Portable Rabies Virus Sequencing in Canine Rabies Endemic Countries Using the Oxford Nanopore MinION.
Portable Rabies Virus Sequencing in Canine Rabies Endemic Countries Using the Oxford Nanopore MinION.
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使用牛津纳米孔MinION在犬狂犬病流行国家进行便携式狂犬病毒测序。
DOI：
10.3390/v12111255
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发表时间：
2020-11-04
期刊：
影响因子：
--
通讯作者：
Li Y
中科院分区：
文献类型：
--
作者：
Gigante CM;Yale G;Condori RE;Costa NC;Long NV;Minh PQ;Chuong VD;Tho ND;Thanh NT;Thin NX;Hanh NTH;Wambura G;Ade F;Mito O;Chuchu V;Muturi M;Mwatondo A;Hampson K;Thumbi SM;Thomae BG;de Paz VH;Meneses S;Munyua P;Moran D;Cadena L;Gibson A;Wallace RM;Pieracci EG;Li Y
随着犬狂犬病流行的国家朝着到 2030 年消除狂犬病的目标迈进，有必要采用技术来帮助规划、监测和确认犬狂犬病的消除。测序可以通过识别可能具有不同宿主储存物种或地理分布的遗传上不同的病毒变体来提供关键信息，从而为控制和疫苗接种策略提供信息。然而，许多狂犬病检测实验室缺乏测序资源或专业知识，特别是在人类狂犬病死亡人数最高的偏远或农村地区。我们使用 Oxford Nanopore MinION 便携式测序仪开发了一种低成本、高通量的狂犬病病毒测序方法。在危地马拉、印度、肯尼亚和越南缺乏狂犬病病毒测序能力的公共卫生实验室中，从不同的狂犬病病毒分离株中产生了总共 259 个序列。系统发育分析为了解这些国家的狂犬病病毒多样性和分布提供了宝贵的见解，并在肯尼亚确定了一种新的狂犬病病毒谱系、危地马拉首次发表的犬类狂犬病病毒序列、狂犬病在越南跨越国际边境传播的证据以及将一只狂犬病狗输入到印度一个致力于消除狂犬病的国家。总而言之，我们的评估强调了 MinION 在资源有限的地区进行低成本、大容量病原体测序的潜力。
As countries with endemic canine rabies progress towards elimination by 2030, it will become necessary to employ techniques to help plan, monitor, and confirm canine rabies elimination. Sequencing can provide critical information to inform control and vaccination strategies by identifying genetically distinct virus variants that may have different host reservoir species or geographic distributions. However, many rabies testing laboratories lack the resources or expertise for sequencing, especially in remote or rural areas where human rabies deaths are highest. We developed a low-cost, high throughput rabies virus sequencing method using the Oxford Nanopore MinION portable sequencer. A total of 259 sequences were generated from diverse rabies virus isolates in public health laboratories lacking rabies virus sequencing capacity in Guatemala, India, Kenya, and Vietnam. Phylogenetic analysis provided valuable insight into rabies virus diversity and distribution in these countries and identified a new rabies virus lineage in Kenya, the first published canine rabies virus sequence from Guatemala, evidence of rabies spread across an international border in Vietnam, and importation of a rabid dog into a state working to become rabies-free in India. Taken together, our evaluation highlights the MinION’s potential for low-cost, high volume sequencing of pathogens in locations with limited resources.
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DOI：
10.1126/science.aaf5036
发表时间：
2016-04-15
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Faria NR;Azevedo RDSDS;Kraemer MUG;Souza R;Cunha MS;Hill SC;Thézé J;Bonsall MB;Bowden TA;Rissanen I;Rocco IM;Nogueira JS;Maeda AY;Vasami FGDS;Macedo FLL;Suzuki A;Rodrigues SG;Cruz ACR;Nunes BT;Medeiros DBA;Rodrigues DSG;Queiroz ALN;da Silva EVP;Henriques DF;da Rosa EST;de Oliveira CS;Martins LC;Vasconcelos HB;Casseb LMN;Simith DB;Messina JP;Abade L;Lourenço J;Alcantara LCJ;de Lima MM;Giovanetti M;Hay SI;de Oliveira RS;Lemos PDS;de Oliveira LF;de Lima CPS;da Silva SP;de Vasconcelos JM;Franco L;Cardoso JF;Vianez-Júnior JLDSG;Mir D;Bello G;Delatorre E;Khan K;Creatore M;Coelho GE;de Oliveira WK;Tesh R;Pybus OG;Nunes MRT;Vasconcelos PFC
通讯作者：
Vasconcelos PFC
影响因子：
3.1
作者：
COX, JH;DIETZSCHOLD, B;SCHNEIDER, LG
通讯作者：
SCHNEIDER, LG
影响因子：
2.5
作者：
Abbas, Syed Shahid;Venkataramanan, Vidya;Kakkar, Manish
通讯作者：
Kakkar, Manish
影响因子：
3.8
作者：
Bourhy, H;Kissi, B;Holmes, EC
通讯作者：
Holmes, EC
影响因子：
3.8
作者：
Fooks AR;Johnson N;Freuling CM;Wakeley PR;Banyard AC;McElhinney LM;Marston DA;Dastjerdi A;Wright E;Weiss RA;Müller T
通讯作者：
Müller T