Dataset: AT39-01_FLOCS_SEM

Name: Scanning Electron Microscopy (SEM) photographs of biofilms and mineral alteration products from R/V Atlantis AT39-01 in the North Pond CORK Sites U1382A, U1383C from 2011-2017
Published: 2019-02-22
Keywords: oceans

Cite This Dataset

Spatial Extent: N:22.80221333 E:-46.05277 S:22.755885 W:-46.08151833

Temporal Extent: 2011-10-12 - 2017-10-22

Project:

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

Program:

Center for Dark Energy Biosphere Investigations (C-DEBI)

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)

Version:

Version Date:

2019-02-22

Restricted:

Validated:

Current State:

Final no updates expected

Scanning Electron Microscopy (SEM) photographs of biofilms and mineral alteration products from R/V Atlantis AT39-01 in the North Pond CORK Sites U1382A, U1383C from 2011-2017

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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

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

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

Data Files

File
log.csv (Comma Separated Values (.csv), 6.08 KB) MD5:86db6d8bd1e0a965259902226add6b97 Primary data file for dataset ID 756152

More Information about this dataset

Funding Sources

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

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
AT39-01	North Pond 2017	2017-10-02	R/V Atlantis	C. Geoffrey Wheat (Chief Scientist)	data info

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

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

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

Status message

Database

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Dataset: AT39-01_FLOCS_SEM