Nanopore technologies for Septoria Surveillance
用于壳针孢监控的纳米孔技术
基本信息
- 批准号:BB/N021886/1
- 负责人:
- 金额:$ 19.91万
- 依托单位:
- 依托单位国家:英国
- 项目类别:Research Grant
- 财政年份:2016
- 资助国家:英国
- 起止时间:2016 至 无数据
- 项目状态:已结题
- 来源:
- 关键词:
项目摘要
Septoria tritici blotch (STB) of wheat is the most economically important disease affecting wheat production in Northern Europe. STB is controlled using a combination of agronomy, genetic resistance and fungicides however, selection and subsequent adaptation of the underlying pathogen populations can lead to breakdowns in host resistance and resistance to chemical controls. As the pathogen adapts we will need to understand the composition of the pest population (or pathotypes) to be able to describe specific differences between members of the same species and how these differences affect the range of wheat varieties affected by STB. An effective and cost-efficient solution for STB will directly depend on our understanding of the underlying pathogen (Zymoseptoria tritici). The use of advanced sequencing technologies has the potential to quickly and efficiently screen many individual pathogen isolates, providing a wealth of information at a low cost. This type of approach has already been demonstrated to be a powerful tool in yellow rust of wheat. However, the cost of purchasing machinery required to conduct sequencing is often prohibitive and runs can take between 24-48 hours to complete. There are also requirements for high-powered computing facilities and experienced operators to conduct the relevant analyses to arrange sequencing data in to a practical format. NanoPath will employ the MinION sequencer from Oxford Nanopore Technologies as a surveillance tool to improve the speed and ease at which researchers can identify and survey new pests in the field. This will first assess the utility of the MinION and help to develop a model and computational platform to apply nanopore sequencing to a wider range of crop pathogens. The MinION device is portable and able to generate sequencing data following a relatively easy-to-use process. We also propose to implement a data analysis pipeline that will make use of a number of open-source primary data software tools optimised for the discovery and characterisation of genetic variants this crop pathogen.
小麦壳针孢斑点病(STB)是影响北方小麦生产的重要病害。STB使用农艺学、遗传抗性和杀真菌剂的组合来控制,然而,潜在病原体群体的选择和随后的适应可导致宿主抗性和对化学控制的抗性的破坏。随着病原体的适应,我们需要了解害虫种群(或致病型)的组成,以便能够描述同一物种成员之间的具体差异,以及这些差异如何影响受STB影响的小麦品种的范围。STB的有效和具有成本效益的解决方案将直接取决于我们对潜在病原体(Zymoseptoria trivulae)的了解。使用先进的测序技术有可能快速有效地筛选许多单个病原体分离株,以低成本提供丰富的信息。这种类型的方法已经被证明是一个强大的工具,在小麦黄锈病。然而,购买进行测序所需的机器的成本通常是令人望而却步的,并且运行可能需要24-48小时才能完成。还需要高性能的计算设施和经验丰富的操作员进行相关分析,以将测序数据整理成实用的格式。NanoPath将采用牛津纳米孔技术公司的MinION测序仪作为监测工具,以提高研究人员识别和调查该领域新害虫的速度和便利性。这将首先评估MinION的实用性,并帮助开发一个模型和计算平台,将纳米孔测序应用于更广泛的作物病原体。MinION设备是便携式的,并且能够在相对易于使用的过程之后生成测序数据。我们还建议实施一个数据分析管道,该管道将利用许多开源原始数据软件工具,这些工具针对发现和表征这种作物病原体的遗传变异进行了优化。
项目成果
期刊论文数量(1)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
(Article) Applying new technology to pathogen surveillance
(文章)新技术应用于病原体监测
- DOI:
- 发表时间:
- 期刊:
- 影响因子:0
- 作者:Wood T A
- 通讯作者:Wood T A
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Mario Caccamo其他文献
Developmental processes in the Rosaceae through the lens of DNA and RNA methylation
- DOI:
10.1007/s00425-025-04623-2 - 发表时间:
2025-02-08 - 期刊:
- 影响因子:3.800
- 作者:
Tamunonengiye-Ofori Lawson;Juan-Pablo Selva;José Carballo;Mario Caccamo;Daniel J. Sargent;Nada Šurbanovski - 通讯作者:
Nada Šurbanovski
Crowdsourcing genomic analyses of ash and ash dieback – power to the people
- DOI:
10.1186/2047-217x-2-2 - 发表时间:
2013-02-12 - 期刊:
- 影响因子:3.900
- 作者:
Dan MacLean;Kentaro Yoshida;Anne Edwards;Lisa Crossman;Bernardo Clavijo;Matt Clark;David Swarbreck;Matthew Bashton;Patrick Chapman;Mark Gijzen;Mario Caccamo;Allan Downie;Sophien Kamoun;Diane GO Saunders - 通讯作者:
Diane GO Saunders
Turning over a new leaf in plant genomics
- DOI:
10.1186/gb-2013-14-6-403 - 发表时间:
2013-06-01 - 期刊:
- 影响因子:9.400
- 作者:
Mario Caccamo;Erich Grotewold - 通讯作者:
Erich Grotewold
Mario Caccamo的其他文献
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{{ truncateString('Mario Caccamo', 18)}}的其他基金
Open Access Block Award 2023 - National Inst of Agricultural Botany
2023 年开放获取区块奖 - 国家农业植物研究所
- 批准号:
EP/Y530219/1 - 财政年份:2023
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
Open Access Block Award 2022 - National Inst of Agricultural Botany
2022 年开放获取区块奖 - 国家农业植物研究所
- 批准号:
EP/X527191/1 - 财政年份:2022
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
21ROMITIGATIONFUND National Institute of Agricultural Botany
21ROMITIGATIONFUND 国立农业植物研究所
- 批准号:
BB/W51066X/1 - 财政年份:2021
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
An evolutionary approach to optimising synthetic apomixis in cereal crops
优化谷类作物合成无融合生殖的进化方法
- 批准号:
BB/V016466/1 - 财政年份:2021
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
UK Crop Diversity Bioinformatics Resource
英国作物多样性生物信息学资源
- 批准号:
BB/S019669/1 - 财政年份:2019
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
Exploring genetic diversity of native Andean potatoes for an increased value crop
探索本土安第斯马铃薯的遗传多样性以提高作物价值
- 批准号:
BB/R021449/1 - 财政年份:2018
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
Sequencing and exploitation of the genetic diversity in Vietnamese native rice lines to serve research and breeding programs
对越南本土水稻品系的遗传多样性进行测序和利用,为研究和育种计划服务
- 批准号:
BB/N013735/1 - 财政年份:2016
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
CerealsDB: A community resource for wheat genomics
CerealsDB:小麦基因组学社区资源
- 批准号:
BB/L024144/1 - 财政年份:2014
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
COpenPlantOmics (COPO): a Collaborative Bioinformatics Plant Science Platform
COpenPlantOmics (COPO):协作生物信息学植物科学平台
- 批准号:
BB/L024055/1 - 财政年份:2014
- 资助金额:
$ 19.91万 - 项目类别:
Research Grant
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