Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.
Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.
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DOI：
10.1038/sdata.2017.93
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发表时间：
2017-08-01
期刊：
影响因子：
9.8
通讯作者：
Wincker P
中科院分区：
文献类型：
--
作者：
Alberti A;Poulain J;Engelen S;Labadie K;Romac S;Ferrera I;Albini G;Aury JM;Belser C;Bertrand A;Cruaud C;Da Silva C;Dossat C;Gavory F;Gas S;Guy J;Haquelle M;Jacoby E;Jaillon O;Lemainque A;Pelletier E;Samson G;Wessner M;Genoscope Technical Team;Acinas SG;Royo-Llonch M;Cornejo-Castillo FM;Logares R;Fernández-Gómez B;Bowler C;Cochrane G;Amid C;Hoopen PT;De Vargas C;Grimsley N;Desgranges E;Kandels-Lewis S;Ogata H;Poulton N;Sieracki ME;Stepanauskas R;Sullivan MB;Brum JR;Duhaime MB;Poulos BT;Hurwitz BL;Tara Oceans Consortium Coordinators;Pesant S;Karsenti E;Wincker P
塔拉海洋探险队收集了独特的海洋样本(2009-2013年)，目标是从病毒到后生动物等各种浮游生物，并提供了丰富的环境背景测量。由于基因组学领域的最新进展，对这一庞大的样本集合进行了广泛的测序，以进行深入的基因组分析。人们选择了一种基于不同方法的策略，如元生物编码、元基因组学、单细胞基因组学和元转录组学，用于分析不同大小的浮游生物群落。在这里，我们提供了适用于基因组数据生成的详细程序，从核酸提取到序列生成，并描述了可在欧洲核苷酸档案馆(ENA，www.ebi.ac.uk/ena)获得的基因组数据集的注册。将这些元数据与用于生成这些元数据的实验程序相关联，将有助于科学界获取这些数据并促进它们的分析。这份文件是对塔拉海洋项目产生的实验和开放科学资源的全面描述的补充，进一步扩大了它们对世界浮游生态系统研究的价值。
A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009–2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the European Nucleotide Archive (ENA, www.ebi.ac.uk/ena). The association of these metadata to the experimental procedures applied for their generation will help the scientific community to access these data and facilitate their analysis. This paper complements other efforts to provide a full description of experiments and open science resources generated from the Tara Oceans project, further extending their value for the study of the world’s planktonic ecosystems.
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影响因子：
46.9
作者：
Knight R;Jansson J;Field D;Fierer N;Desai N;Fuhrman JA;Hugenholtz P;van der Lelie D;Meyer F;Stevens R;Bailey MJ;Gordon JI;Kowalchuk GA;Gilbert JA
通讯作者：
Gilbert JA
影响因子：
56.9
作者：
Lima-Mendez, Gipsi;Faust, Karoline;Wincker, Patrick
通讯作者：
Wincker, Patrick
影响因子：
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作者：
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通讯作者：
Grimsley, Nigel
影响因子：
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作者：
Guidi L;Chaffron S;Bittner L;Eveillard D;Larhlimi A;Roux S;Darzi Y;Audic S;Berline L;Brum J;Coelho LP;Espinoza JCI;Malviya S;Sunagawa S;Dimier C;Kandels-Lewis S;Picheral M;Poulain J;Searson S;Tara Oceans coordinators;Stemmann L;Not F;Hingamp P;Speich S;Follows M;Karp-Boss L;Boss E;Ogata H;Pesant S;Weissenbach J;Wincker P;Acinas SG;Bork P;de Vargas C;Iudicone D;Sullivan MB;Raes J;Karsenti E;Bowler C;Gorsky G
通讯作者：
Gorsky G
影响因子：
11
作者：
Brum, Jennifer R.;Schenck, Ryan O.;Sullivan, Matthew B.
通讯作者：
Sullivan, Matthew B.