Research Progress on Chitin Deacetylase

doi:10.13560/J.cnki.biotech.bull.1985.2019-0449

Abstract

Abstract: Chitin is the second largest polysaccharide to cellulose in the natural world. Chitosan is a de-acetylated derivative from chitin and has been widely used due to its fine solubility. First,a various deacetylase protein sequences from different sources were collected and aligned,then bioinformatics methods were conducted to carry out in-depth excavation and analysis of their catalytically active central domains,and the similarities and differences of biological sources,catalytic mechanisms and reaction conditions of various deacetylases with different catalytic domains were elucidated. The results showed that the studied deacetylases were mostly derived from fungi and insects,mostly belonged to the CE4 family,and had the catalytic activity center of NodB. It was easier for them to react with acetylated oligosaccharides with a polymerization degree >3,while difficult to catalyze poorly soluble polysaccharides. Most of these enzymes had the maximum enzyme activity at pH 8.0 and 40-70℃,and different divalent metal ions had different impacts on different enzymes. Finally,this paper proposed a new direction for rapid and specific screening of new enzymes,analysis of enzymatic hydrolysis mechanisms and molecular engineering from marine macrogenomic libraries,providing a new insight for researchers in the field to develop highly efficient and highly specific deacetylases.

Key words: chitin, deacetylase, catalytic domain, bioinformatics, new enzyme screening

ZHANG Yan, GUAN Fei-fei, WU Ning-feng, TIAN Jian. Research Progress on Chitin Deacetylase[J]. Biotechnology Bulletin, 2019, 35(11): 179-186.

