Genetic diversity and evolution of two capsid protein genes of citrus tristeza virus isolates from China

详细信息    查看全文

• 作者：Guan-Wei Wu (1) (2)
  Min Tang (2)
  Guo-Ping Wang (1) (2)
  Feng-Yin Jin (2)
  Zuo-Kun Yang (2)
  Li-Jing Cheng (2)
  Ni Hong (1) (2)
  
  1. National Key Laboratory of Agromicrobiology ; Huazhong Agricultural University ; Wuhan ; 430070 ; Hubei ; China
  2. Key Laboratory of Crop Disease Monitoring and Safety Control in Hubei Province ; College of Plant Science and Technology ; Huazhong Agricultural University ; Wuhan ; 430070 ; Hubei ; China
  
• 刊名：Archives of Virology
• 出版年：2015
• 出版时间：March 2015
• 年：2015
• 卷：160
• 期：3
• 页码：787-794
• 全文大小：460 KB
• 参考文献：1. Atta, S, Zhou, CY, Zhou, Y, Cao, MJ, Wang, XF (2012) Distribution and research advances of Citrus tristeza virus. J Integr Agr 11: pp. 346-358 CrossRef
  2. Barzegar, A, Rahimian, H, Sohi, HH (2010) Comparison of the minor coat protein gene sequences of aphid-transmissible and -nontransmissible isolates of Citrus tristeza virus. J Gen Plant Pathol 76: pp. 143-151 CrossRef
  3. Brlansky, RH, Roy, A, Damsteegt, VD (2011) Stem-pitting Citrus tristeza virus predominantly transmitted by the brown citrus aphid from mixed infections containing non-stem-pitting and stem-pitting isolates. Plant Dis 95: pp. 913-920 CrossRef
  4. Chen, AYS, Walker, GP, Carter, D, Ng, JCK (2011) A virus capsid component mediates virion retention and transmission by its insect vector. Proc Natl Acad Sci USA 108: pp. 16777-16782 CrossRef
  5. Febres, VJ, Ashoulin, L, Mawassi, M, Frank, A, Bar-Joseph, M, Manjunath, KL, Lee, RF, Niblett, CL (1996) The p27 protein is present at one end of Citrus tristeza virus particles. Phytopathology 86: pp. 1331-1335
  6. Harper, SJ, Dawson, TE, Pearson, MN (2010) Isolates of Citrus tristeza virus that overcome Poncirus trifoliata resistance comprise a novel strain. Arch Virol 155: pp. 471-480 CrossRef
  7. Harper, SJ (2013) Citrus tristeza virus: Evolution of complex and varied genotypic groups. Front. Microbiol 4: pp. 93
  8. Hilf, ME, Karasev, AV, Albiach-Marti, MR, Dawson, WO, Garnsey, SM (1999) Two paths of sequence divergence in the Citrus tristeza virus complex. Phytopathology 89: pp. 336-342 CrossRef
  9. Hilf, ME, Mavrodieva, VA, Garnsey, SM (2005) Genetic marker analysis of a global collection of isolates of Citrus tristeza virus: characterization and distribution of CTV genotypes and association with symptoms. Phytopathology 95: pp. 909-917 CrossRef
  10. Jiang, B, Hong, N, Wang, GP, Hu, J, Zhang, JK, Wang, CX, Liu, Y, Fan, XD (2008) Characterization of Citrus tristeza virus strains from southern China based on analysis of restriction patterns and sequences of their coat protein genes. Virus Genes 37: pp. 185-192 CrossRef
  11. Karasev, AV, Boyko, VP, Gowda, S, Nikolaeva, OV, Hilf, ME, Koonin, EV, Niblett, CL, Cline, K, Gumpf, DJ, Lee, RF, Garnsey, SM, Lewandowski, DJ, Dawson, WO (1995) Complete sequence of the Citrus tristeza virus RNA genome. Virology 208: pp. 511-520 CrossRef
  12. Librado, P, Rozas, J (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: pp. 1451-1452 CrossRef
  13. Martin, DP, Lemey, P, Lott, M, Moulton, V, Posada, D, Lefeuvre, P (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26: pp. 2462-2463 CrossRef
  14. Martin, S, Sambade, A, Rubio, L, Vives, MC, Moya, P, Guerri, J, Elena, SF, Moreno, P (2009) Contribution of recombination and selection to molecular evolution of Citrus tristeza virus. J Gen Virol 90: pp. 1527-1538 CrossRef
  15. Maydt, J, Lengauer, T (2006) Recco: recombination analysis using cost optimization. Bioinformatics 22: pp. 1064-1071 CrossRef
  16. Melzer, MJ, Borth, WB, Sether, DM, Ferreira, S, Gonsalves, D, Hu, JS (2010) Genetic diversity and evidence for recent modular recombination in Hawaiian Citrus tristeza virus. Virus Genes 40: pp. 111-118 CrossRef
