V/Line train drivers could walk off the job for up to 48 hours leaving regional commuters stranded as the union ramps up its fight for better pay.

Within weeks, rolling strikes spanning 24 to 48 hours could hit every regional train line, if up to 600 drivers, station staff and train controllers vote to down tools.

Queues at the Southern Cross station bus terminal for buses replacing V/Line services that were cancelled. Credit:Justin McManus

The Rail, Tram and Bus Union (RTBU) lodged an application to take protected industrial action at the Fair Work Commission on Tuesday afternoon, which must be approved by a majority of members for the strike to go ahead.

The union is considering first targeting the Geelong and Warrnambool lines, followed by Ballarat, Maryborough, Bendigo, Seymour, Shepparton and Gippsland.