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基因组尺度代谢网络模型是以菌株高通量测序数据和各种组学数据为基础,模拟生物体的代谢过程,该模型能够预测菌种改造位点并指导具体实验,使菌种改造更理性、更直接和更省时。基因组尺度代谢网络模型在生物质燃料产生菌的改造方面已取得一定进展,在提高目标产物产量方面已取得一定效果。本文综述了基因组尺度代谢网络模型在生物质燃料产生菌改造中的应用,展望了其应用前景。
Abstract:Genome-scale met a bolic network model simulates the metabolic processes of living organisms and predicts the site for strain improvement to guide specific experiments which is established based on genome sequencing data and various kinds of omics data. The model makes the work of strain improvement more rational,more direct and more time-saving. Genome-scale metabolic network model has been applied in strain improvement of the biofuel-producing strains and good results have been found. In this paper,we reviewed the application of genome scale metabolic network model in the strains modification and improvement of biofuel-producing strains,and its application prospect also was predicted.
Balagurun athan B.,Jonnalagadda S.,Tan L.,and Srinivasan R.,2012,Reconstruction and analysis of a genome-scale metabolic model for Scheffersomyces stipitis,Microbial Cell Factories,11:27
Caspeta L.,Shoaie S.,Agren R.,Nookaew I.,and Nielsen J.,2012,Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in silico evaluation of their potentials,BMC Systems Biology,6:24
Chandel A.K.,Chandrasekhar G.,Silva M.B.,and Silvério da Silva S.,2012,The realm of cellulases in biorefinery development,Critical Reviews in Biotechnology,32(3):187-202
Chang D.D.,Yu Z.S.,and Zhang H.X.,2013,Progress on the construction methods of ethanol engineering strains,Zhongguo Nongxue Tongbao(Chinese Agricultural Science Bulletin),29(2):120-124(常冬冬,余志晟,张洪勋,2013,产乙醇工程菌构建方法的研究进展,中国农学通报,29(2):120-124)
Cirino P.C.,Chin J.W.,and Ingram L.O.,2006,Engineering Escherichia coli for xylitol production from glucose-xylose mixtures,Biotechnology and Bioengineering,95(6):1167-1176
Feist A.M.,Herrgard M.J.,Thiele I.,Reed J.L.,and Palsson B..,2009,Reconstruction of biochemical networks in microorganisms,Nature Reviews Microbiology,7(2):129-143
Fell D.A.,Poolman M.G.,and Gevorgyan A.,2010,Building and analysing genome-scale metabolic models,Biochemical Society Transactions,38(5):1197-1201
Fu H.H.,Xin P.Y.,Xu Y.L.,Liu Y.,Wei Y.J.,Dong J.,Cao Y.L.,and Zhou J.,2010,Bioinformatics analysis of UFGT gene from several economic plants,Jiyinzuxue Yu Yingyong Shengwuxue(Genomics and Applied Biology),30(1):92-102(付海辉,辛培尧,许玉兰,刘岩,韦援教,董娇,曹有龙,周军,2010,几种经济植物UFGT基因的生物信息学分析,基因组学与应用生物学,30(1):92-102)
Gu Y.,Jiang Y.,Wu H.,Liu X.D.,Li Z.L.,Li J.,Xiao H.,Shen Z.B.,Zhao J.B.,Yang Y.L.,Jiang W.H.,and Yang S.,2010,Current status and prospects of biobutanol manufacturing technology,Shengwu Gongcheng Xuebao(Chinese Journal of Biotechnology),26(7):914-923(顾阳,蒋宇,吴辉,刘旭东,李治林,李键,肖晗,沈兆兵,赵静波,杨蕴刘,姜卫红,杨晟,2010,生物丁醇制造技术现状和展望,生物工程学报,26(7):914-923)
Harris L.M.,Blank L.,Desai R.P.,Welker N.E.,and Papoutsakis E.T.,2001,Fermentation characterization and flux analysis of recombinant strains of Clostridium acetobutylicum with an inactivated sol R gene,Journal of Industrial Microbiology&Biotechnology,27(5):322-328
Ikeda M.,2006,Towards bacterial strains overproducing L-tryptophan and other aromatics by metabolic engineering,Appl.Microbiol.Biotechnol.,69(6):615-626
Jiang X.R.,Liu J.W.,and Li W.L.,2010,The progress in thermophile research and its application prospect in cellulosic ethanol,Shengming Kexue Yanjiu(Life Science Research),14(5):449-455(蒋西然,刘纪文,李文利,2010,嗜热菌在纤维素乙醇中的研究进展及应用前景,生命科学研究,14(5):449-455)
