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The Ocean barcode atlas: A web service to explore the biodiversity and biogeography of marine organisms
Molecular Ecology Resources ( IF 5.5 ) Pub Date : 2021-01-12 , DOI: 10.1111/1755-0998.13322
Caroline Vernette 1, 2 , Nicolas Henry 2, 3 , Julien Lecubin 4 , Colomban de Vargas 2, 3 , Pascal Hingamp 1, 2 , Magali Lescot 1, 2
Affiliation  

The Ocean Barcode Atlas (OBA) is a user friendly web service designed for biologists who wish to explore the biodiversity and biogeography of marine organisms locked in otherwise difficult to mine planetary scale DNA metabarcode data sets. Using just a web browser, a comprehensive picture of the diversity of a taxon or a barcode sequence is visualized graphically on world maps and interactive charts. Interactive results panels allow dynamic threshold adjustments and the display of diversity results in their environmental context measured at the time of sampling (temperature, oxygen, latitude, etc). Ecological analyses such as alpha and beta‐diversity plots are produced via publication quality vector graphics representations. Currently, the Ocean Barcode Altas is deployed online with the (i) Tara Oceans eukaryotic 18S‐V9 rDNA metabarcodes; (ii) Tara Oceans 16S/18S rRNA miTags; and (iii) 16S‐V4 V5 metabarcodes collected during the Malaspina‐2010 expedition. Additional prokaryotic or eukaryotic plankton barcode data sets will be added upon availability, given they provide the required complement of barcodes (including raw reads to compute barcode abundance) associated with their contextual environmental variables. Ocean Barcode Atlas is a freely‐available web service at: http://oba.mio.osupytheas.fr/ocean‐atlas/.

中文翻译:

海洋条形码图集:探索海洋生物的生物多样性和生物地理学的网络服务

海洋条码图集 (OBA) 是一种用户友好的网络服务,专为希望探索海洋生物的生物多样性和生物地理学的生物学家而设计,这些海洋生物被锁定在难以挖掘的行星尺度 DNA 元条形码数据集中。只需使用 Web 浏览器,即可在世界地图和交互式图表上以图形方式显示分类群多样性或条形码序列的综合图片。交互式结果面板允许动态阈值调整和在采样时测量的环境上下文中显示多样性结果(温度、氧气、纬度等)。alpha 和 beta 多样性图等生态分析是通过出版物质量矢量图形表示产生的。目前,Ocean Barcode Altas 与 (i) Tara一起在线部署海洋真核 18S-V9 rDNA 元条形码;(ii) Tara Oceans 16S/18S rRNA mi标签;(iii) 在 Malaspina-2010 探险期间收集的 16S-V4 V5 元条形码。额外的原核或真核浮游生物条码数据集将在可用时添加,因为它们提供了与其上下文环境变量相关的条码所需的补充(包括计算条码丰度的原始读取)。Ocean Barcode Atlas 是一项免费提供的网络服务:http://oba.mio.osupytheas.fr/ocean-atlas/。
更新日期:2021-01-12
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