Highly diverse endophytic and soil Fusarium oxysporum populations associated with field-grown tomato plants

Applied and Environmental Microbiology

Volumn 81, Issue 1, 2015, Pages 81-90

  Demers, Jill E ^a   Gugino, Beth K ^a   Jiménez Gasco, María del Mar ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGI; SOILS;

FUSARIUM OXYSPORUMS; GENETIC DIFFERENTIATION; MULTIPLE SEQUENCES; POPULATION GENETICS; SOIL SAMPLE; TOMATO FIELDS; TOMATO PLANTS; TRANSLATION ELONGATION;

FRUITS;

CLADISTICS; COMMUNITY COMPOSITION; DNA; GENETIC DIFFERENTIATION; PLANT COMMUNITY; POPULATION STRUCTURE; SOIL BIOTA; SPECIALIZATION; VEGETABLE;

FUSARIUM OXYSPORUM; LYCOPERSICON ESCULENTUM;

ELONGATION FACTOR 1; FUNGAL DNA;

CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; ENDOPHYTE; FUSARIUM; GENETIC VARIABILITY; GENETICS; GENOTYPE; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; TOMATO;

CLUSTER ANALYSIS; DNA, FUNGAL; ENDOPHYTES; FUSARIUM; GENETIC VARIATION; GENOTYPE; LYCOPERSICON ESCULENTUM; MOLECULAR SEQUENCE DATA; PEPTIDE ELONGATION FACTOR 1; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

EID: 84917708715     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.02590-14     Document Type: Article

References (47)

