Microbiome and bacterioplankton rRNA gene sequence data collected from Gulf of Mexico seawater samples, Cruises DP01 and DP02 from May 2015 - August 2015

Seawater was collected and filtered for microbiome and bacterioplankton sequencing and analyses at various depths during two planned DEEPEND cruise expeditions to the GOM. Filters were stored and then processed for total environmental genomic DNA according to standard methods (see earthmicrobiome.org). 16S rRNA amplicon libraries covering the V4 hypervariable region was generated with universal PCR primers and then sequenced on an Illumina MiSeq DNA sequencing platform. Bioinformatics analyses in QIIME and R was used to quality filter and assess microbial community diversity and taxonomic composition. These baseline characterizations track alpha and beta diversity at different depths ranging from 0 – 1500 m, across the spatial extent of the northern GOM, and over time. Microbiome analyses also considered environmental variables unique to the GOM, including the Mississippi river inputs, mesoscale cyclonic and anticyclonic eddies, and in relation to measured environmental parameters at collection time using the CTD.

两次规划前往墨西哥湾（Gulf of Mexico, GOM）的DEEPEND科考巡航期间，研究团队于不同深度采集海水样本并过滤，用于微生物组与浮游细菌的测序及分析。过滤得到的滤膜经保存后，依照标准实验流程（详见earthmicrobiome.org）提取总环境基因组DNA。采用通用PCR引物构建覆盖V4高变区的16S rRNA扩增子文库，随后在Illumina MiSeq DNA测序平台上完成测序。借助QIIME与R语言开展生物信息学分析，对微生物群落的多样性及分类学组成进行质量过滤与评估。本基线特征研究追踪了北墨西哥湾全域范围内、0至1500米不同深度下的α多样性与β多样性，并随时间维度开展动态监测。本次微生物组分析还考量了墨西哥湾特有的环境变量，包括密西西比河径流、中尺度气旋式与反气旋式涡旋，并结合采样时刻通过温盐深仪（Conductivity, Temperature, Depth, CTD）测得的环境参数进行关联分析。