Interaction between Alcanivorax borkumensis bacterial biofilm and naturally occurring clay minerals: implications to oil sedimentation and biodegradation

The Design of Synergistic Dispersant and Herding Systems using Tubular Clay Structures and Gel Phase Materials

DOI:
10.7266/N7QC020J
 
UDI:
R5.x288.000:0006
Last Update:
Jul 30 2018 19:50 UTC
 
Dataset Author(s):
Omarova, Marzhana, John, Vijay T.
Point of Contact:
Omarova, Marzhana
Tulane University / Department of Chemical and Biomolecular Engineering
Lindy Boggs Center for Energy and Biotechnology, Suite 300 6823 St. Charles Avenue
New Orleans, Louisiana  70118
USA
momarova@tulane.edu
Funding Source:
RFP-V
 
Extent Description:
Dataset contains laboratory experiments, no field sampling involved.

Identified Submitted In-Review Available
3 3 3 3

Suggested Citation:

Omarova, Marzhana, John, Vijay T.. 2018. Interaction between Alcanivorax borkumensis bacterial biofilm and naturally occurring clay minerals: implications to oil sedimentation and biodegradation. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7QC020J

Abstract:

All data were collected in a laboratory setting. The data includes images of droplets stabilized by clay platelets and by biofilms produced by the organism Alcanivorax borkumensis. The objective of the dataset is to provide information regarding natural oil dispersion, biodegradation and the production of marine snow. The data also provides information regarding the fate of oil droplets when surrounded by biofilm and the potential for oil sedimentation through oil-mineral aggregates. Detailed imaging data gives insight into bacterial sequestration by particles at the oil-water interface. In detail the following information is provided (a) three-phase contact angle measurements to understand wettability of clays at the oil-water interface (b) interfacial tension measurements as a function of clay adsorption (c) diameters of emulsion droplets (d) optimal images of emulsions droplets with biofilm (e) cryo-scanning electron microscopy of droplets colonized by bacteria (f) bacterial growth rate studies (g) oil sedimentation images (h) biodegradation quantification through gas chromatography.

Purpose:

To provide information regarding natural oil dispersion, biodegradation, and the production of marine snow.

Theme Keywords:

Pickering emulsion, biofilm, marine snow, clay sheets, biodegradation, Alcanivorax borkumensis, crude oil, kaolinite, cryo-SEM

File Format:

docx, tif, xlsx

Filename:

kaoliniteABdataset_revised2.zip (39.11 MB)

Dataset Downloads:

2

Interaction between Alcanivorax borkumensis bacterial biofilm and naturally occurring clay minerals: implications to oil sedimentation and biodegradation



Identification Information
Distribution Information
Metadata Maintenance Information

