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Capacity building for bioinformatics in Latin America

拉丁美洲生物信息学能力建设

基本信息

批准号：
BB/P027849/1
负责人：
Catherine Brooksbank
金额：
$ 492.2万
依托单位：
European Bioinformatics Institute
依托单位国家：
英国
项目类别：
Research Grant
财政年份：
2017
资助国家：
英国
起止时间：
2017 至无数据
项目状态：
已结题

来源：
https://gtr.ukri.org/projects?ref=BB%2FP027849%2F1
关键词：
Capacity building bioinformatics Latin America

项目摘要

Data-driven biology promises to have a major impact on health, agriculture and environmental management. However, in Latin America uptake of data-driven biology has lagged behind despite a clear need. For example, Analysis of human genome data submitted to public databases shows that populations of African and Latin American descent, Hispanics, and indigenous people are barely represented in genomics studies[1]. Given the need to have genome data from those populations for the development of precision medicine in clinical practice, it is necessary to boost the collection of genomics data in Latin American populations. A similar scenario is found for biodiversity in the region, where there is a gap in the knowledge of the majority of the living organisms, which represents over 60% of the total number of terrestrial species on the biosphere[2]. Only by understanding the impact on biodiversity of human-driven activities such as intensive farming and urbanisation can we find a balance between economic development and the preservation and sustainable use of natural resources. We propose a capacity-building programme, led by EMBL-EBI in close collaboration with new and existing collaborators in Latin American countries, including Argentina, Brazil, Colombia, Costa Rica, Mexico, Peru and Venezuela - all countries on the ODA development list. Through a combination of secondments, training workshops, eLearning resources and 'train-the-trainer' activities, we will sustainably build expertise in the fundamental skills required to generate, store, visualise, analyse and interpret biomolecular data. We will focus on three use cases: (1) Food security; (2) Data-driven monitoring and management of communicable disease; and (3) monitoring biodiversity.Biological data can be used to track pandemics in humans and livestock (the recent Zikavirus outbreak, for example), understand and mitigate the causes of crop failure, and monitor biodiversity. Our top priority area in the ODA development strategy is therefore strengthening resilience and response to crises.Latin America is a major producer and exporter of meat, fruit, vegetables and coffee. Biofuel production is also growing. These industries are crucial for the development of the region, and yet put huge pressure on Latin America's unparalleled biodiversity, which is not only of enormous importance in its own right but also contributes to economic prosperity through ecotourism. Data-driven biology can facilitate the production of crops and livestock that are more resilient to environmental challenges and enables sophisticated monitoring of an area's biodiversity. Our second priority area in the ODA development strategy is therefore promoting global prosperity. By incorporating training on how to manage bioinformatics research infrastructure, and by involving local funders and policymakers in these workshops, we hope to contribute to the professionalisation of bioinformatics services throughout the region. This will enhance Latin America's ability to provide a significant contribution to international research projects such as the Global Alliance for Genomics and Health. Expected outcomes of the project include:Increased use of bioinformatics tools and resources to solve research problems of direct relevance to the ODA development strategyIncreased use of bioinformatics to solve applied research problemsA sustainable network of skilled bioinformaticians who are also motivated and talented trainers of other researchersEnduring collaborations and mentorships that encourage women and other underrepresented groups in the research community to develop successful careers in bioinformatics and related subjects.[1] Popejoy, A.B., & Fullerton, S.M. (2016) Genomics is failing on diversity. Nature, 538(7624), 161[2] UNEP-WCMC (2016) The State of Biodiversity in Latin America and the Caribbean: A mid-term review of progress towards the Aichi Biodiversity Targets. UNEP-WCMC, UK

