Table 1 Major microbiological processes and contributing microorganisms in aquaponics systems

Nitrification

 Ammonia oxidisation

Nitrosomonas, Nitrosococcus, Nitrosospira, Nitrosolobus, Nitrosovibrio

Ebeling et al. (2006); Rurangwa and Verdegem (2015); Schreier et al. (2010); Schmautz et al. (2017)

 Ammonia oxidisation by archaea

Trosopumilus, Nitrososphaeras

Bartelme et al. (2019)

 Nitrite oxidation

Nitrobacter, Nitrospira, Nitrococcus, Nitrospina

Ebeling et al. (2006); Schmautz et al. (2017); Wongkiew et al. (2018)

 Complete ammonia oxidation

Nitrospira

Daims et al. (2015); Bartelme et al. (2019)

Denitrification

Dokdonella, Thermomonas

Schmautz et al. (2017)

Mineralisation

Pseudomonas, Flavobacterium, Sphingobacterium, Arcobacter

Eck et al. (2019); Wongkiew et al. (2018)

Anaerobic ammonium oxidation (Anammox)

Brocadia

Schmautz et al. (2017)

Sulphate reduction

Fusibacter, Bacteroides, Desulfovibrio, Dethiosulfovibrio

Schreier et al. (2010); Somerville et al. (2014)

Organic phosphorus mineralisation

Modestobacter

Kasozi et al. (2020)

Iron cycling

Acidibacter

Kasozi et al. (2020)

Nitrogen fixation

Pontibacter, Pseudonocardia

Kasozi et al. (2020)