Microbial Genome Sequencing: Sequencing Genomes of the Myoviridae

该项目是由PI、Jim D. Karam博士（杜兰大学）和Henry M. Krisch博士（法国图卢兹CNRS）合作完成的。该项目的目的是对多达8个不同的肌病毒科成员的基因组进行测序，这些成员的病毒粒子形态在不同程度上类似于噬菌体T4。肌病毒科的基因组构成了一个丰富的，但很大程度上尚未开发的蛋白质基因库，这些蛋白质发挥着各种各样的生物学作用。选择用于分析的野生型噬菌体菌株感染栖息在各种生态位的系统发育不同的细菌宿主。它们包括三个与T4有远亲关系的噬菌体（RB69， RB49和RB43），三个气单胞菌噬菌体（44RR2.8t， Aeh1和25），一个也感染一些假单胞菌的洋葱伯霍尔德菌噬菌体（噬菌体42）和一个不动杆菌噬菌体（噬菌体133）。预计该项目将产生一个数据库和实验工具，以加强进化生物学家、遗传学家、生物化学家和结构生物学家的研究活动。与Integrated Genomics， Inc.（一家生物技术公司）达成了一项具有成本效益的协议，为感兴趣的噬菌体菌株构建基因组文库，并对这些文库进行高通量测序。预计在项目的高通量阶段，每个基因组将获得6X的覆盖率，并在随后的两轮引物行走中缩小差距。一旦获得并验证了6X的覆盖率，带注释的序列将在web上提供给科学界（GenBank和Integrated Genomics服务器）。将向潜在的合作者和科学界的其他人提供DNA样本和其他援助。每月的更新将放在公共数据库中（在GenBank和Integrated Genomics）。此外，该项目将作为杜兰大学通过基因组技术和生物信息学教学加强研究生课程的背景。这是一个微生物基因组测序奖，由国家科学基金会和农业部未来农业和粮食系统倡议之间的合作活动资助。

The project is a collaborative effort between the PI, Jim D. Karam, Ph.D. (Tulane University) and Henry M. Krisch, Ph.D. (CNRS, Toulouse, France). The purpose of the project is to sequence the genomes of up to 8 divergent members of the Myoviridae Family whose virion morphologies resemble phage T4 to varying extents. The genomes of the Myoviridae constitute a rich, and yet largely unexplored, genetic pool for proteins that play a wide variety of biological roles. The wild-type phage strains chosen for analysis infect phylogenetically diverse bacterial hosts that inhabit a variety of ecological niches. They include three coliphages (RB69, RB49 and RB43) that are distantly related to T4, three Aeromonas phages (44RR2.8t, Aeh1, and 25), a Burholderia cepacia phage (phage 42) that also infects some Pseudomonads, and an Acinetobacter phage (phage 133). It is expected that the project will generate a database and experimental tools that will enhance the research activities of evolutionary biologists, geneticists, biochemists, and structural biologists. A cost-effective agreement has been arranged with Integrated Genomics, Inc. (a biotechnology company) to construct genomic libraries for the phage strains of interest and to carry out high-throughput sequencing on these libraries. It is expected that each genome will receive 6X coverage during the high-throughput phase of the project and two subsequent rounds of primer walking to close gaps. Annotated sequences will be made available to the scientific community on the web (GenBank and Integrated Genomics servers) as soon as 6X coverage is obtained and verified. DNA samples and other assistance will be provided to potential collaborators and others in the scientific community. Monthly updates will be placed in the public databases (at GenBank and Integrated Genomics). Also, the project will be used as a backdrop for enhancement of graduate courses at Tulane University via instruction in genomics technology and bioinformatics. This is a Microbial Genome Sequencing Award funded through a collaborative activity between the National Science Foundation and the Department of Agriculture Initiative for Future Agriculture and Food Systems.