Failed to understand this:

Does "Using electron microscopy the team were able to reconstruct the system as observed in the bacteria E. coli" mean "first, the team observed (by using electron microscopy) the system in E. coli, then the team made the system reappear under the lens of electron microscopy"?

Context:

Using electron microscopy the team were able to reconstruct the system as observed in the bacteria E. coli. They saw that the mechanism consists of two separate complexes, one in the outer membrane of the cell, and the other in the inner membrane, which are connected by a stalk-like structure that crosses the periplasm -- the space between the two membranes. The complexes at both the inner and outer membranes form pores in the membrane, via which substances can be secreted.