Early insights into the genome sequence of Uromyces fabae

Frontiers in Plant Science

Volumn 5, Issue October, 2014, Pages

  Link, Tobias ^a   Seibel, Christian ^a   Voegele, Ralf T ^a  

^a UNIVERSITY OF HOHENHEIM   (Germany)

Author keywords

Candidate effectors; Genome size; Genome survey; RTP1 homologs; Rust fungus; Uromyces fabae

Indexed keywords

EID: 84908360621     PISSN: None     EISSN: 1664462X     Source Type: Journal    
DOI: 10.3389/fpls.2014.00587     Document Type: Article

References (27)

1. Cantu, D., Segovia, V., Maclean, D., Bayles, R., Chen, X., Kamoun, S., et al. (2013). Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors. BMC Genomics 14:270. doi: 10.1186/1471-2164-14-270
2. Catanzariti, A. M., Dodds, P. N., Lawrence, G. J., Ayliffe, M. A., and Ellis, J. G. (2006). Haustorially expressed secreted proteins from flax rust are highly enriched for avirulence elicitors. Plant Cell 18, 243-256. doi: 10.1105/tpc.105.035980
3. Deising, H., Jungblut, P. R., and Mendgen, K. (1991). Differentiation-related pro¬teins of the broad bean rust fungus Uromyces viciae-fabae, as revealed by high resolution two-dimensional polyacrylamide gel electrophoresis. Arch. Microbiol. 155, 191-198. doi: 10.1007/BF00248616
4. Djulic, A., Schmid, A., Lenz, H., Sharma, P., Koch, C., Wirsel, S. G., et al. (2011). Transient transformation of the obligate biotrophic rust fungus Uromyces fabae using biolistics. Fungal Biol. 115, 633-642. doi: 10.1016/j.funbio.2011.03.007
5. Dodds, P. N., Lawrence, G. J., Catanzariti, A. M., Teh, T., Wang, C. I., Ayliffe, M. A., et al. (2006). Direct protein interaction underlies gene-for-gene specificity and coevolution of the flax resistance genes and flax rust avirulence genes. Proc. Natl. Acad. Sci. U.S.A. 103, 8888-8893. doi: 10.1073/pnas.0602577103
6. Duplessis, S., Cuomo, C. A., Lin, Y. C., Aerts, A., Tisserant, E., Veneault-Fourrey, C., et al. (2011). Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proc. Natl. Acad. Sci. U.S.A. 108, 9166-9171. doi: 10.1073/pnas.1019315108
7. Flor, H. H. (1956). The complementary genic systems in flax and flax rust. Adv. Genet. 8, 29-54. doi: 10.1016/S0065-2660(08)60498-8
8. Hacquard, S., Joly, D. L., Lin, Y. C., Tisserant, E., Feau, N., Delaruelle, C., et al. (2012). A comprehensive analysis of genes encoding small secreted proteins identifies candidate effectors in Melampsora larici-populina (poplar leaf rust). Mol. Plant Microbe Interact. 25,279-293. doi: 10.1094/MPMI-09-11-0238
9. Hahn, M., and Mendgen, K. (1992). Isolation by ConA binding of haustoria from different rust fungi and comparison of their surface qualities. Protoplasma 170, 95-103. doi: 10.1007/BF01378785
10. Hahn, M., and Mendgen, K. (1997). Characterization of in planta-induced rust genes isolated from a haustorium-specific cDNA library. Mol. Plant Microbe Interact. 10, 427-437. doi: 10.1094/MPMI.1997.10.4.427
11. Hoff, K. J., and Stanke, M. (2013). WebAUGUSTUS-a web service for train¬ing AUGUSTUS and predicting genes in eukaryotes. Nucl. Acids Res. 41, W123-W128. doi: 10.1093/nar/gkt418
12. Jakupovic, M., Heintz, M., Reichmann, P., Mendgen, K., and Hahn, M. (2006). Microarray analysis of expressed sequence tags from haustoria of the rust fungus Uromyces fabae. Fungal Genet. Biol. 43, 8-19. doi: 10.1016/j.fgb.2005.09.001
