Meanwhile international monitors say parts of the wreckage have been changed since they first saw it.
The Boeing 777 crashed last Thursday, killing all 298 people on board.
The Malaysia Airlines flight came down in rebel-held territory near the eastern village of Grabove.
Most of those who died were Dutch and the remains will be flown from a co-ordination centre in Kharkiv to the Netherlands for identification and forensic identification.
There, the bodies will be loaded into refrigeration units supplied by the Dutch, the agency says.
The Ukrainian government has said it will do "its best" to send the remains to the Netherlands on Tuesday.
Countries directly affected by the disaster, such as the Netherlands, Australia, and the UK, have been concerned that the crash site was not properly sealed off with the risk that valuable evidence could go missing.
A spokesman for the OSCE monitors at the site, Michael Bociurkiw, told the BBC that major pieces of the plane had been cut into and that large parts now looked different.
Western nations say there is growing evidence that flight MH17 was hit by a Russian-supplied missile fired by rebels. Russia has suggested Ukrainian government forces are to blame.
Clues
Late on Monday the rebels, including Alexander Borodai, self-styled Prime Minister of the Donetsk People's Republic, handed over the "black box" flight recorders to Malaysian officials at a ceremony in Donetsk.
The handover of the "black boxes" and the transfer of remains followed talks between Mr Borodai and the Malaysian Prime Minister Najib Razak.
Sanctions
European Union foreign ministers are meeting to consider further sanctions against Russia over its alleged backing for the rebels - something Moscow denies.
The meeting in Brussels is thought likely to discuss expanding the list of Russian officials targeted by sanctions, but the EU has so far steered clear of targeting whole sectors of the Russian economy.
Both the EU and the US imposed sanctions on Russia following its annexation of Crimea and the outbreak of hostilities in eastern Ukraine.
Fighting has continued in Ukraine despite the air crash, with the government saying 13 soldiers died in recent clashes
The resolution, proposed by Australia, also demanded that those responsible "be held to account and that all states co-operate fully with efforts to establish accountability".
The conflict between Ukrainian government forces and rebels has continued, with clashes on Monday in Donetsk.
In the latest move, Ukraine's parliament has approved the call-up of more military reserves and men under 50, Reuters reports.
After the vote, scuffles were reported between nationalist politicians and members of the party that was led by former President Viktor Yanukovych, who was overthrown in February.
Thirteen Ukrainian soldiers have been killed over the past 24 hours, a Ukrainian security official said. Three of them died as an explosives-packed bus blew up at a roadblock.
The fighting in eastern Ukraine erupted in April and is believed to have claimed more than 1,000 lives.
BBC
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