Metadata: 
  File identifier: 
      R5.x288.000-0006-metadata.xml
  Language: 
      eng; USA
  Character set: 
    Character set code: 
      utf8
  Hierarchy level: 
    Scope code: 
      dataset
  Metadata author: 
    Responsible party: 
      Individual name: 
          Vijay T. John
      Organisation name: 
          Tulane University / Department of Chemical and Biomolecular Engineering
      Position name: 
          Professor
      Contact info: 
        Contact: 
          Phone: 
            Telephone: 
              Voice: 
                  5048655883
              Facsimile: 
          Address: 
            Address: 
              Delivery point: 
                  Lindy Boggs Center for Energy and Biotechnology, Suite 300
                  6823 St. Charles Avenue
              City: 
                  New Orleans
              Administrative area: 
                  Louisiana
              Postal code: 
                  70118
              Country: 
                  USA
              Electronic mail address: 
                  vj@tulane.edu
      Role: 
        Role code: 
          pointOfContact
  Date stamp: 
      2021-05-04T20:04:56+00:00
  Metadata standard name: 
      ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
  Metadata standard version: 
      ISO 19115-2:2009(E)
  Dataset URI: 
      https://data.gulfresearchinitiative.org/metadata/R5.x288.000:0006
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Identification info: Data identification: Citation: Citation: Title: Interaction between Alcanivorax borkumensis bacterial biofilm and naturally occurring clay minerals: implications to oil sedimentation and biodegradation Alternate title: Particle and Biofilm stabilized Droplets Date: Date: Date: 2018-08-09 Date type: Date type code: publication Identifier: Identifier: Code: Anchor: xlink: https://dx.doi.org/10.7266/N7QC020J title: DOI doi:10.7266/N7QC020J Abstract: All data were collected in a laboratory setting. The data includes images of droplets stabilized by clay platelets and by biofilms produced by the organism Alcanivorax borkumensis. The objective of the dataset is to provide information regarding natural oil dispersion, biodegradation and the production of marine snow. The data also provides information regarding the fate of oil droplets when surrounded by biofilm and the potential for oil sedimentation through oil-mineral aggregates. Detailed imaging data gives insight into bacterial sequestration by particles at the oil-water interface. In detail the following information is provided (a) three-phase contact angle measurements to understand wettability of clays at the oil-water interface (b) interfacial tension measurements as a function of clay adsorption (c) diameters of emulsion droplets (d) optimal images of emulsions droplets with biofilm (e) cryo-scanning electron microscopy of droplets colonized by bacteria (f) bacterial growth rate studies (g) oil sedimentation images (h) biodegradation quantification through gas chromatography. Purpose: To provide information regarding natural oil dispersion, biodegradation, and the production of marine snow. Status: Progress code: completed Point of contact: Responsible party: Individual name: Marzhana Omarova Organisation name: Tulane University / Department of Chemical and Biomolecular Engineering Position name: Graduate Student Contact info: Contact: Phone: Telephone: Voice: Facsimile: Address: Address: Delivery point: Lindy Boggs Center for Energy and Biotechnology, Suite 300 6823 St. Charles Avenue City: New Orleans Administrative area: Louisiana Postal code: 70118 Country: USA Electronic mail address: momarova@tulane.edu Role: Role code: author Point of contact: Responsible party: Individual name: Vijay T. John Organisation name: Tulane University / Department of Chemical and Biomolecular Engineering Position name: Professor Contact info: Contact: Phone: Telephone: Voice: 5048655883 Facsimile: Address: Address: Delivery point: Lindy Boggs Center for Energy and Biotechnology, Suite 300 6823 St. Charles Avenue City: New Orleans Administrative area: Louisiana Postal code: 70118 Country: USA Electronic mail address: vj@tulane.edu Role: Role code: principalInvestigator Descriptive keywords: Keywords: Keyword: Pickering emulsion Keyword: biofilm Keyword: marine snow Keyword: clay sheets Keyword: biodegradation Keyword: Alcanivorax borkumensis Keyword: crude oil Keyword: kaolinite Keyword: cryo-SEM Type: Keyword type code: theme Descriptive keywords: Keywords: Keyword: inapplicable Type: Keyword type code: place Resource constraints: title: Cite As Constraints: Use limitation: Omarova, Marzhana, John, Vijay T.. 2018. Interaction between Alcanivorax borkumensis bacterial biofilm and naturally occurring clay minerals: implications to oil sedimentation and biodegradation. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7QC020J Resource constraints: title: CC0 License Legal constraints: Use constraints: Restriction code: licenceUnrestricted Other constraints: This information is released under the Creative Commons license - No Rights Reserved - CC0 1.0 Universal (https://creativecommons.org/publicdomain/zero/1.0/). The person who associated a work with this deed has dedicated the work to the public domain by waiving all of his or her rights to the work worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law. You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission. Resource constraints: title: Liability and Warranty Legal constraints: Other constraints: All materials on this website are made available to GRIIDC and in turn to you "as-is." Content may only be submitted by an individual who represents and warrants that s/he has sufficient rights to be able to make the content available under a CC0 waiver. There is no warranty (expressed or implied) to these materials, their title, accuracy, non-infringement of third party rights, or fitness for any particular purpose, including the performance or results you may obtain from their use. Use these materials at your own risk. Under no circumstances shall GRIIDC be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use or the inability to use either this website or the materials available