Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

被引：1140

作者：

Ma, Li-Jun ^{[2
]}

van der Does, H. Charlotte ^{[3
]}

Borkovich, Katherine A. ^{[4
]}

Coleman, Jeffrey J. ^{[5
]}

Daboussi, Marie-Josee ^{[6
]}

Di Pietro, Antonio ^{[7
]}

Dufresne, Marie

Freitag, Michael ^{[8
]}

Grabherr, Manfred ^{[2
]}

Henrissat, Bernard ^{[9
]}

Houterman, Petra M. ^{[3
]}

Kang, Seogchan ^{[10
]}

Shim, Won-Bo ^{[11
]}

Woloshuk, Charles ^{[12
]}

Xie, Xiaohui ^{[13
]}

Xu, Jin-Rong ^{[12
]}

Antoniw, John ^{[14
]}

Baker, Scott E. ^{[15
]}

Bluhm, Burton H. ^{[12
]}

Breakspear, Andrew ^{[1
]}

Brown, Daren W. ^{[16
]}

Butchko, Robert A. E. ^{[16
]}

Chapman, Sinead ^{[2
]}

Coulson, Richard ^{[17
]}

Coutinho, Pedro M. ^{[9
]}

Danchin, Etienne G. J. ^{[9
]}

Diener, Andrew ^{[18
]}

Gale, Liane R. ^{[1
]}

Gardiner, Donald M. ^{[19
]}

Goff, Stephen ^{[20
]}

Hammond-Kosack, Kim E. ^{[14
]}

Hilburn, Karen ^{[1
]}

Hua-Van, Aurelie ^{[6
]}

Jonkers, Wilfried ^{[3
]}

Kazan, Kemal ^{[19
]}

Kodira, Chinnappa D. ^{[2
]}

Koehrsen, Michael ^{[2
]}

Kumar, Lokesh ^{[2
]}

Lee, Yong-Hwan ^{[21
]}

Li, Liande ^{[4
]}

Manners, John M. ^{[19
]}

Miranda-Saavedra, Diego ^{[22
]}

Mukherjee, Mala ^{[11
]}

Park, Gyungsoon ^{[4
]}

Park, Jongsun ^{[21
]}

Park, Sook-Young ^{[10
]}

Proctor, Robert H. ^{[16
]}

Regev, Aviv ^{[2
]}

Carmen Ruiz-Roldan, M. ^{[7
]}

Sain, Divya ^{[4
]}

机构：

[1] Univ Minnesota, USDA ARS, St Paul, MN 55108 USA

[2] Broad Inst, Cambridge, MA 02141 USA

[3] Univ Amsterdam, NL-1098 XH Amsterdam, Netherlands

[4] Univ Calif Riverside, Riverside, CA 92521 USA

[5] Univ Arizona, Tucson, AZ 85721 USA

[6] Univ Paris 11, F-91405 Paris, France

[7] Univ Cordoba, E-14071 Cordoba, Spain

[8] Oregon State Univ, Corvallis, OR 97331 USA

[9] Univ Aix Marseille, CNRS, F-13628 Aix En Provence, France

[10] Penn State Univ, University Pk, PA 16802 USA

[11] Texas A&M Univ, College Stn, TX 77843 USA

[12] Purdue Univ, W Lafayette, IN 47907 USA

[13] Univ Calif Irvine, Irvine, CA 92697 USA

[14] Ctr Sustainable Pest & Dis Management, Harpenden AL5 2JQ, Herts, England

[15] Pacific NW Natl Lab, Richland, WA 99352 USA

[16] USDA ARS NCAUR, Peoria, IL 61604 USA

[17] European Bioinformat Inst, Cambridge CB10 1SD, England

[18] Univ Calif Los Angeles, Los Angeles, CA 90095 USA

[19] CSIRO Plant Ind, Brisbane, Qld 4067, Australia

[20] Univ Arizona, Inst BIO5, Tucson, AZ 85721 USA

[21] Seoul Natl Univ, Seoul 151742, South Korea

[22] Cambridge Inst Med Res, Cambridge CB2 0XY, England

[23] Univ Wisconsin, Madison, WI 53706 USA

[24] Cornell Univ, Ithaca, NY 14853 USA

来源：

NATURE | 2010年 / 464卷 / 7287期

基金：

美国食品与农业研究所; 美国国家科学基金会; 英国生物技术与生命科学研究理事会;

关键词：

MAXIMUM-LIKELIHOOD; OXYSPORUM; GENE; SEQUENCE; TOMATO; EXPRESSION; RESISTANCE; POLYMORPHISM; ANNOTATION; INFECTION;

D O I：

10.1038/nature08850

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Fusarium species are among the most important phytopathogenic and toxigenic fungi. To understand the molecular underpinnings of pathogenicity in the genus Fusarium, we compared the genomes of three phenotypically diverse species: Fusarium graminearum, Fusarium verticillioides and Fusarium oxysporum f. sp. lycopersici. Our analysis revealed lineage-specific (LS) genomic regions in F. oxysporum that include four entire chromosomes and account for more than one-quarter of the genome. LS regions are rich in transposons and genes with distinct evolutionary profiles but related to pathogenicity, indicative of horizontal acquisition. Experimentally, we demonstrate the transfer of two LS chromosomes between strains of F. oxysporum, converting a non-pathogenic strain into a pathogen. Transfer of LS chromosomes between otherwise genetically isolated strains explains the polyphyletic origin of host specificity and the emergence of new pathogenic lineages in F. oxysporum. These findings put the evolution of fungal pathogenicity into a new perspective.

