Probably laterWhen you look at the 16-17th architecture style, it's more about BaroqueOr this church is displaying neo-gothic features (pointed arches) Furthermore the decoration is way too sober for an ancient building, no statue, and ... what looks like a big clock on the tower.I'd say everything shows this church was built in the late XIXth century.

After you wrote this I agree that it probably wasn't 16/17th century.  I don't think that all churches built during that time, particularly smaller parish ones in the New World were necessarily given the ornamentation of grander Baroque basilicas, but still....this particular church could have been built as late as 1950 for all we know (or late-19th century, as you say).  Being underwater for 20+ years certainly has forced the deterioration process to accelerate, which is why the facade looks so old.  It does make it look quite attractive, though.