Reconstruction and Analysis of a Genome-Scale Metabolic Model of Ganoderma lucidum for Improved Extracellular Polysaccharide Production

被引：39

作者：

Ma, Zhongbao ^{[1
,2
]}

Ye, Chao ^{[1
,2
]}

Deng, Weiwei ^{[2
]}

Xu, Mengmeng ^{[1
,2
]}

Wang, Qiong ^{[1
,2
]}

Liu, Gaoqiang ^{[3
]}

Wang, Feng ^{[4
]}

Liu, Liming ^{[1
,2
]}

Xu, Zhenghong ^{[1
,2
]}

Shi, Guiyang ^{[1
,2
]}

Ding, Zhongyang ^{[1
,2
]}

机构：

[1] Jiangnan Univ, Sch Biotechnol, Key Lab Carbohydrate Chem & Biotechnol, Minist Educ, Wuxi, Peoples R China

[2] Jiangnan Univ, Natl Engn Lab Cereal Fermentat Technol, Wuxi, Peoples R China

[3] Cent South Univ Forestry & Technol, Coll Life Sci & Technol, Key Lab Cultivat & Protect NonwWood Forest Trees, Minist Educ, Changsha, Hunan, Peoples R China

[4] Jiangsu Univ, Sch Food & Biol Engn, Zhenjiang, Peoples R China

来源：

FRONTIERS IN MICROBIOLOGY | 2018年 / 9卷

基金：

中国国家自然科学基金; 中国博士后科学基金;

关键词：

Ganoderma lucidum; extracellular polysaccharide; genome-scale metabolic model; biosynthetic pathway; phenylalanine; simulation; SUBMERGED CULTURE; FERMENTATION; EXPRESSION; COMPONENTS; DATABASE; BALANCE; GENE;

D O I：

10.3389/fmicb.2018.03076

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

In this study, we reconstructed for the first time a genome-scale metabolic model (GSMM) of Ganoderma lucidum strain CGMCC5.26, termed model iZBM1060, containing 1060 genes, 1202 metabolites, and 1404 reactions. Important findings based on model iZBM1060 and its predictions are as follows: (i) The extracellular polysaccharide (EPS) biosynthetic pathway was elucidated completely. (ii) A new fermentation strategy is proposed: addition of phenylalanine increased EPS production by 32.80% in simulations and by 38.00% in experiments. (iii) Eight genes for key enzymes were proposed for EPS overproduction. Model izBM1060 provides a useful platform for regulating EPS production in terms of system metabolic engineering for G. lucidum, as well as a guide for future metabolic pathway construction of other high value-added edible/ medicinal mushroom species.

引用

页数：12

共 35 条

[1] Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger [J].

Andersen, Mikael Rordam ;

Nielsen, Michael Lynge ;

Nielsen, Jens .

MOLECULAR SYSTEMS BIOLOGY, 2008, 4 (1) :178

[2] The Universal Protein Resource (UniProt) in 2010 [J].

Apweiler, Rolf ;

Martin, Maria Jesus ;

O'Donovan, Claire ;

Magrane, Michele ;

Alam-Faruque, Yasmin ;

Antunes, Ricardo ;

Barrell, Daniel ;

Bely, Benoit ;

Bingley, Mark ;

Binns, David ;

Bower, Lawrence ;

Browne, Paul ;

Chan, Wei Mun ;

Dimmer, Emily ;

Eberhardt, Ruth ;

Fedotov, Alexander ;

Foulger, Rebecca ;

Garavelli, John ;

Huntley, Rachael ;

Jacobsen, Julius ;

Kleen, Michael ;

Laiho, Kati ;

Leinonen, Rasko ;

Legge, Duncan ;

Lin, Quan ;

Liu, Wudong ;

Luo, Jie ;

Orchard, Sandra ;

Patient, Samuel ;

Poggioli, Diego ;

Pruess, Manuela ;

Corbett, Matt ;

di Martino, Giuseppe ;

Donnelly, Mike ;

van Rensburg, Pieter ;

Bairoch, Amos ;

Bougueleret, Lydie ;

Xenarios, Ioannis ;

Altairac, Severine ;

Auchincloss, Andrea ;

Argoud-Puy, Ghislaine ;

Axelsen, Kristian ;

Baratin, Delphine ;

Blatter, Marie-Claude ;

Boeckmann, Brigitte ;

Bolleman, Jerven ;

Bollondi, Laurent ;

Boutet, Emmanuel ;

Quintaje, Silvia Braconi ;

Breuza, Lionel .

