DairyNZ's regional leader for Southland and South Otago said it was not just a dairying matter.
"It's about all animals being wintered in the South on crops."
He said that farmers accepted the need for changes and a lot of work was being done to improve the situation.
"Crops are being planted too close to streams and on steep slopes with no effort being made to exclude gullies, provide proper buffer zones or follow guidelines," Fish & Game chief executive Martin Taylor had said in a media release.
The dairy industry needed to address the problem and local government should be doing more, he said.
Environment Southland expressed disappointment at the release.
"Tackling Southland's water quality is a big, complex challenge that requires us all to work together," its director, science and information, Graham Sevicke-Jones said.
Southland had experienced record-breaking rain that had affected sediment run-off, he said.