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JanthinoViol

Sub-Project of: Dimensions: Collaborative Research: Microbial seed banks: processes and patterns of dormancy-driven biodiversity

This repository contains open-source code, data, & text files for an REU project related to a National Science Foundation Dimensions of Biodiversity grant (#1442246) awarded to Dr.'s Jay Lennon and Ken Locey of Indiana University (Bloomington) and to Dr. Stuart Jones of the University of Notre Dame (#...).

For information regarding the main project, please visit:

  1. NSF: http://www.nsf.gov/awardsearch/showAward?AWD_ID=1442246&HistoricalAwards=false
  2. Dimensions Repo: https://github.com/LennonLab/Dimensions

Scripts

ScriptsWRS

data

####StarvationViolacein_OneDay_07212015_WJB.csv ####StarvationViolacein_TenDay_07212015_WJB.csv

#####Headings:

  • Day = count of days since the beginning of the experiment
  • P = purple phenotype.
  • W = white phenotype.

####QSViolacein_07212015_WJB.csv

#####Headings:

  • WNP = white phenotype with no purple supernatant added.
  • WOP = white phenotype with purple supernatant added.

####Competition_07212015_WJB.csv

#####Headings:

  • PB = purple CFU count before the competition assay.
  • WB = white CFU count before the competition assay.
  • PA = purple CFU count after the competition assay.
  • WA = white CFU count after the competition assay.

####Predation_07212015_WJB.csv

#####Headings:

  • PA = purple CFU count after the predation assay.
  • WA = white CFU count after the predation assay.

####Predation_07222015_WJB.csv

#####Headings:

  • PPTT = colony count of purple with the predation assay that contained only purple Janthino. This was a control.
  • PWTT = colony count of white with the predation assay that contained only purple Janthino. This was a control.
  • WPTT = colony count of purple with the predation assay that contained only white Janthino. This was a control.
  • WWTT = colony count of white with the predation assay that contained only white Janthino. This was a control.
  • PWP = colony count of purple in the mixed predation assay.
  • PWW = colony count of white in the mixed predation assay.

####Predation_07232015_WJB.csv

######Headings:

  • PTT = ratio of purple to the total in the purple-only control.
  • PW = ratio of purple to the total in the mixed, experimental cultures.
  • WTT = ratio of purple to the total in the white-only control.

####MediaViolacein_07222015_WJB.csv

#####Headings:

  • PLB = purple in LB.
  • WLB = white in LB.
  • PLBW = purple in LB with tryptophan added.
  • WLBW = white in LB with tryptophan added.
  • PLBY = purple in LB with glycerol added.
  • WLBY = white in LB with glycerol added.
  • PLBYW = purple in LB with both glycerol and tryptophan added.
  • WLBYW = white in LB with both glycerol and tryptophan added.

Contributors

Jared Brewer: REU Research, Undergraduate, Department of Biology, Transylvania University.

Will Shoemaker: Ph.D. student in the Lennon Lab

Dr. Jay Lennon: Principle Investigator, Associate Professor, Department of Biology, Indiana University, Bloomington. Head of the Lennon Lab.

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