Next-generation genomics of Pseudomonas syringae

被引：30

作者：

O'Brien, Heath E. ^{[1
]}

Desveaux, Darrell ^{[1
,2
]}

Guttman, David S. ^{[1
,2
]}

机构：

[1] Univ Toronto, Dept Cell & Syst Biol, Toronto, ON M5S 3B2, Canada

[2] Univ Toronto, Ctr Anal Genome Evolut & Funct, Toronto, ON M5S 3B2, Canada

来源：

CURRENT OPINION IN MICROBIOLOGY | 2011年 / 14卷 / 01期

基金：

加拿大自然科学与工程研究理事会;

关键词：

SEQUENCE; VIRULENCE; PATHOGEN; EVOLUTION; EFFECTOR; REVEALS; GENES; ARABIDOPSIS; ALGINATE; ACCURATE;

D O I：

10.1016/j.mib.2010.12.007

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

The first wave of Pseudomonas syringae next-generation genomic studies has revealed insights into host-specific virulence and immunity, genome dynamics and evolution, and genetic and metabolic specialization. These studies have further enhanced our understanding of type III effector diversity, identified an atypical type III secretion system (T3SS) in a new clade of nonpathogenic P. syringae, identified metabolic pathways common to pathogens of woody hosts and revealed extensive genomic diversity among strains that infect common hosts. In general, these discoveries have illustrated the utility of draft genome sequencing for quickly and economically identifying candidate loci for more refined genetic and functional analyses.

引用

页码：24 / 30

页数：7

共 37 条

[1] The Pseudomonas syringae Hrp pathogenicity island has a tripartite mosaic structure composed of a cluster of type III secretion genes bounded by exchangeable effector and conserved effector loci that contribute to parasitic fitness and pathogenicity in plants [J].

Alfano, JR ;

Charkowski, AO ;

Deng, WL ;

Badel, JL ;

Petnicki-Ocwieja, T ;

van Dijk, K ;

Collmer, A .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2000, 97 (09) :4856-4861

[2] PAMDB, A Multilocus Sequence Typing and Analysis Database and Website for Plant-Associated Microbes [J].

Almeida, Nalvo F. ;

Yan, Shuangchun ;

Cai, Rongman ;

Clarke, Christopher R. ;

Morris, Cindy E. ;

Schaad, Norman W. ;

Schuenzel, Erin L. ;

Lacy, George H. ;

Sun, Xiaoan ;

Jones, Jeffrey B. ;

Castillo, Jose A. ;

Bull, Carolee T. ;

Leman, Scotland ;

Guttman, David S. ;

Setubal, Joao C. ;

Vinatzer, Boris A. .

PHYTOPATHOLOGY, 2010, 100 (03) :208-215

[3] A Draft Genome Sequence of Pseudomonas syringae pv. tomato T1 Reveals a Type III Effector Repertoire Significantly Divergent from That of Pseudomonas syringae pv. tomato DC3000 [J].

Almeida, Nalvo F. ;

Yan, Shuangchun ;

Lindeberg, Magdalen ;

Studholme, David J. ;

Schneider, David J. ;

Condon, Bradford ;

Liu, Haijie ;

Viana, Carlos J. ;

Warren, Andrew ;

Evans, Clive ;

Kemen, Eric ;

MacLean, Dan ;

Angot, Aurelie ;

Martin, Gregory B. ;

Jones, Jonathan D. ;

Collmer, Alan ;

Setubal, Joao C. ;

Vinatzer, Boris A. .

MOLECULAR PLANT-MICROBE INTERACTIONS, 2009, 22 (01) :52-62

[4] Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative [J].

Anisimova, Maria ;

Gascuel, Olivier .

SYSTEMATIC BIOLOGY, 2006, 55 (04) :539-552

[5] The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000 [J].

Buell, CR ;

Joardar, V ;

Lindeberg, M ;

Selengut, J ;

Paulsen, IT ;

Gwinn, ML ;

Dodson, RJ ;

Deboy, RT ;

Durkin, AS ;

Kolonay, JF ;

Madupu, R ;

Daugherty, S ;

Brinkac, L ;

Beanan, MJ ;

Haft, DH ;

Nelson, WC ;

Davidsen, T ;

Zafar, N ;

Zhou, LW ;

Liu, J ;

Yuan, QP ;

Khouri, H ;

Fedorova, N ;

Tran, B ;

Russell, D ;

Berry, K ;

Utterback, T ;

Van Aken, SE ;

Feldblyum, TV ;

D'Ascenzo, M ;

Deng, WL ;

Ramos, AR ;

Alfano, JR ;

Cartinhour, S ;

Chatterjee, AK ;

Delaney, TP ;

Lazarowitz, SG ;

Martin, GB ;

Schneider, DJ ;

Tang, XY ;

Bender, CL ;

White, O ;

Fraser, CM ;

Collmer, A .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (18) :10181-10186

[6] Pseudomonas syringae Strains Naturally Lacking the Classical P-syringae hrp/hrc Locus Are Common Leaf Colonizers Equipped with an Atypical Type III Secretion System [J].

Clarke, Christopher R. ;

Cai, Rongman ;

Studholme, David J. ;

Guttman, David S. ;

Vinatzer, Boris A. .

MOLECULAR PLANT-MICROBE INTERACTIONS, 2010, 23 (02) :198-210

[7] De novo assembly of the Pseudomonas syringae pv. syringae B728a genome using Illumina/Solexa short sequence reads [J].

Farrer, Rhys A. ;

Kemen, Eric ;

Jones, Jonathan D. G. ;

Studholme, David J. .

FEMS MICROBIOLOGY LETTERS, 2009, 291 (01) :103-111

[8] Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000 [J].

Feil, H ;

Feil, WS ;

Chain, P ;

Larimer, F ;

DiBartolo, G ;

Copeland, A ;

Lykidis, A ;

Trong, S ;

Nolan, M ;

Goltsman, E ;

Thiel, J ;

Malfatti, S ;

Loper, JE ;

Lapidus, A ;

Detter, JC ;

Land, M ;

Richardson, PM ;

Kyrpides, NC ;

Ivanova, N ;

Lindow, SE .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (31) :11064-11069

[9] Protein delivery into eukaryotic cells by type III secretion machines [J].

Galan, Jorge E. ;

Wolf-Watz, Hans .

NATURE, 2006, 444 (7119) :567-573

[10] Comparative Genome Analysis Provides Insights into the Evolution and Adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum [J].

Green, Sarah ;

Studholme, David J. ;

Laue, Bridget E. ;

Dorati, Federico ;

Lovell, Helen ;

Arnold, Dawn ;

Cottrell, Joan E. ;

Bridgett, Stephen ;

Blaxter, Mark ;

Huitema, Edgar ;

Thwaites, Richard ;

Sharp, Paul M. ;

Jackson, Robert W. ;

Kamoun, Sophien .

PLOS ONE, 2010, 5 (04)

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