Antibacterial activities of various spherical zinc oxide nanoparticles and nano special morphological structures including quantum dots, nanorod arrays, nanoporous shapes and needle-like crystals had been investigated as new nanomedicine compounds. Also antibacterial activity based on minimal inhibitory concentration and the growth inhibitory zone (well method) was evaluated. ZnO nanostructures were fabricated by novel hydrolysis sol-gel-hydrothermal process followed with rapid quenching as new technique using glycerine, vegetable fatty esters such as coconut, sunflower and Lauric alcohol ethoxylated as organic templates soluble in eco-friendly nanofluids. The results showed that Bacillus anthracis and Pseudomonas aerogenes were extremely sensitive to treatment with unique ZnO nanostructured. Their growth inhibitory zone presented 30 mm and 25 mm inhibition zone with better inhibitory effect compared to the Gentamicin antibiotic standard. ZnO nanostructures had also been indicated to have a wide range of antibacterial activities against both Gram-positive and Gram-negative bacteria especially more effective on (gr+) species using the growth inhibitory zone. We could design and make significant formulations of fatty acids and esters-capped ZnO quantum dots nanofluids which created high promising agents for controlling Anthrax, Staphylococcus epidermidis and their influences in antimicrobial properties with low cost for future.