Indeed, the total space here fails to be a manifold -- more precisely, it's impossible to have any continuous surjection $E \to \mathbb{R}$ from a topological manifold $E$ with the prescribed preimages. To see this, note that removing the unique point in the preimage of $0$ disconnects $E$, so if $E$ were a manifold, it would have to be $1$-dimensional. However, $E$ cannot be a $1$-dimensional manifold, as follows.
It is a standard result that every non-compact, connected topological $1$-manifold is homeomorphic to $[0,\infty)$ or $\mathbb{R}$. There cannot be a continuous surjection from one of these spaces to $\mathbb{R}$ with the prescribed fibers, since $S^1$ is not homeomorphic to a subspace of $\mathbb{R}$ (every connected compact subspace of $\mathbb{R}$ is of the form $[a,b]$ with $a \leq b \in \mathbb{R}$, and these subspaces are simply connected while $S^1$ is not).
From a brief watch of a few minutes, it seems like these lectures have a few other problems with mathematical precision.
For example, the definition of "fiber bundle" given is incorrect, or at the very least extremely nonstandard. Please compare to the definition on Wikipedia, and see this post which may be referencing these same lectures.
Also, the lecturer claims that the Möbius strip is homeomorphic to the cylinder, which is simply not true (the Möbius strip is not homeomorphic to a subspace of $\mathbb{R}^2$, while the cylinder is).
So, I would take the mathematical details in these videos with a grain of salt (perhaps consider studying alongside a reputable math textbook on topological manifolds).