配合結構模擬，以基因工程改變幾丁質水解酵素的胺基酸序列，進而改造酵素結構，以改變酵素對基質的反應特性。目前已完成可產生80%三醣之酵素設計與生產。

師法自然，利用白腐真菌天生處理木質素的特性，在實驗室以液態醱酵培養取得胞外酵素，用來處理難分解的戴奧辛汙染等。

由於甲殼素為一帶正電、來自蝦蟹廢棄物的含氮生物高分子，可廣泛應用在固定化酵素、吸附色素、清潔等方面。已開發出甲殼素肥皂、甲殼寡醣生物製劑、止血棉、二氧化鈦-甲殼素複合物等。

1.Yi-Hsuan Huang, Wen-Jen Yang, Chih-Yu Cheng, Huang-Mo Sung and Shuen-Fuh Lin^∗ (2017) Bostrycin production by agro-industrial residues and its potential for food processing. Food Sci. Biotechnol. 26(3): 715–721.  

2.Chih-Yu Cheng, Chia-I. Liao and Shuen-Fuh Lin^∗ (2015) Borate-fructose complex: A novel mediator for laccase and its new function for fructose determination. FEBS letters 589(20):3107-3112.

3.Wen-Ming Chen, Rey-Chang Chang, Chih-Yu Cheng, Yu-Wen Shiau, Shih-Yi Sheu (2013) Jeongeupia chitinilytica sp. nov., a chitinolytic bacterium isolated from soil in Taiwan. Int J Syst Evol Microbiol. 63(Pt3):934-8

4.Cheng-Fu Chao, Yi-Yun Chen, Chih-Yu Cheng^∗∗ and Yaw-Kuen Li∗ (2013) Catalytic function of a newly purified exo-beta-d-glucosaminidase from the entomopathogenic fungus Paecilomyces lilacinus. Carbohydrate Polymers 93(2): 615–621

5.Chen WM, Yang SH, Huang WC, Cheng CY, and Sheu SY. (2012) Chitinivorax tropicus gen. nov., sp. nov., a chitinolytic bacterium isolated from a freshwater lake. Int J Syst Evol Microbiol. 62(Pt5):1086-91

6.CJ Huang, HL Peng*, and CY Cheng* (2011) Improving antigenicity of the recombinant hepatitis C virus core protein via random mutagenesis. J Biomed Biotechnol. Vol. 2011, Article ID 359042, 6 pages doi:10.1155/2011/359042

7.Yang CS, Sheu SY, Young CC, Arun AB, Cheng CY, and Chen WM. (2010) Chitinibacter alvei sp. nov., isolated from stream water. Int J Syst Evol Microbiol. 60(Pt8):1760-4.

8.Chen WM, Chung YN, Chiu TF, Cheng CY, Arun AB, and Sheu SY. (2010) Deefgea chitinilytica sp. nov., isolated from a wetland.  Int J Syst Evol Microbiol 60(Pt 6):1450-3.

9.Chang KS, Luo L, Chang CW, Huang YC, Cheng CY, Hung CS, Diau EW, and Li YK. (2010) Novel Steroid-Sensing Model and Characterization of Protein Interactions Based on Fluorescence Anisotropy Decay (double dagger). J Phys Chem B: 114(12):4327-34.

10.Wu YJ, Cheng CY* and Li YK* (2009) Cloning and Expression of Chitinase A from Serratia marcescens for Large-scale Preparation of N,N-Diacetyl Chitobiose.   J. Chin. Chem. Soc-Taip. 56(4):688-695.

11.Yao YY, Shrestha KL, Wu YJ, Tasi HJ, Chen CC, Yang JM, Ando A, Cheng CY*, and Li YK* (2008) Structural simulation and protein engineering to convert an endo-chitosanase to an exo-chitosanase. Protein Eng Des Sel.  21(9):561-566. 

