Dataset: Reconstructed genomes from North Pond, western flank of the Mid-Atlantic Ridge, from 2012-2014

Final no updates expectedDOI: 10.1575/1912/bco-dmo.782058.1Version 1 (2019-12-02)Dataset Type:Other Field Results

Principal Investigator: Julie Huber (Marine Biological Laboratory)

Co-Principal Investigator: Peter Girguis (Harvard University)

Co-Principal Investigator: Brian Glazer (University of Hawaiʻi at Mānoa)

BCO-DMO Data Manager: Mathew Biddle (Woods Hole Oceanographic Institution)


Program: Center for Dark Energy Biosphere Investigations (C-DEBI)

Program: International Ocean Discovery Program (IODP)

Project: Collaborative Research: Characterization of Microbial Transformations in Basement Fluids, from Genes to Geochemical Cycling (North Pond Microbes)


Abstract

Reconstructed genomes from North Pond

Crustal fluids were collected from the single horizon at U1382A and from the shallow, middle and deep horizons in U1383C (Edwards et al., 2012) using a mobile pumping system designed for microbial sampling from CORK fluid delivery lines as described in Meyer et al. (2016) and Cowen et al. (2012). Deployed with the ROV system, mobile pumping system connectors are attached to the CORK wellhead via an umbilical to the hydrological zone of interest within the aquifer.  In 2012, 12 l of each fluid sample were filtered on to a 0.22 μm Sterivex-GP filter (Merck Millipore, Billerica, MA, USA) as described in Meyer et al. (2016). In 2014, 12 l of each sample was filtered in situ and immediately fixed with RNALater (Thermo Fisher Scientific, Waltham, MA, USA), as described previously (Akerman et al., 2013). After sampling in 2012, a battery-powered GeoMICROBE sled was left at each CORK for time series autonomous sampling of the fluid delivery lines (Cowen et al., 2012). For each filter sample, ~10 l of fluid were filtered in situ and immediately fixed with RNALater.  Sleds were deployed in April 2012 and recovered in April 2014 with samples collected. Upon sled recovery, filters were transferred to fresh RNALater and stored at −80 °C, while all bag samples were stored at 4 °C (Cowen et al., 2012). Deep bottom water was sampled in 2012 and 2014 via a CTD at 100 m above the seafloor and filtered in the same manner as the crustal fluids onto Sterivex filters. Total microbial biomass in fluids was enumerated with DAPI (4′,6′-diamidino-2-phenylindole; Sigma-Aldrich, St Louis, MO, USA) and epifluorescent microscopy (Porter and Feig, 1980). 


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General

Tully, B. J., Wheat, C. G., Glazer, B. T., & Huber, J. A. (2017). A dynamic microbial community with high functional redundancy inhabits the cold, oxic subseafloor aquifer. The ISME Journal, 12(1), 1–16. doi:10.1038/ismej.2017.187
Methods

Akerman, N. H., Butterfield, D. A., & Huber, J. A. (2013). Phylogenetic diversity and functional gene patterns of sulfur-oxidizing subseafloor Epsilonproteobacteria in diffuse hydrothermal vent fluids. Frontiers in Microbiology, 4. doi:10.3389/fmicb.2013.00185
Methods

Cowen, J. P., Copson, D. A., Jolly, J., Hsieh, C.-C., Lin, H.-T., Glazer, B. T., & Wheat, C. G. (2012). Advanced instrument system for real-time and time-series microbial geochemical sampling of the deep (basaltic) crustal biosphere. Deep Sea Research Part I: Oceanographic Research Papers, 61, 43–56. doi:10.1016/j.dsr.2011.11.004
Methods

Edwards, K. J., Wheat, C. G., Orcutt, B. N., Hulme, S., Becker, K., Jannasch, H., … Klaus, A. (2012). Design and deployment of borehole observatories and experiments during IODP Expedition 336, Mid-Atlantic Ridge flank at North Pond. Proceedings of the IODP. doi:10.2204/iodp.proc.336.109.2012
Methods

Huang, Y., Gilna, P., & Li, W. (2009). Identification of ribosomal RNA genes in metagenomic fragments. Bioinformatics, 25(10), 1338–1340. doi:10.1093/bioinformatics/btp161