Phosphoenolpyruvate carboxylase (PEPC, EC 4.1.1.31) plays an important role in plant carbon metabolism, which can affect protein and lipid metabolism in higher plant, while studies on green alga PEPC are limited. Chlamydomonas reinhardtii is the model organism in green alga, and its chloroplast transformation is mature and efficient.In order to get high expression quality of protein and lipid content, chloroplast transformation method could be applied. In this study, the sequence with 639 bp (about 1/7 length) of C. reinhardtii CS I was cloned, then C. reinhardtii was transformed by the empty plasmid pASapI, vectors pASapI-reve-Crpepc2 and pASapI-forw-Crpepc2, to generate “blank,” “forward,” and“reverse” mutants by particle bombardment, respectively.The relative expression of Crpepc2 were detected with RT-qPCR, it showed that Crpepc2 expression of reverse mutant decreased by 89.97%, and that of forward mutant increased by 201.16%. Mean while the contents of protein and lipid were detected, the data showed that total protein of forward mutant rose by 37.03%, and the lipid content of reverse mutant enhanced by 70.32%, moreover, fatty acid of reverse mutant increased obviously. In conclusion, bacteria type PEPC in Chlamydomonas reinhardtii not only can improve protein and lipid content, but also can make contribution to foreign protein expression and high lipid content engineered microalgae.