Gemykibivirus detection in acute encephalitis patients from Nepal.
Gemykibivirus detection in acute encephalitis patients from Nepal.
复制标题
尼泊尔急性脑炎患者中双病毒（Gemykibivirus）的检测。
DOI：
10.1101/2024.02.13.24302648
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发表时间：
2024
期刊：
影响因子：
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通讯作者：
Manandhar,Kr
中科院分区：
文献类型：
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作者：
Tuladhar,EansTara;Shrestha,Smita;Vernon,Susan;Droit,Lindsay;Mihindukulasuriya,KathieA;Tamang,Mamta;Karki,Lata;Ngono,AnnieElong;Jha,Bimlesh;Awal,BalKrishna;Chalise,BimalSharma;Jha,Runa;Shresta,Sujan;Wang,David;Manandhar,Kr
急性脑炎综合征（AES）在世界范围内引起显著的发病率和死亡率。在尼泊尔，日本脑炎病毒（JEV）约占AES病例的5-20%，但约75%的AES病例病因不明。我们使用宏基因组下一代测序技术，在2020年从一名8岁男性AES患者的CSF中鉴定出一种gemykibivirus。Gemykibiviruses是基因组病毒科中的单链环状DNA病毒。对2，211个核苷酸的全基因组进行测序，其与其最近的亲属人相关双生双病毒2分离株SAfia-449 D共享98.69%的核苷酸同一性。设计了两种实时PCR检测方法，并对2020年和2022年收集的尼泊尔AES患者的337份脑脊液（CSF）和164份血清样本进行了筛查，结果显示11份CSF和1份血清样本在两种PCR检测中均呈阳性。对其中7个阳性样本的完整基因组进行了测序。这些结果确定了尼泊尔脑炎的潜在候选病原体。重要信息病毒性脑炎是一种毁灭性的疾病，但不幸的是，在世界范围内，许多病例的致病病毒是未知的。因此，重要的是要确定病毒，可能是负责人类脑炎病例。在这里，使用CSF的宏基因组测序，我们确定了一个gemykibivirus在尼泊尔的男孩与急性脑炎综合征（AES）。随后，我们通过实时PCR检测了12例脑炎患者的CSF或血清中的杰麦基比病毒DNA。我们鉴定的病毒基因组与先前在斯里兰卡三名脑炎患者的CSF中检测到的gemykibivirus高度相似。这些结果提高了gemykibivirus可能是一种未被充分认识的人类病原体的可能性。
Acute encephalitis syndrome (AES) causes significant morbidity and mortality worldwide. In Nepal, Japanese encephalitis virus (JEV) accounts for ~5-20% of AES cases, but ~75% of AES cases are of unknown etiology. We identified a gemykibivirus in CSF collected in 2020 from an 8-year-old male patient with AES using metagenomic next-generation sequencing. Gemykibiviruses are single stranded, circular DNA viruses in the familyGenomoviridae. The complete genome of 2,211 nucleotides was sequenced, which shared 98.69% nucleotide identity to its closest relative, Human associated gemykibivirus 2 isolate SAfia-449D. Two real-time PCR assays were designed, and screening of 337 cerebrospinal fluid (CSF) and 164 serum samples from AES patients in Nepal collected in 2020 and 2022 yielded 11 CSF and 1 serum sample that were positive in both PCR assays. Complete genomes of seven of the positives were sequenced. These results identify a potential candidate etiologic agent of encephalitis in Nepal.IMPORTANCEViral encephalitis is a devastating disease, but unfortunately, worldwide, the causative virus in many cases is unknown. Therefore, it is important to identify viruses that could be responsible for cases of human encephalitis. Here, using metagenomic sequencing of CSF, we identified a gemykibivirus in a male child from Nepal with acute encephalitis syndrome (AES). We subsequently detected gemykibivirus DNA in CSF or serum of 12 more encephalitis patients by real-time PCR. The virus genomes we identified are highly similar to gemykibiviruses previously detected in CSF of three encephalitis patients from Sri Lanka. These results raise the possibility that gemykibivirus could be an underrecognized human pathogen.