12.Cheng CY, Chang CH, Wu YJ, and Li YK* (2006) Exploration of Glycosyl Hydrolase Family 75, a Chitosanase from Aspergillus fumigatus.  J. Biol. Chem. 281:3137-3144.
 

1.Chih-Yu Cheng*, Zhi-Feng Zhang, Jing-Ting Huang, Acharee Kaewlaoyoong and Chitsan Lin (2019) Characterization and potential of extracellular multi-enzymes of Phanerochaete chrysosporium for bioremediation of PCDD/Fs. The 25th Symposium of Young Asian Biological Engineers’Community (YABEC-2019), 2019/11/22~24,  Ewha Womans University, Seoul, Korea.

2.Chih-Yu Cheng*, Zhi-Feng Zhang, Acharee Kaewlaoyoong and Chitsan Lin. (2019) Improved Bioremediation on PCDD/Fs Contaminated Soil by Free-Mycelium Liquid Produced with Agro-industrial Residues. Challenges in Environmental Science and Engineering (CESE-2019), 2019/11/3~8, National Kaohsiung University of Science & Technology, Taiwan. p122

3.黃靖婷、李品柔、黃弘州、Mario Jens Hansen、鄭至玉 (2019) 漆酶生產菌菇之篩選、酵素生產與其最適反應活性條件分析.真菌學術研討會暨 108年度真菌學會年會, 2019/11/2, 台北. P35

4.Mario Jens Hansen, Chih-Yu Cheng* and Jenq-Renn Chen (2019) Morphological and molecular based species recognition reveals progress in description of Hypomyces amaurodermatis (Hypocreales, Ascomycota) in Taiwan. 真菌學術研討會暨 108年度真菌學會年會, 2019/11/2, 台北. p39

5.Chi-Hang Wang and Chih-Yu Cheng* (2018) The modification of Bacillus circulans MH-K1 chitosanase and its application for large-scale preparation of chitotriose. 14th International Chitin and Chitosan Conference (14th ICCC) & 12th Asia-Pacific Chitin and Chitosan Symposium (12th APCCS) 2018/8/27~2018/8/30, Senriyama Campus of Kansai University, Osaka, Japan. 2018:24(2):332

6.You-Ying Chen, Ting-Shan Yang, Heny-Ling Chu, Chih-Yu Cheng, Rey-Chang Chang (2016). Study on the Antioxidant activity and Cytotoxicity of Trionychidae (Pelodiscus Sinensis) Protein hydrolysate. January 19, 2016. 屏科大 Annual Meeting for the Fisheries Society of Taiwan (National Symposium Poster).

7.Chih-Yu Cheng* and Pei-Jyun Liou (2015) Double mutation of A174/L175 and T180/G181on Bacillus chitosanase and its effect on hydrolysate distribution. The 21th Symposium of Young Asian Biochemical Engineers' Community YABEC2015 Oct 14-16/2015, Chuncheon, Korea. pp. 23.

8.Heuy-Ling Chu, Ting-Shan Yang, Chih-Yu Cheng and Rey-Chang Chang (2015). Study on Isolation and Antioxidant activity of Trionychida (Pelodiscus Sinensis) Bioactive peptides. July 16-19, 2015. IFT (Istitute of Food Technologists) Annual meeting & food Exp.,Chicage, IL USA (International Symposium Poster)

9.Pei-Jyun Liou, Chia-Huang Tasi, Hann-Ii Wu, Chi-Hang Wang, and Chih-Yu Cheng* (2014, Nov) An efficient strategy from high-throughput in-situ screening, efficient purification to large-scale preparation of chitooligosaccharides. The 20th Symposium of Young Asian Biochemical Engineers' Community YABEC2014 Nov 6-8/2014, Chiayi, Taiwan. pp. 100.

