URLhttps://www.bco-dmo.org/dataset/780926
Download URLhttps://www.bco-dmo.org/dataset/780926/data/download
Media Typetext/tab-separated-values
CreatedNovember 5, 2019
ModifiedNovember 22, 2019
StateFinal no updates expected
Brief Description16S rRNA gene (from DNA)

Acquisition Description

Sampling of cores was done in accordance with IODP protocols.

All C0014 samples were cored on 16 September 2010 via via HPCS (hydraulic piston coring system).
All C0015 samples were cored on 18 September 2010 via HPCS.
All C0017 samples were cored on 27 September 2010 via HPCS.

Core sections were kept frozen (-80°C) until DNA extractions. A MoBio® Power Soil kit was used to extract environmental DNA. See publication below for sequencing and analysis methodologies.

Processing Description

Data Processing: Demultiplexing was performed in Mothur (v.1.30.1). 

Instruments

hydraulic piston coring system (HPCS) [Piston Corer]
Details
The piston corer is a type of bottom sediment sampling device. A long, heavy tube is plunged into the seafloor to extract samples of mud sediment. A piston corer uses a "free fall" of the coring rig to achieve a greater initial force on impact than gravity coring. A sliding piston inside the core barrel reduces inside wall friction with the sediment and helps to evacuate displaced water from the top of the corer. A piston corer is capable of extracting core samples up to 90 feet in length.

Parameters

Cruise_ID [cruise_id]
Details
Cruise_ID
Cruise ID number
cruise designation; name
IODP_Sample_Number [sample]
Details
IODP_Sample_Number
IODP sample number

unique sample identification or number; any combination of alpha numeric characters; precise definition is file dependent

Latitude [latitude]
Details
Latitude
Latitude; positive values = North

latitude, in decimal degrees, North is positive, negative denotes South; Reported in some datasets as degrees, minutes

Longitude [longitude]
Details
Longitude
Longitude; positive values = East

longitude, in decimal degrees, East is positive, negative denotes West; Reported in some datsets as degrees, minutes

Water_depth [depth_w]
Details
Water_depth
Water depth

water depth, in meters

Top_Depth [depth_bsf]
Details
Top_Depth
Top depth

depth below seafloor.  Includes mbsf (meters below seafloor) and cmbsf (centimeters below seafloor).

Bottom_Depth [depth_bsf]
Details
Bottom_Depth
Bottom depth

depth below seafloor.  Includes mbsf (meters below seafloor) and cmbsf (centimeters below seafloor).

Sediment_type [sample_descrip]
Details
Sediment_type
Sediment type
text description of sample collected
Estimated_Temp [temperature]
Details
Estimated_Temp
Estimated temperature; based on 3 degrees C/m
water temperature at measurement depth
MGRAST_Accession_ID [accession number]
Details
MGRAST_Accession_ID
MG-RAST accession ID number
Database identifier assigned by repository and linked to GenBank or other repository.
Notes [comment]
Details
Notes
Notes
free text comments, may only have meaning to submitting PI

Dataset Maintainers

NameAffiliationContact
Christopher H. HousePennsylvania State University (PSU)
Leah D. BrandtPennsylvania State University (PSU)
Shannon RauchWoods Hole Oceanographic Institution (WHOI BCO-DMO)

BCO-DMO Project Info

Project TitleAn In-Depth analysis of the subvent biosphere within Okinawa Backarc Basin (IODP 331, Iheya North Hydrothermal Field) sediments
AcronymSubvent_Biosphere_Sediments
URLhttps://www.bco-dmo.org/project/714230
CreatedSeptember 1, 2017
ModifiedNovember 5, 2019
Project Description

The Iheya North Hydrothermal Field in the Okinawa Backarc Basin represents an ideal environment in which to investigate the biotic temperature fringe of microbial life at depth because of its subsurface hydrothermal activity within its continental margin-type sediment profile. Geographically, the Okinawa Backarc Basin is situated along a continental margin, which is a sediment profile type commonly sampled and studied across the seafloor (e.g. Peru Margin, Costa Rica Margin, Cascadia Margin). The hydrothermal network within the subsurface here supplies an additional temperature obstacle to microbial life existing in the sediments. In particular, the sediment profile at Site C0014 exhibits a transition from hemipelagic ooze with pumiceous volcaniclastic sediments and low temperature (4°C) to a hydrothermally altered sequence of clays within the top ~10 mbsf of sediment. Temperature measurements indicate a gradient of approximately 3°C/m, which is roughly an order of magnitude greater than continental margin sites (e.g. Cascadia Margin, IODP 311 and Costa Rica Margin, IODP 344), but is more gradual than intense, centimeter-scale gradients from other hot, surface sediments. We have focused on the application of culture-independent, molecular methods to understand taxonomic and functional characteristics through this hydrothermal gradient. Confidence in DNA recovery suggests a microbial biosphere extent of approximately 15 mbsf (55°C).

Results from both 16S rRNA gene surveys and metagenomics analyses suggest a temperature-dependent stratigraphy of taxonomic and functional adaptations between the shallowest and deepest sample horizons. Cosmopolitan marine subsurface bacterial and archaeal taxa are present throughout the top 10 mbsf, whereas, hyperthermophilic heterotrophic as well as thermophilic anaerobic methanotrophic archaea appear in varying local abundances in deeper, hydrothermal clay horizons. "An In-Depth analysis of the subvent biosphere within Okinawa Backarc Basin (IODP 331, Iheya North Hydrothermal Field) sediments" encompasses datasets funded through C-DEBI to investigate the microbial communities in IODP 331 Iheya North Hydrothermal Field sediments. Site C0014 at this field site is 500 m away from the active vent and experiences a 3C/m temperature gradient with depth. In the research grant "Investigating the active microbial populations in near hydrothermal vent sediments" and the Research Exchange grant "Learning new RNA extraction techniques", we used an RNA-based approach to explore the active microbial community. Upon analysis, the RNA dataset does not appear to reflect the same information as the phylogenetic signals coming from both the 16S rRNA gene as well as the metagenomes. The data indicate significant background noise from the RNA extraction process rather than from an indigenous representation of the subsurface biosphere.

The graduate fellowship "An in-depth analysis of the subvent biosphere within the Okinawa backarc basin Iheya North hydrothermal field" provided an opportunity to bring together metagenomic, 16S rRNA gene amplicon (DNA), and 16S rRNA amplicon datasets from IODP 331 Iheya North Hydrothermal Field sediments to understand the biogeography of this subvent biosphere.

For more information, refer to the following C-DEBI grants/projects.
An in-depth analysis of the subvent biosphere within the Okinawa backarc basin Iheya North hydrothermal field:
https://www.darkenergybiosphere.org/award/an-in-depth-analysis-of-the-subvent-biosphere-within-the-okinawa-backarc-basin-iheya-north-hydrothermal-field/

Investigating the active microbial populations in near hydrothermal vent sediments: https://www.darkenergybiosphere.org/award/investigating-the-active-microbial-populations-in-near-hydrothermal-vent-sediments/

Learn new RNA extraction techniques: https://www.darkenergybiosphere.org/award/learn-new-rna-extraction-techniques/
 

Project Maintainers
NameAffiliationRoleContact
Christopher H. HousePennsylvania State University (PSU)Principal Investigator
Jennifer F. BiddleUniversity of DelawareCo-Principal Investigator
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