create a style with a key (and put the style in your App.xaml or in a resource dictionary and put this in your App.xaml)
<Style x:Key="CustomMetroWindowStyle" TargetType="{x:Type Controls:MetroWindow}">
<Setter Property="Background"
Value="LightGray" />
<Setter Property="BorderBrush"
Value="#FFB9B9B9" />
<Setter Property="BorderThickness"
Value="0,1,0,0" />
</Style>
and use it like this
<Controls:MetroWindow x:Class="MetroDemo.MainWindow"
xmlns="http://schemas.microsoft.com/winfx/2006/xaml/presentation"
xmlns:x="http://schemas.microsoft.com/winfx/2006/xaml"
Style="{DynamicResource CustomMetroWindowStyle}">
</Controls:MetroWindow>