It doesn't always pay to be green.

Public transit users in several major cities are going to be paying more this year. Fares for Metro North's New Haven line just went up by 5% on Jan. 1. A person who commutes from Bridgeport, Conn. to New York City, for example, will pay nearly $20 more for a monthly pass.

In San Francisco, Bay Area Rapid Transit riders saw a fare increase of 5.2% on Jan.1, which the agency says will help pay for new train cars. Transit officials overseeing the Washington D.C. Metro are also proposing an average 3% fare hike, which if approved, would go into affect July 1.

Meanwhile, commuters across the country could pay more due to a shrinking tax break. In 2014, the amount of pre-tax money that workers can set aside to pay for public transportation falls from $245 to $130 per month.

As a result, an individual's annual commuting costs could increase by up to $1,380 a year, according to the American Public Transportation Association.