The Sc2.0 UK Genome Engineering Resource (SUGER)

Sc2.0 英国基因组工程资源 (SUGER)

• 批准号: BB/K019791/1
• 负责人: Thomas Ellis
• 金额: $ 124.96万
• 依托单位: Imperial College London
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2013
• 资助国家: 英国
• 起止时间: 2013 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FK019791%2F1
• 关键词: Sc2.0; UK; Genome; Engineering; Resource; Sc2.0; UK; Genome; Engineering; Resource

Sc2.0 (Synthetic Yeast) is an international flagship project to complete the first chemical synthesis and assembly of a eukaryotic genome, that of the yeast Saccharomyces cerevisiae. The project is an open-access, academic response to genome synthesis work by Craig Venter and others and will make highly-evolvable synthetic yeast strains and new genome-scale engineering methods available to all. The Sc2.0 UK Genome Engineering Resource (SUGER) is a proposed resource that not only enables UK participation in the Sc2.0 project but will also maximise the impact Sc2.0 has on biosciences research, synthetic biology and industrial biotechnology in the UK and abroad. The Sc2.0 international consortium now includes the UK who will lead on the synthesis and assembly of Chromosome XI. The project arises from work led by Jef Boeke at Johns Hopkins University published in Nature last year (Dymond et al). This publication showed completion of two chromosome arms and highlighted many unique modifications designed into the synthetic genome. Three of these of note are (i) eliminating all TAG codons to allow future "orthogonal" encoding of unnatural amino acids, (ii) removing non-essential and destabilising elements (introns, cryptic ORFs, transposons) to streamline the genome and (iii) placing synthetic recombination sites downstream of all non-essential genes. The latter of these is an especially useful tool, as recombination leads to these genes being removed, inverted or translocated within the genome. This novel tool can be used to rapidly evolve cells down to their minimal gene number or to produce arrangements that have increased fitness in desired environments (e.g. biofuel production). Taken together, the Sc2.0 project offers a unique way to explore genome topology, nuclear structure and will also allow researchers to uncover 'context rules' for genome design. It is also a grand challenge project to push boundaries in synthetic biology and modern biosciences. The Sc2.0 website is: http://www.syntheticyeast.orgThe Sc2.0 UK Genome Engineering Resource (SUGER) gives UK participation in this project and will make all DNA, strains, data and genome engineering methods and tools developed during Sc2.0 available to the wider bioscience community as a significant resource. Dr Tom Ellis and Prof Paul Freemont will direct a chromosome team at the synthetic biology centre at Imperial College London to complete design, synthesis, assembly and verification of Chromosome XI by 2016; adding this to the full international set to produce the complete Sc2.0 strain by 2017. Dr Alistair Elfick (Edinburgh) will assist in the process, which will also includes a suite of related bioinformatics software tools and detailed genome engineering protocols. Prof Steve Oliver (Cambridge) will provide world-leading expertise on yeast and direct experiments that will provide quality control and fitness data for hybrid and synthetic yeast chromosomes.SUGER will:1. Complete full synthesis, assembly and verification of Synthetic Yeast Chromosome XI (SynXI - 0.67Mbp) as the UK's contribution to the international Sc2.0 project.2. Curate and distribute a Sc2.0 strain resource, a physical collection for IP-free distribution of S. cerevisiae strains containing the hybrid and fully-synthetic chromosomes of the international Sc2.0 project and the DNA building blocks that were used in construction.3. Extend Sc2.0 resources to be valuable legacy for the wider biosciences community. We will build a SUGER website hosting Sc2.0 and genome engineering information, extend the suite of Sc2.0 software tools and protocols to be applicable for future synthetic biology projects, and run three annual genome engineering workshops for teaching genome-scale synthetic biology concepts and methods to UK researchers.We expect high use of these resources from epigenetics, genomics and yeast researchers as well as from systems biology, synthetic biology and industrial biotech.

SC2.0（合成酵母）是一项国际旗舰项目，旨在完成酵母基因组的第一个化学合成和组装，即酵母菌酿酒酵母。该项目是Craig Venter和其他人对基因组合成工作的开放式学习反应，将使所有人都可以使用高度溶出的合成酵母菌菌株和新的基因组规模工程方法。 SC2.0英国基因组工程资源（SUGER）是一种提议的资源，不仅可以使英国参与SC2.0项目，而且还将最大程度地影响SC2.0对英国和国外的生物科学研究，合成生物学和工业生物技术的影响。现在，SC2.0国际财团包括将领导XI染色体的合成和组装的英国。该项目是由约翰·霍普金斯大学（Johns Hopkins University）在自然界发表的约翰·霍普金斯大学（Johns Hopkins University）的杰夫·博克（Jef Boeke）领导的工作（Dymond等人）。该出版物显示了两个染色体臂的完成，并强调了合成基因组设计的许多独特的修饰。值得注意的三个是（i）消除所有标记密码子，以使未来的“正交”编码不自然的氨基酸，（ii）删除非必需的元素（内含子，密码ORF，posson，posson，possons），以简化基因组和（iii）将合成重置位点的放置位置，并不是所有的基因基因依赖于各种基因的基因。后者是一个特别有用的工具，因为重组导致这些基因在基因组中被去除，倒置或易位。这种新型工具可用于快速发展到其最小基因数量或产生在所需环境中适应性增加的布置（例如生物燃料生产）。综上所述，SC2.0项目提供了一种探索基因组拓扑结构，核结构的独特方法，还将允许研究人员发现基因组设计的“上下文规则”。这也是一个大挑战项目，可以突破合成生物学和现代生物科学的界限。 SC2.0网站是：http：//www.syntheticyeast.orgthe sc2.0英国基因组工程资源（SUGER）使英国参与该项目，并将使SC2.0在SC2.0期间开发的所有DNA，菌株，数据和基因组工程方法和工具作为重要的生物科学社区可用。汤姆·埃利斯（Tom Ellis）博士和保罗·弗里蒙特（Paul Freemont）教授将在伦敦帝国学院的合成生物学中心指导一支染色体团队，以完成2016年XI染色体XI的设计，合成，组装和验证；将其添加到整个国际套装中，以产生2017年完整的SC2.0菌株。AlistairElfick博士（爱丁堡）将协助这一过程，该过程还将包括一套相关的生物信息学软件工具和详细的基因组工程协议。史蒂夫·奥利弗（Steve Oliver）教授（剑桥）将在酵母和直接实验方面提供世界领先的专业知识，这些专业知识将为混合和合成酵母染色体提供质量控制和健身数据。SugerWill：1。完全合成，组装和验证XI合成酵母染色体（Synxi -0.67Mbp）作为英国对国际SC2.0项目的贡献。2。策展人并分发SC2.0应变资源，这是一种物理收集，用于无IP分布的S. cerevisiae菌株，其中包含国际SC2.0项目的混合和全合成染色体，以及在建筑中使用的DNA构建块。3。将SC2.0资源扩展到对更广泛的生物科学社区的宝贵遗产。我们将构建一个托管SC2.0和基因组工程信息的Suger网站，将SC2.0软件工具和协议的套件扩展到未来的合成生物学项目中，并开展了三个年度基因组工程研讨会，用于教授基因组合成生物学概念和方法，以向英国研究人员进行基因组规模的研究。生物技术。