References

[1] Rinaudo M.Chitin and chitosan:Properties and applications[J]. Progress in Polymer Science, 2006, 31(7):603-632.
[2] Dash M, Chiellini F, Ottenbrite RM, et al.Chitosan-A versatile semi-synthetic polymer in biomedical applications[J]. Progress in Polymer Science, 2011, 36(8):981-1014.
[3] Muzzarelli RA, Boudrant J, Meyer D, et al.Current views on fungal chitin/chitosan, human chitinases, food preservation, glucans, pectins and inulin:A tribute to Henri Braconnot, precursor of the carbohydrate polymers science, on the chitin bicentennial[J]. Carbohydra Polym, 2012, 87(2):995-1012.
[4] Pillai CKS, Paul W, Sharma CP.Chitin and chitosan polymers:Chemistry, solubility and fiber formation[J]. Progress in Polymer Science, 2009, 34(7):641-678.
[5] Enescu D.Use of chitosan in surface modification of textile materials[J]. Romanian Biotechnological Letters, 2008, 13(6):4037-4048.
[6] Anitha A, Sowmya S, Kumar PTS, et al.Chitin and chitosan in selected biomedical applications[J]. Progress in Polymer Science, 2014, 39(9):1644-1667.
[7] Cheung RCF, Ng TB, Wong JH, et al.Chitosan:An update on potential biomedical and pharmaceutical applications[J]. Marine Drugs, 2015, 13(8):5156-5186.
[8] Cui H, Yuan L, Lin L.Novel chitosan film embedded with liposome-encapsulated phage for biocontrol of Escherichia coli O157:H7 in beef[J]. Carbohydra Polym, 2017, 177:156-164.
[9] Batista RA, Perez Espitia PJ, Jullyana DSSQ, et al.Hydrogel as an alternative structure for food packaging systems[J]. Carbohydra Polym, 2019, 205:106-116.
[10] Olatunde OO, Benjakul S.Natural preservatives for extending the shelf-life of seafood:A revisit[J]. Comprehensive Reviews in Food Science and Food Safety, 2018, 17(6):1595-1612.
[11] Rungsardthong V, Wonputtanakul N, Kongpien N, et al.Application of fungal chitosan for clarification of apple juice[J]. Process Biochemistry, 2006, 41(3):589-593.
[12] No HK, Meyers SP, Prinyawiwatkul W, et al.Applications of chitosan for improvement of quality and shelf life of foods:A review[J]. Journal of Food Science, 2007, 72(5):R87-R100.
[13] Ngah WSW, Teong LC, Hanafiah MKM.Adsorption of dyes and heavy metal ions by chitosan composites:A review[J]. Carbohydra Polym, 2011, 83(4):1446-1456.
[14] Aranaz I, Acosta N, Civera C, et al.Cosmetics and cosmeceutical applications of chitin, chitosan and their derivatives[J]. Polymers, 2018, 10(2):E213.
[15] Kumar M.A review of chitin and chitosan applications[J]. Reactive & Functional Polymers, 2000, 46(1):1-27.
[16] Abdou ES, Nagy KSA, Elsabee MZ.Extraction and characterization of chitin and chitosan from local sources[J]. Bioresource Technology, 2008, 99(5):1359-1367.
[17] Tokuyasu K, Ono H, Ohnishikameyama M, et al.Deacetylation of chitin oligosaccharides of dp 2-4 by chitin deacetylase from Colletotrichum lindemuthianum[J]. Carbohydrate Research, 1997, 303(3):353-358.
[18] Blair DE, Schuttelkopf AW, Macrae JI, et al.Structure and metal-dependent mechanism of peptidoglycan deacetylase, a streptococcal virulence factor[J]. Proceedings of the National Academy of Sciences of the United States of America, 2005, 102(43):15429-15434.
[19] Liu Z, Gay LM, Tuveng TR, et al.Structure and function of a broadspecificity chitin deacetylase from Aspergillus nidulans FGSC A4[J]. Scientific Reports, 2017, 7(1):1746.
[20] Hirano T, Shiraishi H, Ikejima M, et al.Chitin oligosaccharide deacetylase from Shewanella baltica ATCC BAA-1091[J]. Bioscience Biotechnology and Biochemistry, 2017, 81(3):547-550.
[21] Wang Y, Niu X, Guo X, et al.Heterologous expression, characteri-zation and possible functions of the chitin deacetylases, Cda1 and Cda2, from mushroom Coprinopsis cinerea[J]. Glycobiology, 2018, 28(5):318-332.
[22] Tuveng TR, Rothweiler U, Udatha G, et al.Structure and function of a CE4 deacetylase isolated from a marine environment[J]. PLoS One, 2017, 12(11):15.
[23] Cord-Landwehr S, Melcher RLJ, Kolkenbrock S, et al.A chitin deacetylase from the endophytic fungus Pestalotiopsis sp efficiently
inactivates the elicitor activity of chitin oligomers in rice cells[J]. Scientific Reports, 2016, 6:38018.
[24] Gauthier C, Clerisse F, Dommes J, et al.Characterization and cloning of chitin deacetylases from Rhizopus circinans[J]. Protein Expression and Purification, 2008, 59(1):127-137.
[25] Zhu XY, Zhao Y, Zhang HD, et al.Characterization of the specific mode of action of a chitin deacetylase and separation of the partially acetylated chitosan oligosaccharides[J]. Marine Drugs, 2019, 17(2):E74.
[26] Li X, Wang LX, Wang X, et al.The chitin catabolic cascade in the marine bacterium Vibrio cholerae:Characterization of a unique chitin oligosaccharide deacetylase[J]. Glycobiology, 2007, 17(12):1377-1387.
[27] Pacheco N, Trombotto S, David L, et al.Activity of chitin deacetylase from Colletotrichum gloeosporioides on chitinous substrates[J]. Carbohydra Polym, 2013, 96(1):227-232.
[28] Hossbach J, Busswinkel F, Kranz A, et al.A chitin deacetylase of Podospora anserina has two functional chitin binding domains and a unique mode of action[J]. Carbohydra Polym, 2018, 183:1-10.
[29] Guex N, Peitsch MC, Schwede T.Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer:A historical perspective[J]. Electrophoresis, 2009, 30:S162-S173.
[30] Bertoni M, Kiefer F, Biasini M, et al.Modeling protein quaternary structure of homo- and hetero-oligomers beyond binary interactions by homology[J]. Scientific Reports, 2017, 7:10480.
[31] Bienert S, Waterhouse A, De Beer TP, et al.The SWISS-MODEL Repository-new features and functionality[J]. Nucleic Acids Research, 2017, 45(D1):D313-D319.
[32] Waterhouse A, Bertoni M, Bienert S, et al.SWISS-MODEL:homology modelling of protein structures and complexes[J]. Nucleic Acids Research, 2018, 46(W1):W296-W303.
[33] Benkert P, Biasini M, Schwede T.Toward the estimation of the absolute quality of individual protein structure models[J]. Bioinformatics, 2011, 27(3):343-350.
[34] Fukushima T, Kitajima T, Sekiguchi J.A polysaccharide deacetylase homologue, PdaA, in Bacillus subtilis acts as an N-acetylmuramic acid deacetylase in vitro[J]. Journal of Bacteriology, 2005, 187(4):1287-1292.
[35] Blair DE, Van Aalten DMF.Structures of Bacillus subtilis PdaA, a family 4 carbohydrate esterase, and a complex with N-acetyl-glucosamine[J]. FEBS Letters, 2004, 570(1-3):13-19.
[36] Liu JL, Jia ZJ, Li S, et al.Identification and characterization of a chitin deacetylase from a metagenomic library of deep-sea sediments of the Arctic Ocean[J]. Gene, 2016, 590(1):79-84.
[37] Ramazzina I, Cendron L, Folli C, et al.Logical identification of an allantoinase analog(puuE)recruited from polysaccharide deacetylases[J]. Journal of Biological Chemistry, 2008, 283(34):23295-23304.
[38] Yan X, Zhao D, Guo W, et al.Cloning, expression and enzymatic characterization of chitin deacetylases from Hyphantria cunea[J].
Scientia Agricultura Sinica, 2017, 50(5):849-858.
[39] Whitman WB, Coleman DC, Wiebe WJ.Prokaryotes:The unseen majority[J]. Proceedings of the National Academy of Sciences of the United States of America, 1998, 95(12):6578-6583.