Haplotype variation and phylogeography of Rhizoctonia solani AG1-IA strains based on rDNA5.8S-ITS and ?-actin gene sequence analyses

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• 作者：Yong Wei (1) (2)
  Jiandong Bao (1)
  Huijuan Cao (2)
  Jing Zhai (2)
  Chatchawan Jantasuriyarat (3) (4)
  Shimin Zuo (5)
  Xuebiao Pan (5)
  Hua Wang (1)
  Bo Zhou (1) (2) (6)
  
• 关键词：Single nucleotide polymorphism ; SNP ; Rice sheath blight ; rDNA ; ITS ; ? ; actin
• 刊名：Mycological Progress
• 出版年：2014
• 出版时间：May 2014
• 年：2014
• 卷：13
• 期：2
• 页码：247-255
• 全文大小：2,843 KB
• 参考文献：1. Anderson NA (1982) The genetics and pathology of / Rhizoctonia solani. Annu Rev Phytopathol 20:329-47 CrossRef
  2. Banniza S, Rutherford MA (2001) Diversity of strains of / Rhizoctonia solani AG1-IA and their relationship to other anastomosis groups based on pectic zymograms and molecular analysis. Mycol Res 105:33-0 CrossRef
  3. Chen XJ, Wang L, Zuo SM, Wang ZB, Chen ZX, Zhang YF, Lu GD, Zhou EX, Guo ZJ, Huang SW, Pan XB (2009) Screening of varieties and isolates for identifying interaction between host and pathogen of rice sheath blight. Acta Phytopathol Sin 39:514-20
  4. Ciampi MB, Kuramae EE, Fenille RC, Meyer MC, Souza NL, Ceresini PC (2005) Intraspecific evolution of / Rhizoctonia solani AG-1 IA associated with soybean and rice in Brazil based on polymorphisms at the ITS-5.8S rDNA operon. Eur J Plant Pathol 113:183-96 CrossRef
  5. Collado-Romero M, Mercado-Blanco J, Olivares-García C, Jiménez-Díaz RM (2008) Phylogenetic analysis of / Verticillium dahlia vegetative compatibility groups. Phytopathology 98:1019-028 CrossRef
  6. Daniela HM, Meyera W (2003) Evaluation of ribosomal RNA and actin gene sequences for the identification of ascomycetous yeasts. Int J Food Microbiol 86:61-8 CrossRef
  7. de Brito RA, Manfrin MH, Sene FM (2002) Nested cladistic analysis of Brazilian populations of / Drosophila serido. Mol Phylogenet Evol 22:131-43 CrossRef
  8. Duncan S, Barton JE, O’Brien PA (1993) Analysis of variation in strains of / Rhizoctonia solani by random amplified polymorphic DNA assay. Mycol Res 97:1075-082 CrossRef
  9. Grosch R, Schneider JHM, Peth A, Waschke A, Franken P, Kofoet A, Jabaji-Hare SH (2007) Development of a specific PCR assay for the detection of / Rhizoctonia solani AG 1-IB using SCAR primers. J Appl Microbiol 102:806-19 CrossRef
  10. Helgason T, Watson IJ, Young JPW (2003) Phylogeny of the Glomerales and Diversisporales (Fungi:Glomeromycota) from actin and elongation factor 1-alpha sequences. FEMS Microbiol Lett 229:127-32 CrossRef
  11. Howard SJ, Harrison E, Bowyer P, Varga J, Denning DW (2011) Cryptic species and azole resistance in the / Aspergillus niger complex. Antimicrob Agents Ch 55:4802-809 CrossRef
  12. Khodayari M, Safaie N, Shamsbakhsh M (2009) Genetic diversity of Iranian AG1-IA isolates of / Rhizoctonia solani, the cause of rice sheath blight, using morphological and molecular markers. J Phytopathol 157:708-14 CrossRef
  13. Kuninaga S, Natusaki T, Takeuchi T, Yokosawa R (1997) Sequence variation of the rDNA-ITS regions within and between anastomosis groups in / Rhizoctonia solani. Curr Genet 32:237-43 CrossRef
  14. Lee FN, Rush MC (1983) Rice sheath blight: a major rice disease. Plant Dis 67:829-32 CrossRef
  15. Liu ZL, Sinclair JB (1993) Differentiation of intraspecific groups within anastomosis group 1 of / Rhizoctonia solani using ribosomal DNA internal transcribed spacer and isozyme comparisons. Can J Plant Pathol 15:272-80 CrossRef
  16. Lubeck M, Poulsen H (2001) UP-PCR cross blot hybridization as a tool for identification of anastomosis groups in the / Rhizoctonia solani complex. FEMS Microbiol Lett 201:83-9 CrossRef
  17. Pascual CB, Toda T, Raymondo AD, Hyakumachi M (2000) Characterization by conventional techniques and PCR of / Rhizoctonia solani strains causing banded leaf sheath blight in maize. Plant Pathol 49:108-18 CrossRef
  18. Sharon M, Kuninaga S, Hyakumachi M, Sneh B (2006) The advancing identification and classification of / Rhizoctonia spp. using molecular and biotechnological methods compared with the classical anastomosis grouping. Mycoscience 47:299-16 CrossRef
  19. Sharon M, Kuninaga S, Hyakumachi M, Naito S, Sneh B (2008) Classification of / Rhizoctonia spp. Using rDNA-ITS sequence analysis supports the genetic basis of the classical anastomosis grouping. Mycoscience 49:93-14 CrossRef
  20. Sneh B, Burpee L, Ogoshi A (1991) Identification of / Rhizoctonia species. APS, St. Paul
  21. Tajick MA, Rahimianm H, Alizadeh A (2005) Studies on population of / Rhizoctoniasolani AG1 IA strains from rice by rDNA RFLP in Mazandaran province. Iran J Plant Pathol 41:507-42
  22. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-599 CrossRef
  23. Templeton AR (1998) Nested clade analysis of phylogeographic data: testing hypotheses about gene flow and population history. Mol Ecol 7:381-97 CrossRef
  24. Toda T, Nasu H, Kageyama K, Hyakumachi M (1998) Genetic identification of the web-blight fungus ( / Rhizoctonia solani AG 1) obtained from European pear using RFLP or DNA–ITS and RAPD analysis. Res Bull Fac Agr Gifu Univ 63:1-
  25. Toda T, Hyakumachi M, Arora DK (1999) Genetic relatedness among and within different / Rhizoctonia solani anastomosis groups as assessed by RAPD, ERIC and REP-PCR. Microbiol Res 154:247-58 CrossRef
  26. Toda T, Mushika T, Hyakumachi M (2004) Development of specific PCR primers for the detection of / Rhizoctonia solani AG 2- LP from the leaf sheaths exhibiting large-patch symptom on zoysia grass. FEMS Microbiol Lett 232:67-4 CrossRef
  27. Zhang KZ, Li P, Li N, Xiang XC (2006) Research progress in germplasm, heredity and breeding of resistance to rice sheath blight. Mol Plant Breeding 4:713-20
  
