\documentclass[10pt]{article}

\usepackage{fullpage}
\usepackage{setspace}
\usepackage{parskip}
\usepackage{titlesec}
\usepackage[section]{placeins}
\usepackage{xcolor}
\usepackage{breakcites}
\usepackage{lineno}
\usepackage{hyphenat}





\PassOptionsToPackage{hyphens}{url}
\usepackage[colorlinks = true,
            linkcolor = blue,
            urlcolor  = blue,
            citecolor = blue,
            anchorcolor = blue]{hyperref}
\usepackage{etoolbox}
\makeatletter
\patchcmd\@combinedblfloats{\box\@outputbox}{\unvbox\@outputbox}{}{%
  \errmessage{\noexpand\@combinedblfloats could not be patched}%
}%
\makeatother


\usepackage{natbib}




\renewenvironment{abstract}
  {{\bfseries\noindent{\abstractname}\par\nobreak}\footnotesize}
  {\bigskip}

\titlespacing{\section}{0pt}{*3}{*1}
\titlespacing{\subsection}{0pt}{*2}{*0.5}
\titlespacing{\subsubsection}{0pt}{*1.5}{0pt}


\usepackage{authblk}


\usepackage{graphicx}
\usepackage[space]{grffile}
\usepackage{latexsym}
\usepackage{textcomp}
\usepackage{longtable}
\usepackage{tabulary}
\usepackage{booktabs,array,multirow}
\usepackage{amsfonts,amsmath,amssymb}
\providecommand\citet{\cite}
\providecommand\citep{\cite}
\providecommand\citealt{\cite}
% You can conditionalize code for latexml or normal latex using this.
\newif\iflatexml\latexmlfalse
\providecommand{\tightlist}{\setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}%

\AtBeginDocument{\DeclareGraphicsExtensions{.pdf,.PDF,.eps,.EPS,.png,.PNG,.tif,.TIF,.jpg,.JPG,.jpeg,.JPEG}}

\usepackage[utf8]{inputenc}
\usepackage[english]{babel}



\usepackage{float}








\begin{document}

\title{Model-based genotype and ancestry estimation for potential hybrids with
mixed-ploidy}



\author[1]{Vivaswat Shastry }%
\author[2]{Paula Adams}%
\author[3]{Dorothea Lindtke}%
\author[4]{Elizabeth Mandeville}%
\author[5]{Thomas Parchman}%
\author[6]{Zach Gompert}%
\author[1]{C. Alex Buerkle}%
\affil[1]{University of Wyoming}%
\affil[2]{The University of Alabama System}%
\affil[3]{University of Bern}%
\affil[4]{University of Guelph}%
\affil[5]{University of Nevada Reno}%
\affil[6]{Utah State University}%


\vspace{-1em}



  
  \date{June 16, 2024}


\begingroup
\let\center\flushleft
\let\endcenter\endflushleft
\maketitle
\endgroup





\selectlanguage{english}
\begin{abstract}
Non-random mating among individuals can lead to spatial clustering of
genetically similar individuals and population stratification. This
deviation from panmixia is commonly observed in natural populations.
Consequently, individuals can have parentage in single populations or
involving hybridization between differentiated populations. Accounting
for this mixture and structure is important when mapping the genetics of
traits and learning about the formative evolutionary processes that
shape genetic variation among individuals and populations. Stratified
genetic relatedness among individuals is commonly quantified using
estimates of ancestry that are derived from a statistical model.
Development of these models for polyploid and mixed-ploidy individuals
and populations has lagged behind those for diploids. Here, we extend
and test a hierarchical Bayesian model, called \textbf{entropy}, which
can utilize low-depth sequence data to estimate genotype and ancestry
parameters in autopolyploid and mixed-ploidy individuals (including sex
chromosomes and autosomes within individuals). Our analysis of simulated
data illustrated the trade-off between sequencing depth and genome
coverage and found lower error associated with low depth sequencing
across a larger fraction of the genome than with high depth sequencing
across a smaller fraction of the genome. The model has high accuracy and
sensitivity as verified with simulated data and through analysis of
admixture among populations of diploid and tetraploid \emph{Arabidopsis
arenosa}.%
\end{abstract}%



\sloppy




\selectlanguage{english}
\FloatBarrier
\end{document}

