In this study, the effect of abiotic stress on the acidophilic eukaryotic microalga, Coccomyxa onubensis, was analyzed for the production of lutein and PUFAs (polyunsaturated fatty acids). It grows autotrophically at a pH of 2.5. It showed a growth rate of 0.30 d(-1), and produced approximately 122.50 mg.L-1.d(-1) biomass, containing lipids (300.39 mg g(-1) dw), lutein (5.30 mg g(-1) dw), and beta-carotene (1.20 mg g(-1) dw). The fatty acid methyl ester (FAME) fraction was 89.70 mg g(-1) dw with abundant palmitic acid (28.70%) and linoleic acid (37.80%). The addition of 100 mM NaCl improved the growth rate (0.54 d(-1)), biomass productivity (243.75 mg.L-1.d(-1)), and lipids accumulation (416.16 mg g(-1) dw). The microalga showed a lutein content of 6.70 mg g(-1) dw and FAME fraction of 118.90 mg g(-1) dw; 68% of the FAMEs were PUFAs. However, when 200-500 mM salt was added, its growth was inhibited but there was a significant induction of lutein (up to 7.80 mg g(-1) dw). Under continuous illumination with PAR (photosynthetically active radiations) +UVA (ultraviolet A, 8.7 W m(-2)), C. onubensis showed a growth rate of 0.40 d(-1), and produced 226.3 mg.L-1.d(-1) biomass, containing lipids, (487.26 mg g(-1) dw), lutein (7.07 mg g(-1) dw), and FAMEs (232.9 mg g(-1) dw); 48.4% of the FAME were PUFAs. The illumination with PAR + UVB (ultraviolet B, 0.16 W m(-2)) was toxic for cells. These results indicate that C. onubensis biomass is suitable as a supplement for functional foods and/or source of high added value products. (C) 2018, The Society for Biotechnology, Japan. All rights reserved.