NUCLEIC ACIDS RESEARCH, 2010, 38 :D142-D148

[3] Polysaccharides of Ganoderma lucidum:: Factors affecting their production [J].

Babitskaya, VG ;

Shcherba, VV ;

Puchkova, TA ;

Smirnov, DA .

APPLIED BIOCHEMISTRY AND MICROBIOLOGY, 2005, 41 (02) :169-173

[4] Computational identification of gene over-expression targets for metabolic engineering of taxadiene production [J].

Boghigian, Brett A. ;

Armando, John ;

Salas, Daniel ;

Pfeifer, Blaine A. .

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2012, 93 (05) :2063-2073

[5]

Caspi R, 2008, NUCLEIC ACIDS RES, V36, pD623, DOI [10.1093/nar/gkm900, 10.1093/nar/gkt1103]

[6] Genome sequence of the model medicinal mushroom Ganoderma lucidum [J].

Chen, Shilin ;

Xu, Jiang ;

Liu, Chang ;

Zhu, Yingjie ;

Nelson, David R. ;

Zhou, Shiguo ;

Li, Chunfang ;

Wang, Lizhi ;

Guo, Xu ;

Sun, Yongzhen ;

Luo, Hongmei ;

Li, Ying ;

Song, Jingyuan ;

Henrissat, Bernard ;

Levasseur, Anthony ;

Qian, Jun ;

Li, Jianqin ;

Luo, Xiang ;

Shi, Linchun ;

He, Liu ;

Xiang, Li ;

Xu, Xiaolan ;

Niu, Yunyun ;

Li, Qiushi ;

Han, Mira V. ;

Yan, Haixia ;

Zhang, Jin ;

Chen, Haimei ;

Lv, Aiping ;

Wang, Zhen ;

Liu, Mingzhu ;

Schwartz, David C. ;

Sun, Chao .

NATURE COMMUNICATIONS, 2012, 3

[7] A COLORIMETRIC METHOD FOR THE DETERMINATION OF SUGARS [J].

DUBOIS, M ;

GILLES, K ;

HAMILTON, JK ;

REBERS, PA ;

SMITH, F .

NATURE, 1951, 168 (4265) :167-167

[8] A COLORIMETRIC METHOD FOR THE DETERMINATION OF SUGARS [J].

DUBOIS, M ;

GILLES, K ;

HAMILTON, JK ;

REBERS, PA ;

SMITH, F .

NATURE, 1951, 168 (4265) :167-167

[9] Chemical features of Ganoderma polysaccharides with antioxidant, antitumor and antimicrobial activities [J].

Ferreira, Isabel C. F. R. ;

Heleno, Sandrina A. ;

Reis, Filipa S. ;

Stojkovic, Dejan ;

Queiroz, Maria Joao R. P. ;

Helena Vasconcelos, M. ;

Sokovic, Marina .

PHYTOCHEMISTRY, 2015, 114 :38-55

[10] Genome survey uncovers the secrets of sex and lifestyle in caterpillar fungus [J].

Hu Xiao ;

Zhang YongJie ;

Xiao GuoHua ;

Zheng Peng ;

Xia YongLiang ;

Zhang XingYu ;

St Leger, Raymond J. ;

Liu XingZhong ;

Wang ChengShu .

CHINESE SCIENCE BULLETIN, 2013, 58 (23) :2846-2854

← 1 2 3 4 →