• 作者单位：Yong Wei (1) (2)
  Jiandong Bao (1)
  Huijuan Cao (2)
  Jing Zhai (2)
  Chatchawan Jantasuriyarat (3) (4)
  Shimin Zuo (5)
  Xuebiao Pan (5)
  Hua Wang (1)
  Bo Zhou (1) (2) (6)
  
  1. State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
  2. Institute of Biotechniques, Zhejiang University, Hangzhou, 310019, China
  3. Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand
  4. Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University (CASTNAR, NRU-KU), Kasetsart University, Bangkok, 10900, Thailand
  5. Key Lab for Crop Genetics and Physiology of Jiangsu Province, Yangzhou University, Yangzhou, 225009, People’s Republic of China
  6. International Rice Research Institute, DAPO BOX 7777, Metro Manila, Philippines
  
• ISSN：1861-8952

文摘

The haplotype variation and phylogeography of Rhizoctonia solani AG1-IA strains were estimated using rDNA5.8S-ITS and ?-actin gene sequences. Two haplotypes of ITS sequences were revealed, designated as ITSa and ITSb. Thirty-four SNPs from the ?-actin gene, which displayed more allele discriminations than rDNA-ITS, were identified. The SNPs were used to classify R. solani into 12 haplotypes, designated as H1–H12. Most SNPs occurred at the third codon position and resulted as silent mutations. Three SNPs occurred at the first codon position and one SNP occurred at the second position, which these four SNPs causing non-synonymous mutations. According to the translational amino acid sequences, the 12 nucleotide-inferred haplotypes were further classified into 5 groups, designated as ITRL, VARI, VARL, VTRI, and VAMI. Analysis of the geographical distribution of 12 haplotypes, showed that H1 and H9 were widely distributed in all studied locations and existed simultaneously in the strains collected in most areas. The results lead to the speculation that H1 and H9 could be the founder haplotypes of ?-actin gene, and other haplotypes might be derived from them.