1. Stoner MF. 1981. Ecology of Fusarium in noncultivated soils, p 276-286. In Nelson PE, Toussoun TA, Cook RJ (ed), Fusarium: diseases, biology, and taxonomy. The Pennsylvania State University, University Park, PA.
2. Kuldau GA, Yates IE. 2000. Evidence for Fusarium endophytes in cultivated and wild plants, p 85-117. In Bacon CW, White JF, Jr (ed), Microbial endophytes. Marcel Dekker, New York, NY.
3. Olivain C, Alabouvette C. 1999. Process of tomato root colonization by a pathogenic strain of Fusarium oxysporum f. sp. lycopersici in comparison with a non-pathogenic strain. New Phytol 141:497-510. http://dx.doi.org/10.1046/j.1469-8137.1999.00365.x.
4. Olivain C, Trouvelot S, Binet MN, Cordier C, Pugin A, Alabouvette C. 2003. Colonization of flax roots and early physiological responses of flax cells inoculated with pathogenic and nonpathogenic strains of Fusarium oxysporum. Appl Environ Microbiol 69:5453-5462. http://dx.doi.org/10.1128/AEM.69.9.5453-5462.2003.
5. Baayen RP. 1988. Responses related to lignification and intravascular periderm formation in carnations resistant to Fusarium wilt. Can J Bot 66:784-792. http://dx.doi.org/10.1139/b88-115.
6. Beckman CH, Mueller WC, Tessier BJ, Harrison NA. 1982. Recognition and callose deposition in response to vascular infection in Fusarium wiltresistant or susceptible tomato plants. Physiol Plant Pathol 20:1-10. http://dx.doi.org/10.1016/0048-4059(82)90018-2.
7. Harling R, Taylor GS. 1985. A light microscope study of resistant and susceptible carnations infected with Fusarium oxysporum f. sp. dianthi. Can J Bot 63:638-646. http://dx.doi.org/10.1139/b85-080.
8. Benhamou N, Garand C. 2001. Cytological analysis of defense-related mechanisms induced in pea root tissues in response to colonization by nonpathogenic Fusarium oxysporum Fo47. Phytopathology 91:730-740. http://dx.doi.org/10.1094/PHYTO.2001.91.8.730.
9. Leoni C, de Vries M, Ter Braak CJF, van Bruggen AHC, Rossing WAH. 2013. Fusarium oxysporum f. sp. cepae dynamics: in-plant multiplication and crop sequence simulations. Eur J Plant Pathol 137:545-561. http://dx.doi.org/10.1007/s10658-013-0268-6.
10. Katan J. 1971. Symptomless carriers of the tomato Fusarium wilt pathogen. Phytopathology 61:1213-1217. http://dx.doi.org/10.1094/Phyto-61-1213.
11. Appel DJ, Gordon TR. 1994. Local and regional variation in populations of Fusarium oxysporum from agricultural field soils. Phytopathology 84: 786-791. http://dx.doi.org/10.1094/Phyto-84-786.
12. Correll JC, Puhalla JE, Schneider RW. 1986. Vegetative compatibility groups among nonpathogenic root-colonizing strains of Fusarium oxysporum. Can J Bot 64:2358-2361. http://dx.doi.org/10.1139/b86-310.
13. Elias KS, Schneider RW, Lear MM. 1991. Analysis of vegetative compatibility groups in nonpathogenic populations of Fusarium oxysporum isolated from symptomless tomato roots. Can J Bot 69:2089-2094. http://dx.doi.org/10.1139/b91-263.
14. Katan T, Katan J. 1988. Vegetative compatibility grouping of Fusarium oxysporum f. sp. vasinfectum from tissue and the rhizosphere of cotton plants. Phytopathology 78:852-855. http://dx.doi.org/10.1094/Phyto-78-852.
15. Katan T, Berliner R, Katan J. 1994. Vegetative compatibility in populations of Fusarium oxysporum from wild carnation. Mycol Res 98:1415-1418. http://dx.doi.org/10.1016/S0953-7562(09)81072-1.
16. O'Donnell K, Gueidan C, Sink S, Johnston PR, Crous PW, Glenn A, Riley R, Zitomer NC, Colyer P, Waalwijk C, Lee TVD, Moretti A, Kang S, Kim H-S, Geiser DM, Juba JH, Baayen RP, Cromey MG, Bithell S, Sutton DA, Skovgaard K, Ploetz R, Kistler HC, Elliott M, Davis M, Sarver BAJ. 2009. A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex. Fungal Genet Biol 46:936-948. http://dx.doi.org/10.1016/j.fgb.2009.08.006.
17. Balmas V, Migheli Q, Scherm B, Garau P, O'Donnell K, Ceccherelli G, Kang S, Geiser DM. 2010. Multilocus phylogenetics show high levels of endemic fusaria inhabiting Sardinian soils (Tyrrhenian Islands). Mycologia 102:803-812. http://dx.doi.org/10.3852/09-201.
18. Laurence MH, Burgess LW, Summerell BA, Liew ECY. 2012. High levels of diversity in Fusarium oxysporum from non-cultivated ecosystems in Australia. Fungal Biol 116:289-297. http://dx.doi.org/10.1016/j.funbio.2011.11.011.
19. Edel V, Steinberg C, Gautheron N, Recorbet G, Alabouvette C. 2001. Genetic diversity of Fusarium oxysporum populations isolated from different soils in France. FEMS Microbiol Ecol 36:61-71. http://dx.doi.org/10.1111/j.1574-6941.2001.tb00826.x.
20. Gordon TR, Okamoto D. 1992. Variation within and between populations of Fusarium oxysporum based on vegetative compatibility and mitochondrial DNA. Can J Bot 70:1211-1217. http://dx.doi.org/10.1139/b92-152.
21. Gordon TR, Okamoto D, Milgroom MG. 1992. The structure and interrelationship of fungal populations in native and cultivated soils. Mol Ecol 1:241-249. http://dx.doi.org/10.1111/j.1365-294X.1992.tb00183.x.
22. Edel V, Steinberg C, Gautheron N, Alabouvette C. 1997. Populations of nonpathogenic Fusarium oxysporum associated with roots of four plant species compared to soilborne populations. Phytopathology 87:693-697. http://dx.doi.org/10.1094/PHYTO.1997.87.7.693.
