\documentclass{beamer}
\usepackage[utf8]{inputenc} % this is needed for german umlauts
\usepackage[ngerman]{babel} % this is needed for german umlauts
\usepackage[T1]{fontenc}    % this is needed for correct output of umlauts in pdf
\usepackage{minted}         % needed for the inclusion of source code

% from http://tex.stackexchange.com/questions/57151/how-do-i-prevent-conflicts-between-accsupp-and-hyperref
\usepackage{accsupp}
\newcommand\emptyaccsupp[1]{\BeginAccSupp{ActualText={}}#1\EndAccSupp{}}


%default definition is: \def\theFancyVerbLine{\rmfamily\tiny\arabic{FancyVerbLine}}
\let\theHFancyVerbLine\theFancyVerbLine% don't apply our patch to hyperref's version
\def\theFancyVerbLine{\rmfamily\tiny\emptyaccsupp{\arabic{FancyVerbLine}}}

\begin{document}
    \section{Section}
    \subsection{MySubSection}
    \begin{frame}{Blubtitle}
        \inputminted[linenos=true, numbersep=5pt, tabsize=4, fontsize=\small]{java}{IataCode.java}
    \end{frame}
\end{document}