Per kg striped catfish produced, waste containing 46 g nitrogen (N) and 14 g phosphorous (P) is produced (De Silva et al., 2010). About 70% of striped catfish farmers discharge untreated effluents to the river. The remaining 30% of farmers discharge to rice fields or gardens (Phan et al., 2009), where part of the nutrients are reused. Discharging effluents pollute surface waters and increases the risk of horizontal disease transmission (Nguyen et al., 2007). Survival in striped catfish ponds is less than 70% mainly due to disease. More than 15 diseases/syndromes are commonly occurring in striped catfish farming (Phan et al., 2009). Diseases are treated with different antibiotics and chemicals (Bosma et al., 2009; Rico et al., 2013). However, consumers do not accept residues of antibiotics and chemicals in fish products leading to national and international laws and regulations that limit the number and amounts of chemicals and antibiotics farmers can use. When applying chemicals or antibiotics farmers are advised to ban application during the last 2 months before harvesting (BMP, 2009; MARD, 2011). Consumers prefer white fillets, but fillets can have grades of pink or yellow colour (Sang et al., 2009). Only white fillets are of export quality and fetch a higher price (Khoi, 2011). The fillet colour of striped catfish produced in deep ponds in the Mekong Delta is predominantly white. The high depth and water turnover rate of the pond farming system in the Mekong delta might contribute to more white fillets (Phu et al., 2014). Farmers will be willing to switch to less polluting farming systems, provided the colour grade of the fillet is maintained. 1.2. Aquaculture sustainability indicators Sustainability includes environmental, economic and social dimensions (Verreth and Oberdieck, 2009), and to monitor and compare sustainability performance indicators are required that are measurable and easy to apply at farm level. Basic indicators used to assess sustainability of aquaculture production systems are listed in Table 1.1 (Boyd et al., 2007; Verreth and Oberdieck, 2009).