Soft Sediment Interactions

Image credit: Olivia Johnson
Soft sediment ecosystems include gravelly, sandy, silty and muddy areas of the seafloor and are home to a wide variety of organisms including invertebrates (e.g. worms, crabs, shellfish) and bottom-dwelling fish.

Salmon aquaculture

Most salmon farms in Tasmania are located over soft sediment ecosystems. The main ways in which salmon aquaculture interacts with these ecosystems are via: 

  • Release of organic matter from uneaten salmon feed, salmon faeces and biofouling debris to the seafloor. This may result in organic enrichment and sedimentation/smothering. 
  • Release of metals from farm equipment and fish feed additives or antibiotics used to treat fish may result in sediment contamination. 

Typically, these interactions are greatest immediately below actively farmed salmon cages, decreasing with distance from the farm. The magnitude of interactions depends on the intensity and management practices of farming, environmental conditions at the farm site (e.g. depth of water below cages, water movement in the area) and the sensitivity of the soft sediment ecosystem. 

Organic enrichment

Some organic matter released by salmon farms dissolves in the water column (dissolved waste), while some is released in the form of particles (particulate waste) which float in the water column, sinking to the seafloor at varying rates depending on particle size and water current speeds. 

Animals in the sediments break down this excess organic matter and consume oxygen in the process. Organic enrichment can cause community changes in the fauna, with small amounts of enrichment stimulating biodiversity and abundance, but sustained organic inputs will favour opportunistic species that can rapidly breakdown organic material. If the ability of these animals to break down this matter is exceeded, oxygen levels may decline, there will be a loss of infauna from the sediments, and hydrogen sulphide gas may be released as organic matter break-down is left to microbes. Signs of an enriched soft sediment ecosystem can include: 

  • Low oxygen levels 
  • Presence of bacterial mats (e.g. Beggiatoa spp.) on the sediment surface 
  • Presence of gas bubbling from the sediment surface 
  • Lower species diversity 
  • Lower abundance of sensitive species 
  • Higher abundance of opportunistic species that can tolerate low oxygen levels 
Sediment contamination

Metals (e.g. copper and zinc) from farm equipment and additives in fish feed can accumulate in sediments. If these metals reach elevated levels, they can become toxic to marine life. 

Antibiotics used to treat fish can also end up in sediments, leading to concerns around long-term environmental persistence and antibiotic resistance. 

Monitoring and Management Implications

Our research points to several key strategies for managing aquaculture interactions with soft sediment environments, including:  

  • Site Selection and Planning: choosing farm locations based on environmental assessments. This helps reduce waste build-up in sensitive areas. 
  • Monitoring: regular monitoring of sediment conditions and compliance with environmental standards or trigger levels. 
  • Regulation: limits on aquaculture production and waste. 
  • Best practices: controlling feed to reduce waste and rotating farm areas (fallowing). 

Soft sediment ecosystems impacted by aquaculture interactions can recover, however rates of recovery depend on the severity of the impact and local environmental conditions. 

Looking Ahead

Research and ongoing monitoring are vital for understanding and managing the interactions of aquaculture with soft sediment ecosystems. It is important to understand how the responses of soft sediment ecosystems to aquaculture vary depending on farm location, so that regulators can put in place the right monitoring and management practices for each aquaculture farming region. This can ensure that soft sediment ecosystems are able to effectively assimilate and process aquaculture waste without damaging their functioning.

Institute for Marine and Antarctic Studies
15-21 Nubeena Crescent
Taroona, Tasmania 7053 Australia
+61 6226 8277 
Acknowledgment of Country
We acknowledge the palawa/pakana and Gadigal/Wangal people, the traditional custodians of the land and sea upon which we live and work, and their enduring cultures and knowledge of our oceans and coasts.

We recognise that decisions and practices affecting the future of Indigenous education and research are vital to the self-determination, wellbeing and livelihood of Aboriginal and Torres Strait Islander people, and to shaping the Australian society in which we live.
Copyright 2025 Institute for Marine and Antarctic Studies.
Top menu-circle linkedin facebook pinterest youtube rss twitter instagram facebook-blank rss-blank linkedin-blank pinterest youtube twitter instagram