The use of nemabiome metabarcoding to explore gastro-intestinal nematode species diversity and anthelmintic treatment effectiveness in beef calves
The use of nemabiome metabarcoding to explore gastro-intestinal nematode species diversity and anthelmintic treatment effectiveness in beef calves
复制标题
DOI：
10.1016/j.ijpara.2017.06.006
复制
发表时间：
2017-11-01
影响因子：
4
通讯作者：
Gilleard, John S.
中科院分区：
文献类型：
--
作者：
Avramenko, Russell W.;Redman, Elizabeth M.;Gilleard, John S.
下一代深度扩增子测序或metabarcoding已经彻底改变了人类，动物和环境中微生物群落的研究。然而，这些方法尚未应用于寄生蠕虫群落。我们最近描述了这种方法的第一个例子-线虫组测序-基于内部转录间隔区2（ITS-2）rDNA的深度扩增子测序，并验证了其定量评估牛胃肠道线虫（GIN）群落物种组成的能力。在这里，我们提出了这种方法的第一个应用程序，探索GIN物种多样性和驱虫药物治疗的影响。首先，我们调查了GIN的物种多样性在几个不同地区的奶牛，小牛肉牛牛群，使用coproculture衍生的L3。对50个加拿大肉牛群的筛选显示，寄生虫物种多样性总体较低。大多数寄生虫群落仅由两个物种组成：奥斯特线虫和肿瘤古柏线虫。Cooperia punctata是目前在整体水平低得多，但仍然包括在加拿大东部的几个畜群的寄生虫群落的实质性部分。与此相反，线虫组测序显示，较高的GIN物种多样性，从美国中部/东南部和巴西圣保罗州的肉牛采样。在这些地区，C。斑点占主导地位，在大多数畜群与血矛线虫为主，在少数情况下。Ostertagia ostertagi和C.在这些地区，与加拿大的牛群相比，Oncophora是相对次要的物种。我们还研究了常规大环内酯浇泼治疗对加拿大肉牛群中GIN社区的影响。在许多情况下观察到低治疗有效性，线虫组测序显示古柏属的比例总体增加。相对于O. ostertagi治疗后。这项工作证明了线虫组元编码的力量，提供了一个详细的图片GIN寄生虫群落结构在大样本集，并说明了其在研究，诊断和监测的潜在用途。(C)2017作者由Elsevier Ltd代表澳大利亚寄生虫学会出版。
Next-generation deep amplicon sequencing, or metabarcoding, has revolutionized the study of microbial communities in humans, animals and the environment. However, such approaches have yet to be applied to parasitic helminth communities. We recently described the first example of such a method - nemabiome sequencing - based on deep-amplicon sequencing of internal transcribed spacer 2 (ITS-2) rDNA, and validated its ability to quantitatively assess the species composition of cattle gastro-intestinal nematode (GIN) communities. Here, we present the first application of this approach to explore GIN species diversity and the impact of anthelmintic drug treatments. First, we investigated GIN species diversity in cow-calf beef cattle herds in several different regions, using coproculture derived L3s. A screen of 50 Canadian beef herds revealed parasite species diversity to be low overall. The majority of parasite communities were comprised of just two species; Ostertagia ostertagi and Cooperia oncophora. Cooperia punctata was present at much lower levels overall, but nevertheless comprised a substantive part of the parasite community of several herds in eastern Canada. In contrast, nemabiome sequencing revealed higher GIN species diversity in beef calves sampled from central/south-eastern USA and Sao Paulo State, Brazil. In these regions C. punctata predominated in most herds with Haemonchus placei predominating in a few cases. Ostertagia ostertagi and C. oncophora were relatively minor species in these regions in contrast to the Canadian herds. We also examined the impact of routine macrocyclic lactone pour-on treatments on GIN communities in the Canadian beef herds. Low treatment effectiveness was observed in many cases, and nemabiome sequencing revealed an overall increase in the proportion of Cooperia spp. relative to O. ostertagi post-treatment. This work demonstrates the power of nemabiome metabarcoding to provide a detailed picture of GIN parasite community structure in large sample sets and illustrates its potential use in research, diagnostics and surveillance. (C) 2017 The Authors. Published by Elsevier Ltd on behalf of Australian Society for Parasitology.