It has been in public hands since National Express gave it up in 2009.
Getting there and away: National Express runs hourly buses from Victoria coach station (two hours).
Earlier, National Express said all of its coaches were running, although there were some delays.
National Express Coventry said the Number 4 Service was the bus operator's only affected route.
FirstGroup, Stagecoach, Arriva and National Express have gone to court in an effort to get their money back.
National Express West Midlands said 50% of its buses call at city centre stops instead following a passenger survey.
Four companies were bidding to run trains for 15 years from next April: FirstGroup, Arriva, National Express and Stagecoach.
National Express and CrossCountry services were suspended for a time between Berwick-Upon-Tweed and Edinburgh due to flooding near Dunbar.
First Capital Connect and National Express East Anglia also scored poorly - with respective satisfaction figures of 76% and 77%.
The changes will enable National Express East Anglia trains to be 50% longer on its Cambridge to London Liverpool Street route.
Hours earlier the government declared that it would take a railway line run by National Express, a train franchise, into state ownership.
In March last year, FirstGroup, National Express, Stagecoach, and Arriva, a division of Deutsche Bahn, were short-listed for the Great Western franchise.
BBC: Great Western London to south Wales rail contest scrapped
National Express, the train operator, will lose its franchise next year, having failed to meet government targets, and has little incentive to keep investing.
The British branch of Dutch train firm Abellio took over the Greater Anglia train franchise from National Express East Anglia just after 02:00 GMT.
National Express' railway franchise includes Central Trains, Gatwick Express and ScotRail.
National Express said it would offer 282.5 pence in cash and 0.375 of its shares for every Prism Rail share plus a special dividend of 40 pence per share.
National Express indicated that it would walk away from the loss-making route, and not put further money into it, after failing to alter the terms of its franchise agreement.
That was only after National Express Group, a publicly traded British firm specializing in airport privatization, waded through the three-year bid process and an achingly slow review by the state.
The two other prospective franchisees GB Railways and National Express - who own the Central Trains service in mid-Wales - are expected to reveal their ideas in the near future.
However, BBC transport correspondent Tom Symonds said it was generally accepted that the franchise would return to the government at some point after National Express failed to alter the terms of its agreement.
Over the past few months Abellio managers have been working closely with National Express East Anglia, the Department for Transport, Transport for London, employees and customers to ensure a smooth transfer, the spokesman said.
Central Trains is owned by the National Express group and two other rail operators, under the same parent company, are also facing timetable problems caused by drivers working contracted hours, but refusing to work overtime.
"The combination of National Express and Prism Rail represents an excellent opportunity as we are enhancing National Express's position in the rail sector of the UK's public transport market, " said National Express chief executive Phil White.
Despite worries from the public that the train system will not be up to the job, Peter Meades from National Express East Anglia believes improvements to the service are well underway to cope with the influx of tourists.
National Express East Anglia (NXEA) had the lowest overall satisfaction rating of all the train-operating companies at 77%, while Grand Central, which operates routes between London King's Cross and the north of England, had the highest rating, at 95%.
The band even went on national television to express its outrage.
My guess is that Ronald Reagan the national leader would express similar horror at what is happening to his beloved conservative movement as some in its ranks seek to sever from its agenda the priority "the Gipper" consistently gave to the national security.
Other airlines announcing cuts included Frontier with 440, National with 300 and Midwest Express with at least 450.
In a report last July on the Sky Express crash, the National Transportation Safety Board found that ineffective government oversight allowed the Charlotte, N.
In 1959, he left to be president of the Railway Express Agency, a giant national parcel service that was failing.
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