10.Chih-yu Cheng* and Chia-Huang Tsai (2013, Aug). Effects of exo-loop and Ala174/Leu175 on hydrolysate distribution of Bacillus chitosanase. The 19 th Symposium of Young Asian Biochemical Engineers' Community, 8/7/2013-8/9/2013, Urumqi, Xinjiang, China. pp.159。

11.蔡嘉煌、陳詩予、柳佩君、鄭至玉^* 「芽孢桿菌屬甲殼素水解酶Ala174/Leu175殘基之作用對產物分布」臺灣幾丁質幾丁聚醣學會年會暨幾丁聚醣奈米生技研討會暨海峽兩岸幾丁質幾丁聚醣研討會 台灣基隆 2012/7/13 (壁報論文 化學組佳作)

12.Tsai CH, Liou PJ, and Cheng CY* “An efficient purification of recombinant Bacillus chitosanase and its application for large-scale preparation of chitosan oligosaacharide” The 9th Asia-Pacific Chitin and Chitosan Symposium (9th APCCS), 2011/8/3-2011/8/6, Nha Trang, Vietnam. (NKMU)

13.Cheng CY“Investigation of endo- and exo-type of hydrolase by protein structure simulation” Stanford University Stanford, U.S.A. August 14-15, 2010 The 10th Emerging Information and Technology Conference (EITC-2010) (oral presentation)(NKMU)

14.Chung YN, Chen WM, Chiu TF, Cheng CY, Arun AB, and Sheu SY* “Deefgea chitinilytica sp. nov., isolated from wetland in Taiwan.”  11th International Conference on Chitin and Chitosan and the 8th Asia-Pacific Chitin and Chitosan Symposium, Taipei, Taiwan, Sep. 6-9 2009 第11屆國際幾丁質幾丁聚醣學術研討會(11th ICCC)暨第8屆幾丁質幾丁聚醣學術研討會

15.Chang SW, Chung YN, Juei YS, Sheu SY, Cheng CY* “Chitin or chitosan hydrolysate detection on plate.”  11th International Conference on Chitin and Chitosan and the 8th Asia-Pacific Chitin and Chitosan Symposium, Taipei, Taiwan, Sep. 6-9 2009 第11屆國際幾丁質幾丁聚醣學術研討會(11th ICCC)暨第8屆幾丁質幾丁聚醣學術研討會( NSC 98-2313-B-022-003-)

16.Cheng CY *, Li YK, Juei YS, Wu YJ, Yao YY  “Investigation of endo- and exo-type of chitosanase by protein structure simulation” 9th International Conference of The European Chitin Society, Venice, Italy, May 23-26 2009 (NSC 97-2311-B-022-001-MY2)

17.Yao YY, Shrestha KL, Tasi HJ, Chen CC, Yang JM, Ando A, Cheng CY* and Li YK* “Structural Simulation and Protein Engineering for Converting an Endo-chitosanae to an Exochitosanase”  2008台灣幾丁質與幾丁聚醣國際研討會, Tainan, Taiwan. May 16, 2008. (NSC 97-2311-B-022-001-MY2)

18.Wu YJ, Cheng CY, Li YK “Marcescens Chi A for large-scale preparation of N,N-diacetyl chitobiose and Chi A mutant for N-acetyl glucosamine” 2008台灣幾丁質與幾丁聚醣國際研討會, Tainan, Taiwan. May 16, 2008. (NSC 97-2311-B-022-001-MY2)

19.鄭至玉*、李耀坤、吳岳進、姚月雲、蔡三進 「以蛋白質結構探討甲殼素水解酵素之內切與外切特性」2007兩岸航運暨漁業論壇 台灣高雄 2007/12/25 (oral presentation)

20.Yao YY, Tasi HJ, Wu YJ, Cheng CY, Ando A and Li YK “Structural Simulation and Protein Engineering for Converting an Endo-chitosanase to Exo-chitosanase” 20th IUBMB International Congress of Biochemistry and Molecular Biology and 11th FAOBMB Congress. Kyoto, Japan, June 18-23, 2006.
 

1. 鄭雨薇、黃靖婷、陳威志、鄭至玉 「把海洋帶回家」2019/12/4 108-1校園創意發想提案競賽-海洋特色類 優選獎
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