引用

页码：367 / 373

页数：7

共 37 条

[11] Combo: a whole genome comparative browser [J].

Engels, Reinhard ;

Yu, Tamara ;

Burge, Chris ;

Mesirov, Jill P. ;

DeCaprio, David ;

Galagan, James E. .

BIOINFORMATICS, 2006, 22 (14) :1782-1783

[12] The genome sequence of the filamentous fungus Neurospora crassa [J].

Galagan, JE ;

Calvo, SE ;

Borkovich, KA ;

Selker, EU ;

Read, ND ;

Jaffe, D ;

FitzHugh, W ;

Ma, LJ ;

Smirnov, S ;

Purcell, S ;

Rehman, B ;

Elkins, T ;

Engels, R ;

Wang, SG ;

Nielsen, CB ;

Butler, J ;

Endrizzi, M ;

Qui, DY ;

Ianakiev, P ;

Pedersen, DB ;

Nelson, MA ;

Werner-Washburne, M ;

Selitrennikoff, CP ;

Kinsey, JA ;

Braun, EL ;

Zelter, A ;

Schulte, U ;

Kothe, GO ;

Jedd, G ;

Mewes, W ;

Staben, C ;

Marcotte, E ;

Greenberg, D ;

Roy, A ;

Foley, K ;

Naylor, J ;

Stabge-Thomann, N ;

Barrett, R ;

Gnerre, S ;

Kamal, M ;

Kamvysselis, M ;

Mauceli, E ;

Bielke, C ;

Rudd, S ;

Frishman, D ;

Krystofova, S ;

Rasmussen, C ;

Metzenberg, RL ;

Perkins, DD ;

Kroken, S .

NATURE, 2003, 422 (6934) :859-868

[13] Sequencing of Aspergillus nidulans and comparative analysis with A-fumigatus and A-oryzae [J].

Galagan, JE ;

Calvo, SE ;

Cuomo, C ;

Ma, LJ ;

Wortman, JR ;

Batzoglou, S ;

Lee, SI ;

Bastürkmen, M ;

Spevak, CC ;

Clutterbuck, J ;

Kapitonov, V ;

Jurka, J ;

Scazzocchio, C ;

Farman, M ;

Butler, J ;

Purcell, S ;

Harris, S ;

Braus, GH ;

Draht, O ;

Busch, S ;

D'Enfert, C ;

Bouchier, C ;

Goldman, GH ;

Bell-Pedersen, D ;

Griffiths-Jones, S ;

Doonan, JH ;

Yu, J ;

Vienken, K ;

Pain, A ;

Freitag, M ;

Selker, EU ;

Archer, DB ;

Peñalva, MA ;

Oakley, BR ;

Momany, M ;

Tanaka, T ;

Kumagai, T ;

Asai, K ;

Machida, M ;

Nierman, WC ;

Denning, DW ;

Caddick, M ;

Hynes, M ;

Paoletti, M ;

Fischer, R ;

Miller, B ;

Dyer, P ;

Sachs, MS ;

Osmani, SA ;

Birren, BW .

NATURE, 2005, 438 (7071) :1105-1115

[14] The probable center of origin of Fusarium oxysporum f. sp lycopersici VCG 0033 [J].

Gale, LR ;

Katan, T ;

Kistler, HC .

PLANT DISEASE, 2003, 87 (12) :1433-1438

[15] Massive horizontal gene transfer in bdelloid rotifers [J].

Gladyshev, Eugene A. ;

Meselson, Matthew ;

Arkhipova, Irina R. .

SCIENCE, 2008, 320 (5880) :1210-1213

[16] A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood [J].

Guindon, S ;

Gascuel, O .

SYSTEMATIC BIOLOGY, 2003, 52 (05) :696-704

[17] Expression profiles of genes encoded by the supernumerary chromosome controlling AM-toxin biosynthesis and pathogenicity in the apple pathotype of Alternaria alternata [J].

Harimoto, Yoshiaki ;

Hatta, Rieko ;

Kodama, Motoichiro ;

Yamamoto, Mikihiro ;

Otani, Hiroshi ;

Tsuge, Takashi .

MOLECULAR PLANT-MICROBE INTERACTIONS, 2007, 20 (12) :1463-1476

[18] The mixed xylem sap proteome of Fusarium oxysporum-infected tomato plants [J].

Houterman, Petra M. ;

Speijer, Dave ;

Dekker, Henk L. ;

de Koster, Chris G. ;

Cornelissen, Ben J. C. ;

Rep, Martijn .

MOLECULAR PLANT PATHOLOGY, 2007, 8 (02) :215-221

[19] The effector protein Avr2 of the xylem-colonizing fungus Fusarium oxysporum activates the tomato resistance protein I-2 intracellularly [J].

Houterman, Petra M. ;

Ma, Lisong ;

van Ooijen, Gerben ;

de Vroomen, Marianne J. ;

Cornelissen, Ben J. C. ;

Takken, Frank L. W. ;

Rep, Martijn .

PLANT JOURNAL, 2009, 58 (06) :970-978

[20] Whole-genome sequence assembly for mammalian genomes: Arachne 2 [J].

Jaffe, DB ;

Butler, J ;

Gnerre, S ;

Mauceli, E ;

Lindblad-Toh, K ;

Mesirov, JP ;

Zody, MC ;

Lander, ES .

GENOME RESEARCH, 2003, 13 (01) :91-96

← 1 2 3 4 →