The zero energy states are localized at the boundary, and their wave functions decay exponentially in the bulk. So they are boundary modes (or edge states), which do not count as the bulk states, and do not contribute to the bulk gap closing. The only way to close the bulk gap in the SSH model is to tune $\delta t$ to zero. As long as $\delta t\neq 0$, the bulk gap (which is proportional to $|\delta t|$) is always open, no matter how many edges you cut open or how many edge modes you have.
$N_1$ does not corresponds to the Hall conductance in this 1D SSH model, because the 1D system simply does not have any notion of a Hall conductance. The Hall (or spin Hall) conductance is specialized to the 2D topological insulators, which can not be generalized to other dimensions. $N_1$ is also not related to the longitudinal conductance, because SSH chain has a bulk gap, so its conductance is simply zero (that is why topological insulator is an insulator in the first place).
Since the idea of the Hall conductance can not be generalized, then what is the physical meaning of the topological numbers in general dimensions? The answer is on the boundary: the topological number counts the number of boundary modes. In the 1D SSH model, $N_1$ counts the number of zero energy modes on the 0D boundary. In the 2D quantum Hall insulator, the topological number (Hall conductance) counts the number of chiral edge modes on its 1D boundary. In the 2D quantum spin Hall insulator, the topological number (spin Hall conductance, or $\mathbb{Z}_2$ number) counts the number of helical (counter-propagating) edge modes on its 1D boundary.
So what is the significance of having these symmetry protected topological (SPT) states? Well, a subject of condensed matter physics is to look for new states of matter. $N_1=1$ SSH chain is a new state of matter that can not be smoothly connected to the trivial chain with $N_1=0$. So it is interesting on the theory side. But is there any practical use of the zero energy modes? For SSH chain, I am not sure. However there is a very similar system, called the Majorana chain, which is basically a 1D topological superconductor with Majorana zero modes on the edge. The Majorana zero modes are associated with the topological ground state degeneracy of the superconducting chain, so that we can use this degeneracy to make topological quantum memories for quantum computers in the future.