The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples.
The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples.
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DOI：
10.1371/journal.pone.0001456
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发表时间：
2008-01-23
期刊：
影响因子：
3.7
通讯作者：
Venter JC
中科院分区：
文献类型：
--
作者：
Williamson SJ;Rusch DB;Yooseph S;Halpern AL;Heidelberg KB;Glass JI;Andrews-Pfannkoch C;Fadrosh D;Miller CS;Sutton G;Frazier M;Venter JC
病毒是我们星球上最丰富的生物实体。病毒与其宿主之间的相互作用影响世界海洋中的几个重要生物过程，例如水平基因转移、微生物多样性和生物地球化学循环。对魔法师 II 全球海洋远征 (GOS) 中收集的微生物宏基因组序列数据的询问揭示了高丰度的病毒序列，约占预测蛋白质总量的 3%。对病毒序列的聚类分析揭示了数百至数千个编码各种代谢和细胞功能的病毒基因。对水生样品的病毒部分进行的宿主来源病毒基因的定量分析证实了这些序列的病毒性质，并表明水生病毒群落的很大一部分充当了此类遗传物质的储存库。对这些源自宿主的病毒序列的分布和系统发育分析也表明，病毒获取宿主来源的环境相关基因的现象比以前认识的更加丰富和广泛。在微生物部分中鉴定出的主要病毒序列源自有尾噬菌体，并根据病毒家族表现出不同的全球分布。针对 27 个完整水生病毒基因组的 GOS 病毒序列片段的招募表明，只有一个参考噬菌体基因组丰度很高，并且与蓝肌病毒 P-SSM4 密切相关，但不相同。 P-SSM4 样序列与其宿主原绿球藻的主要生态型在所有采样点的共同分布支持将病毒序列分类为 P-SSM4 样，并表明该病毒可能影响寡营养海洋中超微型浮游植物最主要成分之一的丰度、分布和多样性。总之，微生物组分中病毒序列的丰富性和广泛的地理分布、编码微生物生理功能的基因在病毒序列中的普遍性及其独特的系统发育分布，有力地支持了以下观点：病毒介导的基因获取是在海洋环境中产生微生物多样性的常见且持续的机制。
Viruses are the most abundant biological entities on our planet. Interactions between viruses and their hosts impact several important biological processes in the world's oceans such as horizontal gene transfer, microbial diversity and biogeochemical cycling. Interrogation of microbial metagenomic sequence data collected as part of the Sorcerer II Global Ocean Expedition (GOS) revealed a high abundance of viral sequences, representing approximately 3% of the total predicted proteins. Cluster analyses of the viral sequences revealed hundreds to thousands of viral genes encoding various metabolic and cellular functions. Quantitative analyses of viral genes of host origin performed on the viral fraction of aquatic samples confirmed the viral nature of these sequences and suggested that significant portions of aquatic viral communities behave as reservoirs of such genetic material. Distributional and phylogenetic analyses of these host-derived viral sequences also suggested that viral acquisition of environmentally relevant genes of host origin is a more abundant and widespread phenomenon than previously appreciated. The predominant viral sequences identified within microbial fractions originated from tailed bacteriophages and exhibited varying global distributions according to viral family. Recruitment of GOS viral sequence fragments against 27 complete aquatic viral genomes revealed that only one reference bacteriophage genome was highly abundant and was closely related, but not identical, to the cyanomyovirus P-SSM4. The co-distribution across all sampling sites of P-SSM4-like sequences with the dominant ecotype of its host, Prochlorococcus supports the classification of the viral sequences as P-SSM4-like and suggests that this virus may influence the abundance, distribution and diversity of one of the most dominant components of picophytoplankton in oligotrophic oceans. In summary, the abundance and broad geographical distribution of viral sequences within microbial fractions, the prevalence of genes among viral sequences that encode microbial physiological function and their distinct phylogenetic distribution lend strong support to the notion that viral-mediated gene acquisition is a common and ongoing mechanism for generating microbial diversity in the marine environment.
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影响因子：
3.2
作者：
Mann, NH;Clokie, MRJ;Krisch, HM
通讯作者：
Krisch, HM
影响因子：
5.8
作者：
Li, KB
通讯作者：
Li, KB
影响因子：
14.9
作者：
Finn RD;Mistry J;Tate J;Coggill P;Heger A;Pollington JE;Gavin OL;Gunasekaran P;Ceric G;Forslund K;Holm L;Sonnhammer EL;Eddy SR;Bateman A
通讯作者：
Bateman A
影响因子：
56.9
作者：
DeLong, EF;Preston, CM;Karl, DM
通讯作者：
Karl, DM
影响因子：
56.9
作者：
LI, WKW;RAO, DVS;PLATT, T
通讯作者：
PLATT, T