23. Alves-Santos FM, Benito EP, Eslava AP, Díaz-Mínguez JM. 1999. Genetic diversity of Fusarium oxysporum strains from common bean fields in Spain. Appl Environ Microbiol 65:3335-3340.
24. Lori G, Edel-Hermann V, Gautheron N, Alabouvette C. 2004. Genetic diversity of pathogenic and nonpathogenic populations of Fusarium oxysporum isolated from carnation fields in Argentina. Phytopathology 94: 661-668. http://dx.doi.org/10.1094/PHYTO.2004.94.6.661.
25. Fiely MB, Correll JC, Morelock TE. 1995. Vegetative compatibility, pathogenicity, and virulence diversity of Fusarium oxysporum recovered from spinach. Plant Dis 79:990-993. http://dx.doi.org/10.1094/PD-79-0990.
26. Bao J, Fravel D, Lazarovits G, Chellemi D, van Berkum P, O'Neill N. 2004. Biocontrol genotypes of Fusarium oxysporum from tomato fields in Florida. Phytoparasitica 32:9-20.
27. Larkin RP, Fravel DR. 1998. Efficacy of various fungal and bacterial biocontrol organisms for control of Fusarium wilt of tomato. Plant Dis 82:1022-1028. http://dx.doi.org/10.1094/PDIS.1998.82.9.1022.
28. Postma J, Luttikholt AJG. 1996. Colonization of carnation stems by a nonpathogenic isolate of Fusarium oxysporum and its effect on Fusarium oxysporum f. sp. dianthi. Can J Bot 74:1841-1851. http://dx.doi.org/10.1139/b96-221.
29. Nash SM, Snyder WC. 1962. Quantitative estimations by plate counts of propagules of bean root rot Fusarium in field soils. Phytopathology 52: 567-572.
30. Cenis JL. 1992. Rapid extraction of fungal DNA for PCR amplification. Nucleic Acids Res 20:2380. http://dx.doi.org/10.1093/nar/20.9.2380.
31. Geiser DM, Jiménez-Gasco MM, Kang S, Makalowska I, Veeraraghavan N, Ward TJ, Zhang N, Kuldau GA, O'Donnell K. 2004. FUSARIUM-ID v. 1.0: a DNA sequence database for identifying Fusarium. Eur J Plant Pathol 110: 473-479. http://dx.doi.org/10.1023/B:EJPP.0000032386.75915.a0.
32. Peakall R, Smouse PE. 2006. GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol Notes 6:288-295. http://dx.doi.org/10.1111/j.1471-8286.2005.01155.x.
33. Sherwin WB, Jabot F, Rush R, Rossetto M. 2006. Measurement of biological information with applications from genes to landscapes. Mol Ecol 15:2857-2869. http://dx.doi.org/10.1111/j.1365-294X.2006.02992.x.
34. Hudson RR. 2000. A new statistic for detecting genetic differentiation. Genetics 155:2011-2014.
35. Hudson RR, Boos DB, Kaplan NL. 1992. A statistical test for detecting geographic subdivision. Mol Biol Evol 9:138-151.
36. Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452. http://dx.doi.org/10.1093/bioinformatics/btp187.
37. Lozupone C, Hamady M, Knight R. 2006. UniFrac-an online tool for comparing microbial community diversity in a phylogenetic context. BMC Bioinformatics 7:371. http://dx.doi.org/10.1186/1471-2105-7-371.
38. Clement M, Posada D, Crandall K. 2000. TCS: a computer program to estimate gene genealogies. Mol Ecol 9:1657-1660. http://dx.doi.org/10.1046/j.1365-294x.2000.01020.x.
39. Baayen RP, O'Donnell K, Bonants PJM, Cigelnik E, Kroon LPNM, Roebroeck EJA, Waalwijk C. 2000. Gene genealogies and AFLP analyses in the Fusarium oxysporum complex identify monophyletic and nonmonophyletic formae speciales causing wilt and rot disease. Phytopathology 90:891-900. http://dx.doi.org/10.1094/PHYTO.2000.90.8.891.
40. O'Donnell K, Kistler HC, Cigelnik E, Ploetz RC. 1998. Multiple evolutionary origins of the fungus causing Panama disease of banana: concordant evidence from nuclear and mitochondrial gene genealogies. Proc Natl Acad Sci U S A 95:2044-2049. http://dx.doi.org/10.1073/pnas.95.5.2044.
41. Krebs CJ. 1972. Ecology: the experimental analysis of distribution and analysis. Harper and Row, New York, NY.
42. Appel DJ, Gordon TR. 1996. Relationships among pathogenic and nonpathogenic isolates of Fusarium oxysporum based on the partial sequence of the intergenic spacer region of the ribosomal DNA. Mol Plant Microbe Interact 9:125-138. http://dx.doi.org/10.1094/MPMI-9-0125.
43. Meyer JA, Maraite H. 1971. Multiple infection and symptom mitigation in vascular wilt diseases. Trans Br Mycol Soc 57:371-377. http://dx.doi.org/10.1016/S0007-1536(71)80051-7.
44. Olivain C, Humbert C, Nahalkova J, Fatehi J, L'Haridon F, Alabouvette C. 2006. Colonization of tomato root by pathogenic and nonpathogenic Fusarium oxysporum strains inoculated together and separately into the soil. Appl Environ Microbiol 72:1523-1531. http://dx.doi.org/10.1128/AEM.72.2.1523-1531.2006.
45. Skovgaard K, Bødker L, Rosendahl S. 2002. Population structure and pathogenicity of members of the Fusarium oxysporum complex isolated from soil and root necrosis of pea (Pisum sativum L.). FEMS Microbiol Ecol 42:367-374. http://dx.doi.org/10.1111/j.1574-6941.2002.tb01026.x.
46. Alabouvette C. 1990. Biological control of Fusarium wilt pathogens in suppressive soils, p 27-43. In Hornby D (ed), Biological control of soilborne plant pathogens. CAB International, Wallingford, United Kingdom.
47. Helbig JB, Carroll RB. 1984. Dicotyledonous weeds as a source of Fusarium oxysporum pathogenic on soybean. Plant Dis 68:694-696. http://dx.doi.org/10.1094/PD-68-694.