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\begin{document}

\title{The importance of species-specific and temperature-sensitive
parameterisation of A / C i models: a case study using cotton (
Gossypium hirsutum L.) and the automated `OptiFitACi' R-package.}



\author[1]{Demi Sargent}%
\author[2]{Jeffrey Amthor}%
\author[3]{Joseph R. Stinziano}%
\author[4]{John Evans}%
\author[4]{Spencer Whitney}%
\author[5]{Michael P. Bange}%
\author[1]{David Tissue}%
\author[6]{Warren C. Conaty}%
\author[1]{Robert Sharwood}%
\affil[1]{Western Sydney University Hawkesbury Institute for the Environment}%
\affil[2]{Northern Arizona University Center for Ecosystem Science and Society}%
\affil[3]{Canadian Food Inspection Agency}%
\affil[4]{Australian National University Research School of Biology}%
\affil[5]{Cotton Seed Distributors Ltd}%
\affil[6]{CSIRO Agriculture and Food}%


\vspace{-1em}



  
  \date{May 25, 2024}


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\selectlanguage{english}
\begin{abstract}
Leaf gas exchange measurements provide an important tool for inferring a
plant's photosynthetic biochemistry. In most cases, the responses of
photosynthetic CO \textsubscript{2} assimilation to variable
intercellular CO \textsubscript{2} concentrations ( \emph{A}/
\emph{C\textsubscript{i}} response curves) are used to model the maximum
rate of carboxylation by ribulose-1,5-bisphosphate carboxylase/oxygenase
(Rubisco, \emph{V} \textsubscript{cmax}) and the rate of electron
transport at a given photosynthetically active radiation (PAR; \emph{J}
\textsubscript{PAR}). The standard Farquhar-Von Caemmerer-Berry model is
typically used with default parameters of Rubisco kinetic values and
mesophyll conductance to CO \textsubscript{2} ( \emph{g}
\textsubscript{m}) derived from tobacco that impairs analytical
reliability across species. To study this, here we measured the
temperature responses of key \emph{in vitro} Rubisco catalytic
properties and \emph{g} \textsubscript{m} in cotton ( \emph{Gossypium
hirsutum} cv. Sicot 71) and derived \emph{V} \textsubscript{cmax} and
\emph{J} \textsubscript{2000} ( \emph{J} at 2000 \selectlanguage{greek}µ\selectlanguage{english}mol m
\textsuperscript{-2} s \textsuperscript{-1} PAR) from cotton \emph{A}/
\emph{C\textsubscript{i}} curves incrementally measured at 15\selectlanguage{ngerman}°C to 40°C
using cotton and tobacco parameters with our new automated fitting R
package `OptiFitACi'. When applied to cotton, the tobacco parameters
produced unrealistic \emph{J} \textsubscript{2000}: \emph{V}
\textsubscript{cmax} ratio of \textless{}1 at 25°C, two- to three-fold
higher estimates of \emph{V} \textsubscript{cmax}, approximately 50\%
higher estimates of \emph{J} \textsubscript{2000} and more variable
estimates of \emph{V} \textsubscript{cmax} and \emph{J}
\textsubscript{2000}, compared to model parameterisation with
cotton-derived values. We determined that errors arise when using a
\emph{g} \textsubscript{m} of 0.23 mol m \textsuperscript{-2} s
\textsuperscript{-1} bar \textsuperscript{-1} or below and Rubisco CO
\textsubscript{2}-affinities under ambient O \textsubscript{2} (
\emph{K} \textsubscript{C} \textsuperscript{21\%O2}) outside 461 \selectlanguage{greek}µ\selectlanguage{english}bar to
627 \selectlanguage{greek}µ\selectlanguage{english}bar to model \emph{A}/ \emph{C} \textsubscript{i} responses in
cotton. We show how the multi- \emph{A}/ \emph{C} \textsubscript{i}
modelling capabilities of `OptiFitACi' serves as a robust, user-friendly
extension of `plantecophys' by providing simplified
temperature-sensitivity and species-specificity parameterisation
capabilities to enable higher accuracy estimates of \emph{V}
\textsubscript{cmax} and \emph{J} \textsubscript{2000}.%
\end{abstract}%



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\textbf{Hosted file}

\verb`Sargent OptiFitACi for PCE V3__Clean Copy.docx`  available at \url{https://authorea.com/users/650041/articles/658714-the-importance-of-species-specific-and-temperature-sensitive-parameterisation-of-a-c-i-models-a-case-study-using-cotton-gossypium-hirsutum-l-and-the-automated-optifitaci-r-package}

\textbf{Hosted file}

\verb`Figures OptiFitACi V3_Clean Copy.docx`  available at \url{https://authorea.com/users/650041/articles/658714-the-importance-of-species-specific-and-temperature-sensitive-parameterisation-of-a-c-i-models-a-case-study-using-cotton-gossypium-hirsutum-l-and-the-automated-optifitaci-r-package}

\textbf{Hosted file}

\verb`Tables OptiFitACi V3_Clean Copy.docx`  available at \url{https://authorea.com/users/650041/articles/658714-the-importance-of-species-specific-and-temperature-sensitive-parameterisation-of-a-c-i-models-a-case-study-using-cotton-gossypium-hirsutum-l-and-the-automated-optifitaci-r-package}

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