  17. Moreno, P, Ambros, S, Albiach-Marti, MR, Guerri, J, Pena, L (2008) Plant diseases that changed the world鈥擟itrus tristeza virus: a pathogen that changed the course of the citrus industry. Mol Plant Pathol 9: pp. 251-268 CrossRef
  18. Oliveros-Garay, OA, Martinez-Salazar, N, Torres-Ruiz, Y, Acosta, O (2009) CPm gene diversity in field isolates of Citrus tristeza virus from Colombia. Arch Virol 154: pp. 1933-1937 CrossRef
  19. Posada, D, Crandall, KA (2002) The effect of recombination on the accuracy of phylogeny estimation. J Mol Evol 54: pp. 396-402 CrossRef
  20. Roy, A, Brlansky, RH (2009) Population dynamics of a Florida Citrus tristeza virus isolate and aphid-transmitted subisolates: identification of three genotypic groups and recombinants after aphid transmission. Phytopathology 99: pp. 1297-1306 CrossRef
  21. Roy, A, Brlansky, RH (2010) Genome analysis of an orange stem pitting Citrus tristeza virus isolate reveals a novel recombinant genotype. Virus Res 151: pp. 118-130 CrossRef
  22. Rubio, L, Ayll贸n, MaA, Kong, P, Fern谩ndez, A, Polek, M, Guerri, J, Moreno, P, Falk, BW (2001) Genetic variation of Citrus tristeza virus isolates from California and Spain: evidence for mixed infections and recombination. J Virol 75: pp. 8054-8062 CrossRef
  23. Rubio, L, Guerri, J, Moreno, P (2013) Genetic variability and evolutionary dynamics of viruses of the family Closteroviridae. Front Microbiol 4: pp. 151
  24. Satyanarayana, T, Gowda, S, Ayll贸n, MA, Dawson, WO (2004) Closterovirus bipolar virion: evidence for initiation of assembly by minor coat protein and its restriction to the genomic RNA 5鈥?region. Proc Natl Acad Sci USA 101: pp. 799-804 CrossRef
  25. Tamura, K, Peterson, D, Peterson, N, Stecher, G, Nei, M, Kumar, S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: pp. 2731-2739 CrossRef
  26. Velazquez-Monreal, JJ, Mathews, DM, Dodds, JA (2009) Segregation of distinct variants from Citrus tristeza virus isolate SY568 using aphid transmission. Phytopathology 99: pp. 1168-1176 CrossRef
  27. Weng, Z, Barthelson, R, Gowda, S, Hilf, ME, Dawson, WO, Galbraith, DW, Xiong, Z (2007) Persistent infection and promiscuous recombination of multiple genotypes of an RNA virus within a single host generate extensive diversity. PLoS ONE 2: pp. e917 CrossRef
  28. Wu, GW, Pan, S, Wang, GP, Tang, M, Liu, Y, Yang, F, Hong, N (2013) The genotypes of Citrus tristeza virus isolates from China revealed by sequence analysis of multiple molecular markers. Arch Virol 158: pp. 231-235 CrossRef
  29. Zhou, Y, Zhou, CY, Song, Z, Liu, KH, Yang, FY (2007) Characterization of Citrus tristeza virus isolates by indicators and molecular biology methods. Agric Sci China 6: pp. 573-579 CrossRef
  
• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Biomedicine
  Virology
  Medical Microbiology
  Infectious Diseases
  
• 出版者：Springer Wien
• ISSN：1432-8798

文摘

The genetic diversity and population structure of citrus tristeza virus (CTV) isolates from China were investigated based on partial sequences spanning the C-terminal end of p61 and the complete sequences of the CPm and CP genes. Phylogenetic analysis revealed five known groups (RB, T30, T36, HA and VT) and one new group (VI) consisting of only Chinese CTV isolates. Incongruent phylogenetic trees coupled with recombination analysis suggested several recombination events in the CPm gene. Positive selection was detected at codon 9 of CPm and codons 31, 41 and 68 of CP. The widespread CTV subpopulation AT-1 found in China has a unique amino acid insertion at the C-terminus of p61, which could increase CTV population complexity with implications for the evolutionary history of the virus. Our results suggest relevant roles for gene flow, purifying selection and recombination in shaping the CTV population in China.