Dataset: AT39-01_FLOCS_SEM
Deployment: AT39-01

Scanning Electron Microscopy (SEM) photographs of biofilms and mineral alteration products

Principal Investigator:

Beth N. Orcutt (Bigelow Laboratory for Ocean Sciences)

Co-Principal Investigator:

Timothy D'Angelo (Bigelow Laboratory for Ocean Sciences)

BCO-DMO Data Manager:

Mathew Biddle (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Collaborative Research: Completing North Pond Borehole Experiments to Elucidate the Hydrology of Young, Slow-Spread Crust (North Pond 2017)

Current State:

Final no updates expected

Version:

Deployment Synonyms:

North Pond 2017

Version Date:

2019-02-22

Data URL:

https://www.bco-dmo.org/dataset-deployment/756162/data

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Description

A collection of SEM imagery in .tiff format are available at the following urls. The size of each package is provided in parenthesis after the url. The file name of each package corresponds to the SampleIdentification field found in the data file through the Get Data button at the top of the page.

Methods & Sampling

Dataset acquisition description

Polished mineral chips were prepared and deployed as described in Edwards et al. 2012 (DOI: 110.2204/iodp.proc.336.109.2012). Mineral colonization experiments were recovered during cruise AT39-01 in October 2017 and processed as described in Orcutt et al. 2011 (DOI: 10.1038/ismej.2010.157). Mineral chips were preserved in cold 4% paraformaldehyde in 1XPBS buffer, rinsed with 1XPBS, and then stored at -20ºC in a 1:1 mixture of 1XPBS:ethanol. Chips were serially dehydrated in the ethanol baths of increasing concentration for 10 minutes each, immersed in 100% hexodimethylsilane for 10 minutes, and air dried for 48 hours. Dehydrated chips were then mounted on SEM stubs, sputter coated with gold, and imaged on a Zeiss Supra25 field emission scanning microscope (SEM).

Data Processing Description

Dataset Processing Description

BCO-DMO Processing Notes:
- zipped all image subfolders into individual packages based on the Sample Identification text string
- modified parameter names to conform with BCO-DMO naming conventions
- added conventional header with dataset name, PI name, version date

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1536539	NSF Division of Ocean Sciences

Instruments

Scanning Electron Microscope

Supplied Name: Zeiss Supra25 field emission scanning microscope

Supplied Description:

Zeiss Supra25 field emission scanning microscope

Instrument Type

Generic Name: Scanning Electron Microscope

Acronym: SEM

Generic Description:

A scanning electron microscope (SEM) scans a focused electron beam over a surface to create an image. The electrons in the beam interact with the sample, producing various signals that can be used to obtain information about the surface topography and composition.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
SampleIdentification	Identification label of mineral colonization experiment	unitless	sample
RockType	Type of rock substrate in mineral colonization experiment	unitless	sample_descrip
DeploymentLocation	CORK borehole observatory Hole number (U1382A; U1383B; or U1383C) and horizon within the borehole observatory (wellhead; shallow; shallowEnriched)	unitless	site
File_count	number of Scanning Electron Microscopy (SEM) files for each experiment	count	count
Latitude	latitude (north) of CORK borehole observatory	decimal degrees	lat
Longtitude	longitude (east) of CORK borehole observatory	decimal degrees	lon
WaterDepth	meters of water depth to the seafloor where the CORK borehole observatory sits	meters (m)	depth
DeploymentType	location (wellhead or downhole) within the CORK borehole observatory where the experiment took place	unitless	sample_descrip
FluidDepth	average depth (in meters below seafloor) where crustal fluids are sourced for the experiment	meters (m)	depth
DeploymentDate	date of the experiment deployment	unitless	date
RecoveryDate	date of the experiment recovery	unitless	date
package_url	web url to the zip file of images for the specified sample identification value.	unitless	file_link

Database

Contribute Data

Dataset: AT39-01_FLOCS_SEM
Deployment: AT39-01

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: AT39-01_FLOCS_SEMDeployment: AT39-01

Dataset acquisition description

Dataset Processing Description

Dataset: AT39-01_FLOCS_SEM
Deployment: AT39-01