Dataset: Cell Counts CNS
Deployment: AT18-08

Microbial cell abundance and carbon, nitrogen, and sulfur content from venting fluids and microbial mats at Axial Seamount, 2011.

Principal Investigator:

Julie Huber (Marine Biological Laboratory, MBL)

BCO-DMO Data Manager:

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

Project:

Function, activity, and adaptation of microbial communities in geochemically diverse subseafloor habitats (AXIAL)

Current State:

Final no updates expected

Version:

21 Jan 2016

Deployment Synonyms:

NeMO 2011

Version Date:

2016-01-21

Data URL:

https://osprey.bco-dmo.org/dataset-deployment/636102/data

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Description

Microbial cell abundance and carbon, nitrogen, and sulfur content from venting fluids and microbial mats at Axial Seamount, 2011. Samples collected on cruise AT18-08.

Methods & Sampling

Dataset acquisition description

Diffuse fluids were collected from newly discovered snowblower vents at Axial Seamount in late July 2011 with the ROV Jason II using the hydrothermal fluid and particle sampler (Butterfield et al., 2004). White and orange flocculent materials were collected on the subsequent University of Washington Visions' 11 cruise, in support of the Regional Scale Nodes component of the Ocean Observatories Initiative in August 2011. White flocculent material was collected from the orifice of the Subway snowblower vent on dives R1467 (White Floc 1) and R1472 (White Floc 2) and orange flocculent material was collected on the seafloor distal to Marker 33 during dive R1472 where it coated freshly deposited basalt. All of the fluid and floc samples analyzed in this study are from a small area in the south rift zone at the southeastern edge of Axial Caldera, with the exception of background seawater which was collected outside of the caldera.

Subsamples of flocculent material were viewed under phase contrast, fixed and stained with DAPI for cell counting via epiflourescent microscopy, or fixed for scanning electron microscopy (SEM) with elemental detection system (EDS) on a Zeiss Supra 40VP. White and orange flocs were fixed with 2.5% glutaldehyde for both cell counts and SEM. Preserved whole fluids were also stained with DAPI for cell counts.

Bulk carbon and nitrogen were measured using a Thermo Scientific CN Analyzer (Model Flash 2000) from subsamples of flocculent material dried at 50–60 degrees C for 2 days. A standard curve for bulk carbon and nitrogen was made using aspartic acid as a standard and acetanilide and apple leaf as standard curve checks. Bulk sulfur was measured using a LECO S632 Sulfur Analyzer from subsamples of flocculent material dried in a dessicator for 4 days and supplemented with sterile sea sand (Fisher) to meet minimum volume requirements. A standard curve for bulk sulfur was made using coal with known sulfur content provided by LECO.

Related references:
Meyer, J.L., Akerman, N.H., Proskurowski, G. and J.A. Huber. 2013. Microbiological characterization of post-eruption "snowblower" vents at Axial Seamount, Juan de Fuca Ridge. Frontiers in Microbiology. 4:153. doi:10.3389/fmicb.2013.00153

Data Processing Description

Dataset Processing Description

Two subsamples were analyzed for each floc sample and replicate readings were averaged for all bulk C, N, and S measurements. ± 95% confidence levels for total cell counts are reported.

BCO-DMO Processing:
- modified parameter names to conform with BCO-DMO naming conventions;
- replaced "no data" with "nd";
- removed "m" (meters) in depth column;
- changed format of date to YYYYmmdd;
- replaced commas with semi-colons;
- Added cruise_id field.

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0929167	NSF Division of Ocean Sciences

Instruments

Electron Microscope

Supplied Name: Zeiss Supra 40VP

Supplied Description:

Instrument Type

Generic Name: Electron Microscope

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB07/

Generic Description:

Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of electrons behaving as waves.

Elemental Analyzer

Supplied Name: Thermo Scientific CN Analyzer

Supplied Description:

Bulk carbon and nitrogen were measured using a Thermo Scientific CN Analyzer (Model Flash 2000).

Instrument Type

Generic Name: Elemental Analyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB01/

Generic Description:

Instruments that quantify carbon, nitrogen and sometimes other elements by combusting the sample at very high temperature and assaying the resulting gaseous oxides. Usually used for samples including organic material.

Elemental Analyzer

Supplied Name: LECO S632 Sulfur Analyzer

Supplied Description:

Bulk sulfur was measured using a LECO S632 Sulfur Analyzer.

Instrument Type

Generic Name: Elemental Analyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB01/

Generic Description:

ROV Jason

Supplied Name: ROV Jason II

Supplied Description:

Instrument Type

Generic Name: ROV Jason

Generic Description:

The Remotely Operated Vehicle (ROV) Jason is operated by the Deep Submergence Laboratory (DSL) at Woods Hole Oceanographic Institution (WHOI). WHOI engineers and scientists designed and built the ROV Jason to give scientists access to the seafloor that didn't require them leaving the deck of the ship. Jason is a two-body ROV system. A 10-kilometer (6-mile) fiber-optic cable delivers electrical power and commands from the ship through Medea and down to Jason, which then returns data and live video imagery. Medea serves as a shock absorber, buffering Jason from the movements of the ship, while providing lighting and a bird’s eye view of the ROV during seafloor operations. During each dive (deployment of the ROV), Jason pilots and scientists work from a control room on the ship to monitor Jason’s instruments and video while maneuvering the vehicle and optionally performing a variety of sampling activities. Jason is equipped with sonar imagers, water samplers, video and still cameras, and lighting gear. Jason’s manipulator arms collect samples of rock, sediment, or marine life and place them in the vehicle’s basket or on "elevator" platforms that float heavier loads to the surface. More information is available from the operator site at URL. https://ndsf.whoi.edu/jason/

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
cruise_id	Crusie identifier.	dimensionless	cruise_id
geo_loc_name	Geographic location name.	dimensionless	no_bcodmo_term
env_feature	Environmental feature.	dimensionless	no_bcodmo_term
env_biome	Biome.	dimensionless	no_bcodmo_term
organism	Organism.	dimensionless	no_bcodmo_term
sample_name	Sample name.	dimensionless	no_bcodmo_term
lat	Latitude of sample collection.	decimal degrees	lat
lon	Longitude of sample collection.	decimal degrees	lon
collection_date	Year, month, and day of sample collection.	YYYYmmdd	no_bcodmo_term
depth	Depth of sample collection.	meters (m)	depth
vent_name	Vent name.	dimensionless	no_bcodmo_term
sample_title	Sample title.	dimensionless	no_bcodmo_term
env_material	Material.	dimensionless	no_bcodmo_term
cell_count	Cell count: Cells per gram of wet floc or cells per milliliter of fluid.	cells/g or cells/mL	no_bcodmo_term
conf_level_95pcnt	95% confidence level for cell_count.	cells/g or cells/mL	no_bcodmo_term
pcnt_C	Percent Carbon.	percentage (%)	no_bcodmo_term
pcnt_N	Percent Nitrogen.	percentage (%)	no_bcodmo_term
pcnt_S	Percent Sulfur.	percentage (%)	no_bcodmo_term

Database

Contribute Data

Dataset: Cell Counts CNS
Deployment: AT18-08

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Cell Counts CNSDeployment: AT18-08

Dataset acquisition description

Dataset Processing Description

Dataset: Cell Counts CNS
Deployment: AT18-08