A compendium of multi-omic sequence information from the Saanich Inlet water column

Alyse K Hawley,Mónica Torres-Beltrán,Elena Zaikova,Sam Kheirandish,Esther A Gies,Olena O Shevchuk ,Larysa Pakhomova,Tijana Glavina Del Rio,Heather M Brewer,David A Walsh,Diane Fairley,Melanie Scofield,A Mueller ,Ljiljana Paša‐Tolić ,Susannah G Tringe ,Curtis A Suttle,Angela D Norbeck,Stephanie Malfatti ,Chris Payne,Maya P Bhatia ,Steven J Hallam

doi:10.1038/sdata.2017.160

Abstract

Marine oxygen minimum zones (OMZs) are widespread regions of the ocean that are currently expanding due to global warming. While inhospitable to most metazoans, OMZs are hotspots for microbial mediated biogeochemical cycling of carbon, nitrogen and sulphur, contributing disproportionately to marine nitrogen loss and climate active trace gas production. Our current understanding of microbial community responses to OMZ expansion is limited by a lack of time-resolved data sets linking multi-omic sequence information (DNA, RNA, protein) to geochemical parameters and process rates. Here, we present six years of time-resolved multi-omic observations in Saanich Inlet, a seasonally anoxic fjord on the coast of Vancouver Island, British Columbia, Canada that undergoes recurring changes in water column oxygenation status. This compendium provides a unique multi-omic framework for studying microbial community responses to ocean deoxygenation along defined geochemical gradients in OMZ waters.

Highlights

Background & SummaryMarine oxygen minimum zones (OMZs), areas of low dissolved oxygen (O2) in subsurface waters, result from a combination of microbial respiration of organic matter raining down from surface waters and increased water column stratification[1,2,3]
As O2 becomes limiting, microbial communities shift their energy metabolism to use alternative terminal electron receptors in a thermodynamically defined order resulting in increased nitrogen loss and the production of climate active trace gases including nitrous oxide (N2O) and methane (CH4)[4,5,6,7,8,9]
Tag sequencing uses primers to amplify specific target genes and subsequently sequence them on high-throughput platforms, generating molecular barcodes that can be used to study microbial community structure and function depending on the marker

Summary

Introduction

Background & SummaryMarine oxygen minimum zones (OMZs), areas of low dissolved oxygen (O2) in subsurface waters, result from a combination of microbial respiration of organic matter raining down from surface waters and increased water column stratification[1,2,3]. We present a compendium of multi-omic sequence information from the Saanich Inlet water column (Fig. 1) encompassing 412 SSU rRNA pyrotag (V6-V8 region) samples (Data Citation 1), 82 SSU 8. Samples for large volume (LV) SSU rRNA gene tags, metagenomics, metatranscriptomics, and metaproteomics were taken from six major depths spanning the oxycline (10, 100, 120, 135, 150, and 200 m).

Results

Conclusion