pvldcurve (version 1.2.6)

OsmoticPot: Pressure Volume Curve Analysis

Description

Determines the coordinates of the turgor loss point, osmotic potential at full hydration and apoplastic fraction

Usage

OsmoticPot(data, sample = "sample",
  water.potential = "water.potential", RWD = "RWD", graph = TRUE,
  show.legend = TRUE)

Arguments

data

data frame containing columns of equal lengths giving the numerical coordinates of the curve: water potential (bar) and RWD (%), ordered by sample by descending water potential. A column containing the sample IDs is optionally required if several samples were measured.

sample

optional column name in data containing the sample ID, default: "sample"

water.potential

optional column name in data containing the numeric water potential values (bar), default: "water.potential"

RWD

optional column name in data containing the relative water deficit values (%), default: "RWD"

graph

set FALSE if no plots are to be returned

show.legend

set FALSE if no legend is to be shown in the plots

Value

List splitted by sample consisting of

turgor.loss.point

x and y coordinates of the turgor loss point (RWD (%) and water.potential (bar), respectively)

osmotic.potential

x and y intercepts of the osmotic potential fit (apoplasic fraction (apo.fract) (%) and op.full.sat (bar), respectively)

formula

formula of the linear osmotic potential fit

coef

coefficients of the linear model

conf_int

upper (97.5 %) and lower (2.5 %) border of 95 % confidence interval of model parameters

If graph = TRUE, the plotted tranformed data is displayed with the x- and y-axis intercepts of the turgor loss point and the linear regression line of the osmotic potential showing the point of y-intercept (op.full.sat) and x-intercept (apo.fract). Before using this function, check the raw data for an initial plateau. If the exponential decline does not onset directly, fitting might not succeed.

Details

RWD at turgor loss point is derived by the function TurgorLossPoint(). The pressure-volume curve data is converted to -1/bar. The osmotic potential is then derived by fitting a linear regression line with the Gauss-Newton algorithm of nls() to the water potential data following the turgor loss point. The y- and x-axis intercept of the regression line gives the osmotic potential at full hydration (op.full.sat) and the apoplastic fraction (apo.fract), respectively. Water potential at turgor loss point equals the value of the osmotic potential fit at the relative water deficit at turgor loss point.

Examples

# NOT RUN {
# get example data, calculate Relative Water Deficit
data <- RelativeWaterDeficit(pressure_volume_data)

# calculate pressure volume curve characteristics and plot graphs
pv_analysis <- OsmoticPot(data)

# }