Normally lubricated shaft seals are fitted on stern tubes passing through aft peaks to prevent sea water entering the engine room. In this case plenty shaft seals were fitted in bulkheads of dry engine/gear compartments, where better solutions are available. Anyway, if there is a leak, there should be several bilge pumps available to pump out the water. Maybe the crew didn’t know how to start them? I look forward to the accident investigation report.