。该菌株在Illumina NovaSeq 6000和MinION Mk1B设备上同时测序，并使用各种生物信息学工具进行分析。我们表明，最好的基因组覆盖率和深度获得了Kaiju和Minimap2分类和识别工具，无论是MinION或Illumina读取。AnRB 3214片段的遗传分析显示，在核酸水平上与Mobala和Gairo哺乳动物病毒的相似性为68%至79%。AnRB 3214株的截短核蛋白小于其他旧大陆沙粒病毒。分子钟分析表明，这种病毒株至少在400年前从莫巴拉病毒分离出来。最后，这项研究说明了基因组学在鉴定存档病毒中的重要性，并扩展了非洲沙粒病毒的多样性，因为AnRB 3214株是Mobala病毒的变体或近亲，而不是Ippy病毒。
Arenaviruses represent a family of viruses that are naturally present in rodents belonging to subfamily Murinae, Neotominae or Sigmodontinae. Except for Lassa virus, little information is available on other Old-World arenaviruses. Here, we describe strain AnRB3214, a virus isolated from a presumed Praomys sp. rodent in the Central African Republic in 1981 and assigned to Ippy virus based on antigenic similarity. The strain was simultaneously sequenced on Illumina NovaSeq 6000 and MinION Mk1B devices and analysed with various bioinformatics tools. We show that the best genome coverage and depth were obtained with the Kaiju and Minimap2 classification and identification tools, on either the MinION or the Illumina reads. The genetic analysis of AnRB3214 fragments showed 68% to 79% similarity with the Mobala and Gairo mammarenaviruses at the nucleic acid level. Strain AnRB3214 had a truncated nucleoprotein smaller than that of other Old World arenaviruses. Molecular clock analysis suggests that this strain diverged from Mobala virus at least 400 years ago. Finally, this study illustrates the importance of genomics in the identification of archived viruses and expands on the diversity of African arenaviruses, because strain AnRB3214 is either a variant or a close relative of Mobala virus, and not Ippy virus.
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DOI：
10.1038/nrg.2017.88
发表时间：
2018-01
期刊：
Nature reviews. Genetics
影响因子：
--
作者：
Gardy JL;Loman NJ
通讯作者：
Loman NJ
DOI：
10.1016/0035-9203(85)90242-1
发表时间：
1985-01-01
影响因子：
2.2
作者：
GEORGES, AJ;GONZALEZ, JP;MCCORMICK, JB
通讯作者：
MCCORMICK, JB
影响因子：
11.8
作者：
Gryseels, Sophie;Mbala-Kingebeni, Placide;Ahuka-Mundeke, Steve
通讯作者：
Ahuka-Mundeke, Steve
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS
影响因子：
5.4
作者：
D'Antuono, Alejandra;Eugenia Loureiro, Maria;Lopez, Nora
通讯作者：
Lopez, Nora