13. Kapooria, R. G., and Mendgen, K. (1985). Infection structures and their surface changes during differentiation in Uromyces fabae. J. Phytopathol. 113, 317-323. doi: 10.1111/j.1439-0434.1985.tb04832.x
14. Kemen, E., Kemen, A., Ehlers, A., Voegele, R., and Mendgen, K. (2013). A novel structural effector from rust fungi is capable of fibril formation. Plant J. 75, 767-780. doi: 10.1111/tpj.12237
15. Kemen, E., Kemen, A. C., Rafiqi, M., Hempel, U., Mendgen, K., Hahn, M., et al. (2005). Identification of a protein from rust fungi transferred from hausto- ria into infected plant cells. Mol. Plant Microbe Interact. 18, 1130-1139. doi: 10.1094/MPMI-18-1130
16. Kolmer, J. A., Liu, J. Q., and Sies, M. (1995). Virulence and molecular polymor¬phism in Puccinia recondita f. sp. tritici in Canada. Phytopathology 85, 276-285. doi: 10.1094/Phyto-85-276
17. Link, T. I., Lang, P., Scheffler, B. E., Duke, M. V., Graham, M. A., Cooper, B., et al. (2014). The haustorial transcriptomes of Uromyces appendiculatus and Phakopsora pachyrhizi and their candidate effector families. Mol. Plant Pathol. 15, 379-393. doi: 10.1111/mpp.12099
18. Link, T. I., and Voegele, R. T. (2008). Secreted proteins of Uromyces fabae: similarities and stage specificity. Mol. Plant Pathol. 9, 59-66. doi: 10.1111/j.1364-3703.2007.00448.x
19. Maier, W., Begerow, D., Wei C. M., and Oberwinkler, F. (2003). Phylogeny of the rust fungi: an approach using nuclear large subunit ribosomal DNA sequences. Can. J.Bot. 81, 12-23. doi: 10.1139/b02-113
20. Parra, G., Bradnam, K., Ning, Z., Keane, T., and Korf, I. (2009). Assessing the gene space in draft genomes. Nucl. Acids Res. 37, 289-297. doi: 10.1093/nar/gkn916
21. Pretsch, K., Kemen, A. C., Kemen, E., Geiger, M., Mendgen, K., and Voegele, R. T. (2013). The rust transferred proteins-a new family of effector proteins exhibiting protease inhibitor function. Mol. Plant Pathol. 14, 96-107. doi: 10.1111/j.1364-3703.2012.00832.x
22. Puthoff, D. P., Neelam, A., Ehrenfried, M. L., Scheffler, B. E., Ballard, L., Song, Q., etal. (2008). Analysis of expressed sequence tags from Uromyces appendiculatus hyphae and haustoria and their comparison to sequences from other rust fungi. Phytopathology 98, 1126-1135. doi: 10.1094/PHYT0-98-10-1126
23. Rafiqi, M., Gan, P. H., Ravensdale, M., Lawrence, G. J., Ellis, J. G., Jones, D. A., et al. (2010). Internalization of flaxrust avirulence proteins into flaxandtobacco cells can occur in the absence of the pathogen. Plant Cell 22, 2017-2032. doi: 10.1105/tpc.109.072983
24. Sohn, J., Voegele, R. T., Mendgen, K., and Hahn, M. (2000). High level activation of vitamin B1 biosynthesis genes in haustoria of the rust fungus Uromyces fabae. Mol. Plant Microbe Interact. 13, 629-636. doi: 10.1094/MPMI.2000.13.6.629
25. Tavares, S., Ramos, A. P., Pires, A. S., Azinheira, H. G., Caldeirinha, P., Link, T., et al. (2014). Genome size analysis of Pucciniales reveal the largest fungal genomes. Front. PlantSci. 5:422. doi: 10.3389/fpls.2014.00422
26. Voegele, R. T., Struck, C., Hahn, M., and Mendgen, K. (2001). The role ofhaustoria in sugar supply during infection of broad bean by the rust fungus Uromyces fabae. Proc. Natl. Acad. Sci. U.S.A. 98, 8133-8138. doi: 10.1073/pnas.131186798
27. Zheng, W., Huang, L., Huang, J., Wang, X., Chen, X., Zhao, J., et al. (2013). High genome heterozygosity and endemic genetic recombination in the wheat stripe rust fungus. Nat. Commun. 4, 2673. doi: 10.1038/ncomms3673