数据驱动的生物学有望对健康、农业和环境管理产生重大影响。然而，在拉丁美洲，尽管有明显的需求，但数据驱动生物学的吸收却落后了。例如，对提交给公共数据库的人类基因组数据的分析表明，非洲和拉丁美洲血统，西班牙裔和土著人的人口在基因组学研究中几乎没有代表[1]。鉴于需要从这些人群中获得基因组数据，以便在临床实践中开发精准医学，因此有必要加强拉丁美洲人群基因组数据的收集。该地区的生物多样性也存在类似的情况，大多数生物体的知识存在差距，这些生物体占生物圈中陆地物种总数的60%以上[2]。只有了解集约化农业和城市化等人类活动对生物多样性的影响，我们才能在经济发展与自然资源的保护和可持续利用之间找到平衡。我们提出一项能力建设方案，由欧洲工商管理学院欧洲工商管理学院牵头，与拉丁美洲国家的新的和现有的合作者密切合作，这些国家包括阿根廷、巴西、哥伦比亚、哥斯达黎加、墨西哥、秘鲁和委内瑞拉----所有这些国家都在官方发展援助发展名单上。通过借调，培训研讨会，电子学习资源和“培训培训师”活动的组合，我们将可持续地建立生成，存储，可视化，分析和解释生物分子数据所需的基本技能的专业知识。我们将重点关注三个用例：（1）粮食安全;（2）数据驱动的传染病监测和管理;（3）监测生物多样性。生物数据可用于跟踪人类和牲畜的流行病（例如最近的寨卡病毒爆发），了解和减轻作物歉收的原因，并监测生物多样性。因此，我们官方发展援助发展战略的最优先领域是加强复原力和应对危机，拉丁美洲是肉类、水果、蔬菜和咖啡的主要生产国和出口国。生物燃料生产也在增长。这些产业对该区域的发展至关重要，但对拉丁美洲无与伦比的生物多样性造成了巨大压力，而生物多样性不仅本身具有巨大的重要性，而且还通过生态旅游促进了经济繁荣。数据驱动的生物学可以促进作物和牲畜的生产，使其更能适应环境挑战，并能够对一个地区的生物多样性进行复杂的监测。因此，我们官方发展援助发展战略的第二个优先领域是促进全球繁荣。通过结合如何管理生物信息学研究基础设施的培训，并通过让当地资助者和政策制定者参与这些研讨会，我们希望为整个地区的生物信息学服务的专业化做出贡献。这将提高拉丁美洲为全球基因组学和健康联盟等国际研究项目作出重大贡献的能力。该项目的预期成果包括：更多地利用生物信息学工具和资源来解决与官方发展援助发展战略直接相关的研究问题更多地利用生物信息学来解决应用研究问题一个由熟练的生物信息学家组成的可持续网络，这些生物信息学家也是其他研究人员的积极和有才华的培训师持久的合作和指导，鼓励研究界的妇女和其他代表性不足的群体在生物信息学和相关学科中发展成功的职业生涯。[1]Popejoy，A.B.，& Fullerton，S.M.（2016）基因组学在多样性方面失败了。自然，538（7624），161[2] UNEP-WCMC（2016）拉丁美洲和加勒比地区的生物多样性状况：爱知生物多样性目标进展的中期审查。联合王国环境署-养护监测中心

项目成果

期刊论文数量（9）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

A whole genome duplication drives the genome evolution of Phytophthora betacei, a closely related species to Phytophthora infestans.

DOI：
10.1186/s12864-021-08079-y
发表时间：
2021-11-05
期刊：
BMC genomics
影响因子：
4.4
作者：
Ayala-Usma DA;Cárdenas M;Guyot R;Mares MC;Bernal A;Muñoz AR;Restrepo S
通讯作者：
Restrepo S

Phenotypic and genetic characterization of Africanized Apis mellifera colonies with natural tolerance to Varroa destructor and contrasting defensive behavior

DOI：
10.3389/finsc.2023.1175760
发表时间：
2023-08
期刊：
Frontiers in Insect Science
影响因子：
0
作者：
Eliana Mariel Bianchi;Carolina Ferrari;N. Aguirre;Carla V. Filippi;Pablo A. Vera;Andrea Fabiana Puebla;Gerardo P. Gennari;Graciela A. Rodríguez;A. Scannapieco;Cintia V. Acuña;S. Lanzavecchia
通讯作者：
Eliana Mariel Bianchi;Carolina Ferrari;N. Aguirre;Carla V. Filippi;Pablo A. Vera;Andrea Fabiana Puebla;Gerardo P. Gennari;Graciela A. Rodríguez;A. Scannapieco;Cintia V. Acuña;S. Lanzavecchia

Genomic and Morphological Differentiation of Spirit Producing Agave angustifolia Traditional Landraces Cultivated in Jalisco, Mexico.