abundance: Microbial abundance time series

In ctkremer/growthTools: Tools for analyzing time series of microbial abundances to estimate growth rates

Description

A data set tracking the abundances of experimental phytoplankton populations over time. Fluorescence is used as a proxy for numerical abundance/biomass.

Usage

abundance

Format

A data frame with 46046 rows and 19 variables:

isolate.id

name of a given phytoplankton isolate

experiment.ID

unique identifier combining isolate, temperature, and dilution number

dilution

dilution number, ranging from 1-3. Populations were periodically diluted to provide new nutrients for growth

replicate

experimental replicate (4 replicates per temperature and isolate)

plate.file

name of data file produced by plate reader, containing fluorescence readings

date

date of measurement, yyyy-mm-dd format

time

time of day of measurement, hh:mm

media

growth media use for culturing populations

well

location of specific population in the 24-well plate

fluorescence

measured fluorescence of population, a standard proxy for abundance

temperature

temperature, in Celsius

dtime

time since first measure of population abundance, in hours

log.fluor

natural log of fluorescence

genus

genus of phytoplankton population

species

species epithet of phytoplankton population

group

functional group phytoplankton species belongs to

source

location where phytoplankton species were isolated, NB is Narragansett Bay

plate.temperature

temperature of well plate during fluorescence readings

id

unique identifier for single experimental phytoplankton populations

Source

Elena Litchman and Tatiana Severin, W.K. Kellogg Biological Station, Michigan State University

ctkremer/growthTools documentation built on July 27, 2021, 4:19 p.m.