Proof by contradiction is a method of deduction which means assuming some proposition and find a contradiction out of your assumption. This would lead you that your assumption was false, then its opposite is true.
To prove the contraposition is not a method of proving things, it's only a shortcut which can only be used for if...then statements. It is just proving $\neg Q \implies \neg P$ instead of $P\implies Q$. However for prove $P \implies Q$ by contradiction, you have to show that $P$ is true and assume $Q$ is false and find a contradiction. You can even use proof by contradiction to just one proposition, $P$.
In natural deduction, prove by contrapositive cannot be used as it is not a logical rule but a result of the truth table of "if...then" statements. You cannot just switch $P \implies Q$ into $\neg Q \implies \neg P$ while making a natural deduction. But you can always say "Assume $\neg P$, there is a contradiction, then $P$".
Another addition: $\forall x \in \Bbb R, P\implies Q$ is not a good structure. It is a mixture of propositional logic and first order logic. $P$ and $Q$ does not deal with the values of $x$ there, as they are not dependent to $x$. If what you're trying to state is not something like "for any real number $x$, if tomorrow is rainy, then the traffic is gonna be a mess" but "for any real number $x$, if $x$ is odd, then $x$ is a natural number", you should say $\forall x \in \Bbb R, (P(x)\implies Q(x))$. Easiest way to prove this wrong is contradiction with counter example like:
$\neg Q(-1)$ (premise)
_$\forall x \in \Bbb R, (P(x)\implies Q(x))$ (assumption)
$-1 \in \Bbb R$
$P(-1)$
$Q(-1)$($\implies$ introduction 1,2)
$\bot$
$\neg \forall x \in \Bbb R, (P(x)\implies Q(x))$ ($\neg$ introduction 2,6)