No, it cannot hold.
Your problem asks for a family $\{A_n\}_{n\in\mathbb N}$ such that $A_i'\cap\mathbb Q=\emptyset$ for all $i\in\mathbb N$, but this means $\overline{A_i}\cap\mathbb Q=\emptyset$, as $\overline{A_i}=A_i\cup A_i'$ and $A_i\subseteq\mathbb R\setminus\mathbb Q$, but this is equivalent to $\mathbb Q\subseteq \overline{A_i}^c=int(A_i^c)$ for all $i$. Thus your problem, ignoring the disjointedness part, is equivalent to finding a family $\{A_i\}_{i\in\mathbb N}$ of sets of reals such that $\bigcap_{i\in\mathbb N} A_i=\mathbb Q$ and $\mathbb Q\subseteq int(A_i)$ for all $i$, but this cannot happen because of Baire's First Category Theorem:
Let $\mathbb Q=\{q_i:i\in\mathbb N\}$ be an enumeration of $\mathbb Q$. As $\mathbb Q\subseteq int(A_i)$ for each $i$, each $int(A_i)$ is open dense in $\mathbb R$, then clearly each $int(A_i)\setminus\{q_i\}$ is open dense in $\mathbb R$; as $int(A_i)$ either contains an open interval that contains $q_i$; in such case $q_i\in \overline {int(A_i)\setminus\{q_i\}}$, or $q_i\notin int(A_i)$. Therefore $\bigcap_{i\in\mathbb N}(int(A_i)\setminus\{q_i\})$ is dense in $\mathbb R$, by 1. However $\bigcap_{i\in\mathbb N} int(A_i)\subseteq\bigcap_{i\in\mathbb N} A_i=\mathbb Q$, which implies $\bigcap_{i\in\mathbb N}(int(A_i)\setminus\{q_i\})=\emptyset$. Contradiction.
Now, if you ask for $\bigcup_{i\in\mathbb N} \overline{A_i}=\mathbb R$, it's even easier, as this means $\bigcap_{i\in\mathbb N} int(A_i^c)=\emptyset,$ however, $\mathbb Q\subseteq int(A_i^c)$ for each $i$, in consequence each $int(A_i^c)$ is open dense, so you obtain a contradiction using 1.