Chemical Genomic Approaches to Study Model Microbes

被引:17
作者
Barker, Courtney A. [1 ,2 ]
Farha, Maya A. [1 ,2 ]
Brown, Eric D. [1 ,2 ]
机构
[1] McMaster Univ, Dept Biochem & Biomed Sci, Hamilton, ON L8N 3Z5, Canada
[2] McMaster Univ, Michael G DeGroote Inst Infect Dis Res, Hamilton, ON L8N 3Z5, Canada
来源
CHEMISTRY & BIOLOGY | 2010年 / 17卷 / 06期
基金
加拿大健康研究院;
关键词
SACCHAROMYCES-CEREVISIAE GENOME; ESCHERICHIA-COLI; DRUG DISCOVERY; STAPHYLOCOCCUS-AUREUS; EXPRESSION PROFILES; PSEUDOMONAS-AERUGINOSA; TARGET IDENTIFICATION; SMALL MOLECULES; COMPOUND-MODE; BETA-LACTONES;
D O I
10.1016/j.chembiol.2010.05.010
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Recent genome-scale analyses of genetic interactions in model microbes have revealed the inherent functional organization of the cell as a dense network of highly interconnected pathways. While classical one gene at a time paradigms offer limited insight into cellular systems, genome-scale approaches are making considerable headway. Indeed, where small organic compounds are ideal probes of biological complexity, systematic chemical genomic methods are emerging as requisite and powerful approaches to describing both the small molecule probe and network with which it interacts. Here, we highlight various chemical genomic approaches that are being pioneered in model microbes.
引用
收藏
页码:624 / 632
页数:9
相关论文
共 102 条
[1]   Identification of small molecule inhibitors of Pseudomonas aeruginosa exoenzyme S using a yeast phenotypic screen [J].
Arnoldo, Anthony ;
Curak, Jasna ;
Kittanakom, Saranya ;
Chevelev, Igor ;
Lee, Vincent T. ;
Sahebol-Amri, Mehdi ;
Koscik, Becky ;
Ljuma, Lana ;
Roy, Peter J. ;
Bedalov, Antonio ;
Giaever, Guri ;
Nislow, Corey ;
Merrill, Rod A. ;
Lory, Stephen ;
Stagljar, Igor .
PLOS GENETICS, 2008, 4 (02)
[2]   Identification by functional proteomics of a deubiquitinating/deNeddylating enzyme in Plasmodium falciparum [J].
Artavanis-Tsakonas, Katerina ;
Misaghi, Shahram ;
Comeaux, Christy A. ;
Catic, Andre ;
Spooner, Eric ;
Duraisingh, Manoj T. ;
Ploegh, Hidde L. .
MOLECULAR MICROBIOLOGY, 2006, 61 (05) :1187-1195
[3]   Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants:: the Keio collection [J].
Baba, Tomoya ;
Ara, Takeshi ;
Hasegawa, Miki ;
Takai, Yuki ;
Okumura, Yoshiko ;
Baba, Miki ;
Datsenko, Kirill A. ;
Tomita, Masaru ;
Wanner, Barry L. ;
Mori, Hirotada .
MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1) :2006.0008
[4]   Yeast genome-wide drug-induced haploinsufficiency screen to determine drug mode of action [J].
Baetz, K ;
McHardy, L ;
Gable, K ;
Tarling, T ;
Rebérioux, D ;
Bryan, J ;
Andersen, RJ ;
Dunn, T ;
Hieter, P ;
Roberge, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (13) :4525-4530
[5]   Inference of gene regulatory networks and compound mode of action from time course gene expression profiles [J].
Bansal, M ;
Della Gatta, G ;
di Bernardo, D .
BIOINFORMATICS, 2006, 22 (07) :815-822
[6]   How to infer gene networks from expression profiles [J].
Bansal, Mukesh ;
Belcastro, Vincenzo ;
Ambesi-Impiombato, Alberto ;
di Bernardo, Diego .
MOLECULAR SYSTEMS BIOLOGY, 2007, 3 (1)
[7]   Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors [J].
Bantscheff, Marcus ;
Eberhard, Dirk ;
Abraham, Yann ;
Bastuck, Sonja ;
Boesche, Markus ;
Hobson, Scott ;
Mathieson, Toby ;
Perrin, Jessica ;
Raida, Manfred ;
Rau, Christina ;
Reader, Valerie ;
Sweetman, Gavain ;
Bauer, Andreas ;
Bouwmeester, Tewis ;
Hopf, Carsten ;
Kruse, Ulrich ;
Neubauer, Gitte ;
Ramsden, Nigel ;
Rick, Jens ;
Kuster, Bernhard ;
Drewes, Gerard .
NATURE BIOTECHNOLOGY, 2007, 25 (09) :1035-1044
[8]   Activity-based protein profiling for the functional annotation of enzymes [J].
Barglow, Katherine T. ;
Cravatt, Benjamin F. .
NATURE METHODS, 2007, 4 (10) :822-827
[9]   GASP: a computer program to generate automatically polycyclic structures [J].
Barone, R ;
Barone, R ;
Arbelot, M ;
Chanon, M .
TETRAHEDRON, 2001, 57 (28) :6035-6042
[10]   Transcriptional response of Saccharomyces cerevisiae to DNA-damaging agents does not identify the genes that protect against these agents [J].
Birrell, GW ;
Brown, JA ;
Wu, HI ;
Giaever, G ;
Chu, AM ;
Davis, RW ;
Brown, JM .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (13) :8778-8783