Dataset: 16S rRNA gene from DNA

Name: 16S rRNA gene (from DNA) from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010
Published: 2019-11-05
Keywords: oceans

Cite This Dataset

DOI:10.1575/1912/bco-dmo.780926.1

Spatial Extent: N:27.794444 E:126.900833 S:27.790278 W:126.891667

Temporal Extent: 2010-09-16 - 2010-09-27

Project:

An In-Depth analysis of the subvent biosphere within Okinawa Backarc Basin (IODP 331, Iheya North Hydrothermal Field) sediments (Subvent_Biosphere_Sediments)

Program:

Center for Dark Energy Biosphere Investigations (C-DEBI)

International Ocean Discovery Program (IODP)

Principal Investigator:

Christopher House (Pennsylvania State University, PSU)

Scientist:

Leah Brandt (Pennsylvania State University, PSU)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2019-11-05

Restricted:

Validated:

Yes

Current State:

Final no updates expected

16S rRNA gene (from DNA) from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010

Abstract:

The purpose of this dataset was to investigate taxonomic changes via the 16S rRNA gene from extractable DNA across 45 meters of recovered core. The temperature gradient in this section of the dynamic Iheya North Hydrothermal system was estimated to be ~3C/m. The interval transitions sharply from low-temperature marine mud to hydrothermally altered clay.

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2019-11-05	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.1575/1912/bco-dmo.780926.1	2019-11-22

Description

Next-generation sequencing data across a hydrothermal gradient; Okinawa Backarc Basin IODP 331 – subvent biosphere. The purpose of this dataset was to investigate taxonomic changes via the 16S rRNA gene from extractable DNA across 45 meters of recovered core. The temperature gradient in this section of the dynamic Iheya North Hydrothermal system was estimated to be ~3C/m. The interval transitions sharply from low-temperature marine mud to hydrothermally altered clay.

Methods & Sampling

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.

Data Processing Description

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

Data Files

File
16S_rRNA_gene_from_DNA.csv (Comma Separated Values (.csv), 4.30 KB) MD5:0639878287326d56dfcb25833b9236bb Primary data file for dataset ID 780926

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-0939564

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
Chikyu-331	IODP-331	2010-09-01	Chikyu	Michael Mottl (Co-Chief Scientist) Ken Takai (Co-Chief Scientist)	data info

Instruments

Piston Corer

Supplied Name: hydraulic piston coring system (HPCS)

Supplied Description:

Instrument Type

Generic Name: Piston Corer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/51/

Generic Description:

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

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
Cruise_ID	Cruise ID number	unitless	cruise_id
IODP_Sample_Number	IODP sample number	unitless	sample
Latitude	Latitude; positive values = North	decimal degrees	lat
Longitude	Longitude; positive values = East	decimal degrees	lon
Water_depth	Water depth	meters	depth_w
Top_Depth	Top depth	meters below seafloor	depth_bsf
Bottom_Depth	Bottom depth	meters below seafloor	depth_bsf
Sediment_type	Sediment type	unitless	sample_descrip
Estimated_Temp	Estimated temperature; based on 3 degrees C/m	degrees Celsius	temp
MGRAST_Accession_ID	MG-RAST accession ID number	unitless	accession_number
Notes	Notes	unitless	comment