Abundance of enterovirus C in RD-L20B cell culture-negative stool samples from acute flaccid paralysis cases in Nigeria is geographically defined
Abundance of enterovirus C in RD-L20B cell culture-negative stool samples from acute flaccid paralysis cases in Nigeria is geographically defined
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DOI：
10.1099/jmm.0.000737
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发表时间：
2018-06-01
影响因子：
3
通讯作者：
Adeniji, Johnson Adekunle
中科院分区：
文献类型：
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作者：
Donbraye, Emmanuel;Olasunkanmi, Oluwatayo Israel;Adeniji, Johnson Adekunle
目的.我们最近发现，肠道病毒（EV）和C型肠道病毒（EV-C）在尼日利亚被诊断为急性弛缓性麻痹（AFP）的儿童粪便样本中非常丰富，但通过RD-L20 B细胞培养算法宣布无EV。在这项研究中，我们调查了在这些样本中观察到的EV（和EV-Cs）的优势是否因地理区域而异。分析了108份样本（即来自54例AFP病例的54对粪便悬液），这些样本先前已通过WHO推荐的基于RD-L20 B细胞培养的算法确认为EV阴性。将108份样本分成54个样本池（西北和南南尼日利亚各27份）。所有样本均进行RNA提取、cDNA合成和WHO推荐的半巢式PCR检测及其改良。对所有扩增产物进行序列测定，并利用肠道病毒基因分型工具和系统发育分析对肠道病毒进行鉴定。在54份样本中，16份（29.63%）检测到EV，并在14份（25.93%）中成功鉴定。其中10人来自西北部，4人来自尼日利亚南部。EV-A型1株（7.14%），EV-B型2株（14.29%），EV-C型11株（78.57%）。来自尼日利亚西北部的10株EV包括7种类型，即CV-A10、E29、CV-A13、CV-A17、CV-A19、CV-A24和EV-C99。从尼日利亚南南地区回收的四种EV类型为E31、CV-A1、EV-C 99和EV-C116。结论。该研究的结果表明，在尼日利亚，通过基于RD-L20 B细胞培养的算法宣布为无EV的AFP样品中EV和因此EV-C的存在因地理区域而异。
Purpose. We recently showed that enteroviruses (EVs) andenterovirus species C (EV-C) in particular were abundant in faecal samples from children who had been diagnosed with acute flaccid paralysis (AFP) in Nigeria but declared to be EV-free by the RD-L20B cell culture-based algorithm. In this study, we investigated whether this observed preponderance of EVs (and EV-Cs) in such samples varies by geographical region.Methodology. One hundred and eight samples (i.e. 54 paired stool suspensions from 54 AFP cases) that had previously been confirmed to be negative for EVs by the WHO-recommended RD-L20B cell culture-based algorithm were analysed. The 108 samples were made into 54 pools (27 each from North-West and South-South Nigeria). All were subjected to RNA extraction, cDNA synthesis and the WHO-recommended semi-nested PCR assay and its modifications. All of the amplicons were sequenced, and the enteroviruses identified, using the enterovirus genotyping tool and phylogenetic analysis.Results. EVs were detected in 16 (29.63 %) of the 54 samples that were screened and successfully identified in 14 (25.93 %). Of these, 10 were from North-West and 4 were from South-South Nigeria. One (7.14 %), 2 (14.29 %) and 11 (78.57 %) of the strains detected were EV-A, EV-B and EV-C, respectively. The 10 strains from North-West Nigeria included 7 EV types, namely CV-A10, E29, CV-A13, CV-A17, CV-A19, CV-A24 and EV-C99. The four EV types recovered from South-South Nigeria were E31, CV-A1, EV-C99 and EV-C116.Conclusion. The results of this study showed that the presence of EVs and consequently EV-Cs in AFP samples declared to be EV-free by the RD-L20B cell culture-based algorithm varies by geographical region in Nigeria.