Exploring the mycobacteriophage metaproteome: phage genomics as an educational platform.
Exploring the mycobacteriophage metaproteome: phage genomics as an educational platform.
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DOI：
10.1371/journal.pgen.0020092
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发表时间：
2006-06
期刊：
影响因子：
4.5
通讯作者：
Hendrix RW
中科院分区：
文献类型：
--
作者：
Hatfull GF;Pedulla ML;Jacobs-Sera D;Cichon PM;Foley A;Ford ME;Gonda RM;Houtz JM;Hryckowian AJ;Kelchner VA;Namburi S;Pajcini KV;Popovich MG;Schleicher DT;Simanek BZ;Smith AL;Zdanowicz GM;Kumar V;Peebles CL;Jacobs WR Jr;Lawrence JG;Hendrix RW
噬菌体是生物圈中最丰富的生命形式，其基因组具有高度的遗传多样性和嵌合结构。30个分枝杆菌噬菌体基因组的完整序列显示它们共同编码101个tRNA、3个tmRNAs和3，357个蛋白质，属于1，536个相关序列的“phamilies”，统计分析预测这些代表分枝杆菌噬菌体种群中phamilies总数的约50%。这些phamilies平均含有2.19种蛋白质;其中一半以上（774种）只含有一个单一的蛋白质序列。只有六个phamilies有代表性的一半以上的30个基因组，只有三个编码磁带测量蛋白，溶素，和小尾蛋白存在于所有30个基因组，虽然这些phamilies本身是高度模块化的，这样没有一个氨基酸序列元素是存在于所有30个分枝杆菌噬菌体基因组。在1,536个噬菌体中，只有230个（15%）与以前报道的蛋白质具有氨基酸序列相似性，反映了整个噬菌体群体的巨大遗传多样性。噬菌体分离的丰富性和多样性，噬菌体分离的简单性，以及噬菌体基因组的相对较小的尺寸支持噬菌体分离和比较基因组分析作为一个非常适合的平台，以发现为基础的教育。噬菌体是感染细菌宿主的病毒，估计是生物圈中数量最多的生物实体。通过比较基因组分析，可以深入了解噬菌体群体的遗传多样性及其进化机制。对30种完整的分枝杆菌噬菌体（感染分枝杆菌宿主的病毒）的基因组分析显示，它们具有遗传多样性，并含有许多以前未鉴定的基因。这些病毒的高度多样性和相对较小的基因组大小为将高中生和本科生引入研究实验室、分离和命名新病毒以及确定其基因组序列提供了理想的平台。发现新病毒和以前未识别的基因的兴奋，加上个人噬菌体项目的所有权，为学生从事和追求科学研究提供了强大的动力。
Bacteriophages are the most abundant forms of life in the biosphere and carry genomes characterized by high genetic diversity and mosaic architectures. The complete sequences of 30 mycobacteriophage genomes show them collectively to encode 101 tRNAs, three tmRNAs, and 3,357 proteins belonging to 1,536 “phamilies” of related sequences, and a statistical analysis predicts that these represent approximately 50% of the total number of phamilies in the mycobacteriophage population. These phamilies contain 2.19 proteins on average; more than half (774) of them contain just a single protein sequence. Only six phamilies have representatives in more than half of the 30 genomes, and only three—encoding tape-measure proteins, lysins, and minor tail proteins—are present in all 30 phages, although these phamilies are themselves highly modular, such that no single amino acid sequence element is present in all 30 mycobacteriophage genomes. Of the 1,536 phamilies, only 230 (15%) have amino acid sequence similarity to previously reported proteins, reflecting the enormous genetic diversity of the entire phage population. The abundance and diversity of phages, the simplicity of phage isolation, and the relatively small size of phage genomes support bacteriophage isolation and comparative genomic analysis as a highly suitable platform for discovery-based education. Bacteriophages are viruses that infect bacterial hosts and are estimated to be the most numerous biological entities in the biosphere. Insights into the genetic diversity of the bacteriophage population and the evolutionary mechanisms that give rise to it can be obtained using comparative genomic analyses. The genomic analysis of 30 complete mycobacteriophages—viruses that infect mycobacterial hosts—reveals them to be genetically diverse and to contain many previously unidentified genes. The high diversity and relatively small genome sizes of these phages provide an ideal platform for introducing high school and undergraduate students to the research laboratory, isolating and naming novel viruses, and determining their genomic sequences. The thrill of discovering new viruses and previously unidentified genes, coupled with ownership of individual phage projects, provides strong motivations for students to engage in and pursue scientific research.
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影响因子：
9.2
作者：
Hendrix, RW
通讯作者：
Hendrix, RW
DOI：
10.1073/pnas.96.5.2192
发表时间：
1999-03-02
影响因子：
11.1
作者：
Hendrix, RW;Smith, MCM;Hatfull, GF
通讯作者：
Hatfull, GF
影响因子：
3.2
作者：
Breitbart, M;Hewson, I;Rohwer, F
通讯作者：
Rohwer, F
DOI：
10.1073/pnas.202488399
发表时间：
2002-10-29
影响因子：
11.1
作者：
Breitbart, M;Salamon, P;Rohwer, F
通讯作者：
Rohwer, F
影响因子：
1.6
作者：
Cann, AJ;Fandrich, SE;Heaphy, S
通讯作者：
Heaphy, S