Jiao J.Y.,Wu M.B.,Zhao J.F.,Lin J.P.,and Yang L.R.,2012,Research advances in improvement of xylitol producing strains by genetic engineering technology,Zhongguo Shengwu Gongcheng Zazhi(China Biotechnology),32(11):124-131(焦静雨,吴绵斌,赵炯烽,林建平,杨立荣,2012,基因工程技术改造木糖醇生产菌株的研究进展,中国生物工程杂志,32(11):124-131)
Kim B.,Kim W.J.,Kim D.I.,and Lee S.Y.,2015,Applications of genome-scale metabolic network model in metabolic engineering,Journal of Industrial Microbiology&Biotechnology,42(3):339-348
Licona-Cassani C.,Marcellin E.,Quek L.E.,Jacob S.,and Nielsen L.K.,2012,Reconstruction of the Saccharopolyspora erythraea genome-scale model and its use for enhancing erythromycin production,Antonie van Leeuwenhoek,102(3):493-502
Liu L.M.,and Chen J.,2010,Reconstrution and application of genome-scale metabolic network model,Shengwu Gongcheng Xuebao(Chinese Journal of Biotechnology),26(9):1176-1186(刘立明,陈坚,2010,基因组规模代谢网络模型构建及其应用,生物工程学报,26(9):1176-1186)
Milne C.B.,Eddy J.A.,Raju R.,Ardekani S.,Kim P.J.,Senger R.S.,Jin Y.S.,Blaschek H.P.,and Price N.D.,2011,Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB8052,BMC Systems Biology,5:130
Na D.,Kim T.Y.,and Lee S.Y.,2010,Construction and optimization of synthetic pathways in metabolic engineering,Current Opinion in Microbiology,13(3):363-370
Noach I.,Levy-Assaraf M.,Lamed R.,Shimon L.J.,Frolow F.,and Bayer E.A.,2010,Modular arrangement of a cellulosomal scaffoldin subunit revealed from the crystal structure of a cohesin dyad,Journal of Molecular Biology,399(2):294-305
Osterlund T.,Nookaew I.,Bordel S.,and Nielsen J.,2013,Mapping condition-dependent regulation of metabolism in yeast through genome-scale modeling,BMC Systems Biology,7:36
Parambil L.K.,and Sarkar D.,2014,Probing the bioethanol production potential of Scheffersomyces(Pichia)stipitis using validated genome-scale model,Biotechnology Letters,36(12):2443-2451
Park J.M.,Song H.,Lee H.J.,and Seung D.,2013,In silico aided metabolic engineering of Klebsiella oxytoca and fermentation optimization for enhanced 2,3-butanediol production,Journal of Industrial Microbiology&Biotechnology,40(9):1057-1066
Roberts S.B.,Gowen C.M.,Brooks J.P.,and Fong S.S.,2010,Genome-scale metabolic analysis of Clostridium thermocellum for bioethanol production,BMC Systems Biology,4:31
Thiele I.,and Palsson B.Φ.,2010,A protocol for generating a high-quality genome-scale metabolic reconstruction,Nature Protocols,5(1):93-121
Wang Q.Z.,Wu C.Y.,Chen T.,Chen X.,and Zhao X.M.,2006,Integrating metabolomics into a systems biology framework to exploit metabolic complexity:strategies and applications in microorganisms,Applied Microbiology&Biotechnology,70(2):151-161
Widiastuti H.,Kim J.Y.,Selvarasu S.,Karimi I.A.,Kim H.,Seo J.S.,and Lee D.Y.,2011,Genome-scale modeling and in silico analysis of ethanologenic bacteria Zymomonas mobilis,Biotechnology&Bioengineering,108(3):655-665
Yanai K.,Murakami T.,and Bibb M.,2006,Amplification of the entire kanamycin biosynthetic gene cluster during empirical strain improvement of Streptomyces kanamyceticus,Proc.Natl.Acad.Sci.USA,103(25):9661-9666
Zhang J.X.,Tian S.,Liu J.K.,Zhang Y.Z.,and Yang X.S.,2008,Progress of engineered Saccharomyces cerevisiae of xylose metabolism and fermentation for ethanol production,Weishengwuxue Tongbao(Microbiology),35(4):572-576(张金鑫,田沈,刘继开,张亚珍,杨秀山,2008,代谢木糖产乙醇的酿酒酵母工程菌研究进展,微生物学通报,35(4):572-576)
基本信息:
DOI:10.13417/j.gab.035.000635
中图分类号:Q78;Q93
引用信息:
[1]刘秀梅,刘占英,张永锋.基因组尺度代谢网络模型在生物质燃料产生菌改造中的应用[J].基因组学与应用生物学,2016,35(03):635-639.DOI:10.13417/j.gab.035.000635.
基金信息:
教育部高等学校博士学科点专项科研基金;; 国家自然科学基金;; 内蒙古自治区草原英才资金共同资助
2016-03-25
2016-03-25