1．微生物过程工程：从代谢流的角度研究生物反应器生物过程的多水平调节问题和过程优化。研究兴趣集中在生物反应器微生物过程细胞代谢流计算、控制与优化的研究；微生物过程系统生物学研究。
2．生物质转化与利用：氧限制条件下微生物代谢；生物基化学品发酵；燃料用醇尤其是秸秆制乙醇涉及的相关研究包括糖平台、纤维素酶和乙醇发酵。

论文：
1.Li X, Wang YH, Zhang SL, Chu J, Zhang M, Huang MZ, Zhuang YP (2011) Effects of light/dark cycle, mixing pattern and partial pressure of H2 on biohydrogen production by Rhodobacter sphaeroides ZX-5. Bioresource Technology 102:1142-1148 (通讯作者)
2.Qian JC, Qin XL, Yin Q, Chu J, Wang YH (2011) Cloning and characterization of Kluyveromyces marxianus Hog1 gene Biotechnology Letters 33:571-575 (通讯作者)
3. Wang YH, Wu CH, Chu J, Hao YY, Zhuang YP, Zhang SL (2010) Regulation of branched-chain amino acid catabolism: glucose limitation enhances the component of isovalerylspiramycin for the bitespiramycin production. Bioprocess and Biosystems Engineering 33: 257-265
4. Lu YF, Wang YH, Xu GQ, Chu J, Zhuang YP, Zhang SL (2010) Influence of high solid concentration on enzymatic hydrolysis and fermentation of steam-exploded corn stover biomass. Applied Biochemistry and Biotechnology 160: 360-369 (通讯作者)