via this website. If you are dissatisfied with any website feature, content, or terms of use, your sole and exclusive remedy is to discontinue use. Aggregation Info: AggregateInformation: Aggregate Data Set Name: title: Related Publication Citation Citation: Title: Omarova, M., Swientoniewski, L. T., Tsengam, I. K. M., Panchal, A., Yu, T., Blake, D. A., … John, V. (2018). Engineered Clays as Sustainable Oil Dispersants in the Presence of Model Hydrocarbon Degrading Bacteria: The Role of Bacterial Sequestration and Biofilm Formation. ACS Sustainable Chemistry & Engineering, 6(11), 14143–14153. doi:10.1021/acssuschemeng.8b02744 Date: inapplicable Aggregate Data Set Identifier: title: Related Publication DOI Identifier: Code: Anchor: xlink: https://dx.doi.org/10.1021/acssuschemeng.8b02744 title: DOI doi:10.1021/acssuschemeng.8b02744 Association Type: Association type code: crossReference Language: eng; USA Topic category: Topic category code: environment Extent: Extent: Description: Dataset contains laboratory experiments, no field sampling involved. Supplemental Information: dat.xlsx: Figure 1a: Angle (degrees), Free energy of particle detachment (deltaG/kT, unitless) for a sphere, Rod (aspect ratio of 5), Disk (aspect ratio of 5), Disk (aspect ratio of 10) Figure 1d: Carbon content (%), Contact angle (degrees), Interfacial tension (nM/m) Figure 2c: Kaolinite stabilized Anadarko crude oil emulsion droplet diameter (μm) for 1day, 1 week, and 4 weeks Figure 2d: Carbonized kaolinite stabilized Anadarko crude oil emulsion droplet diameter (μm) for 1 day, 1 week and 4 weeks Figure 5b: Relative fluorescence units (unitless) to indicate bacterial growth in samples 1-8, incubation time (hours), samples 1-4 contain oil and A. borkumensis, samples 5-8 contain carbonized kaolinite, oil, and A. borkumensis Figure 6c inset: Carbonized kaolinite stabilized Anadarko crude oil emulsion droplet diameter and A. borkumensis (μm) for 1 and 4 weeks Figure 9: Hexadecane remaining for the duration of 6 days of incubation (%) for the A. borkumensis and carbonized kaolinite plus A. borkumensis Figure S2a and Figure S2c: Kaolinite particle population (%) falling into a defined diameter range (μm) for kaolinite Figure S2b and Figure S2d: Particle population (%) falling into a defined diameter range (μm) for carbonized kaolinite Figure S3: Carbon content of modified kaolinite as estimated by thermogravimetric analysis, temperature (degrees C), weight remaining (%) Figure S4a: Kaolinite stabilized Anadarko crude oil emulsion droplet diameter and A. borkumensis (μm) for 1 day, 1week and 4 weeks Figure S5: Weight loss carbonized kaolinite plus biofilm and carbonized kaolinite as estimated by thermogravimetric analysis, temperature (degrees C), weight remaining (%) Figure S6: Gas chromatography data as responses (pA) generated by the elution time (min) for the abiotic control at the end of the six-day experiment and A. borkumensis containing sample at the end of the six-day experiment Tiff images: Figure 1b shows the three-phase contact angle measurements of natural kaolinite (angle 31 degrees) and Figure 1c shows carbonized kaolinite (0.46% carbon) and a contact angle of 89 degrees Figure 2a shows the emulsion droplet size distributions and optical images for Anadarko crude oil stabilized by kaolinite, and Figure 2b Anadarko crude oil droplets stabilized by carbonized kaolinite Figure 3 (a-d) show coverage of oil surface by particles using cryo-SEM images of kaolinite sheets on Anadarko crude oil Figure 4 (a-c) show the sheets attached face-on to the oil-water interface using cryo-SEM of a fractured Anadarko crude oil droplet Figure 5a shows the rod-shaped cells with a thick cell membrane and polyphosphate granule in a cryo-TEM of A. borkumensis Figure 6a shows the ** carbonized kaolinite stabilized emulsion droplets covered with A. borkumensis biofilm Figure 6b shows the emulsion droplets connected due to bridging by the biofilm Figure 6c shows the Anadarko crude oil droplets stabilized by carbonized kaolinite with A. borkumensis over four weeks Figures 7 (a-f) show cryo-SEM images of carbonized kaolinite droplets colonized by A. borkumensis Figure 8a-1-3 shows photos of vials showing a precipitate formed of excess particles bridged by biofilm during the carbonized kaolinite and A. borkumensis biofilm-induced precipitation Figure 8b and 8c show optical micrographs of a large dense aggregate of particles and biofilm and small droplets trapped in the biofilm-clay aggregate Figure 8d shows cryo-SEM images to demonstrate exopolymer fibers attached to particles Figure S1a shows an SEM image of dispersed kaolinite and Figure S1b carbonized kaolinite Figure S1b-inset shows a high magnification cryo-SEM of a single kaolinite particle to illustrate its plate-like shape Figure S4b shows an optical micrograph of native kaolinite and A. borkumensis biofilm stabilized Anadarko crude oil|||||
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Distribution info: Distribution: Distributor: Distributor: Distributor contact: Responsible party: Organisation name: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC) Contact info: Contact: Phone: Telephone: Voice: 3618253604 Address: Address: Delivery point: 6300 Ocean Drive City: Corpus Christi Administrative area: TX Postal code: 78412 Country: USA Electronic mail address: griidc@gomri.org Online Resource: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org Role: Role code: distributor Distributor format: Format: Name: docx, tif, xlsx Version: inapplicable File decompression technique: zip Distributor transfer options: Digital transfer options: Transfer size: 39.1102 Online: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org/data/R5.x288.000:0006 Protocol: https Name: Data Landing Page Description: GRIIDC dataset landing page Function: Online function code: information
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Metadata maintenance: Maintenance information: Maintenance and update frequency: unknown Maintenance note: This ISO metadata record was automatically generated from information provided to GRIIDC for dataset: R5.x288.000:0006 on 2021-10-20T11:27:25-05:00
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