I have almost the same concern as you. I am graduating with a 3.09 (till now) in May. Although I do have 2 years of research experience and one summer internship, I still have some doubts about my chances of getting into a Ph.D. program. My GRE scores are low (V 151, Q 145, AW 3.5), which don't help my case. I took a chance and applied to Ph.D. Microbiology programs for next fall and see where that takes me. I think you should take a chance. If not, you could consider PostBacc programs before applying to Grad School.
You look like you have some lab skills you can focus on in your PS. Also, your GRE scores and LORs should help you. Make sure your recommenders write great things.
Hope this helped.