"At this stage there is no obvious source of pollution so our main concern is the public collecting the shellfish with the intention of eating them, which we do not want," said Sutherland.
MidCentral Public Health Service Medical Officer Dr Rob Weir said that cooking shellfish washed up on the beach does not make them safe to eat.
"Warning signs were erected at the beaches on Friday afternoon by Public Health. Further investigations will be taken to find out what is causing the shellfish deaths, which could take some weeks."
The alert covers between Waitarere Beach in the north to Hokio Beach in the south, but people are also warned not to eat shellfish washed up on beaches outside this area.
A multi-agency investigation is underway between MPI, Horowhenua District Council and Horizons Regional Council.
A Horizons representative told Horowhenua Chronicle that MPI would be testing the pipi but when MPI were contacted on Monday, they were unaware of it.
Hokio Beach resident and kaumatua for local iwi Muaupoko Peter Huria said that it was a devastating tragedy to see the fisheries in this state.
"I'm worried about how the population will bounce back after such a loss," he said. "This has happened before but last time we only lost a few hundred. It wasn't anywhere near the scale of today's loss."
Huria said he will be keeping a close eye on the reason for deaths. He believed it was closely linked with the Manawatu River and Hokio Stream pollution.
"Surely this isn't a natural occurrence," he said. "I believe it is land based pollutants running into those pipi beds."