An avirulent R. solanacearum strain named FJAT-1458 was isolated from living tomato vessel and it showed no toxicity to tomato, pepper and eggplant. Multilocus sequence analysis (MLSA) based on eight genes (egl, hrpB, mutS, pehA, recA, rpoA, rpoB and rpoC) and whole genome average nucleotide identity (ANI) analysis suggested that strain FJAT-1458 belong to phylotype I. Genome sequence of the strain FJAT-1458 revealed a circular chromosome and a circular megaplasmid with whole genome size of 6,059,899 bp and GC content of 66.78%. Functional annotation of FJAT-1458 showed a total of 5,442 genes, with 5,166 protein-encoding genes, 202 pseudogenes and 74 noncoding RNA genes. Among which, 3,938 protein-coding genes can be assigned to 23 COG families, and 1,521 of them had KEGG orthologs. Prophage prediction using PHASTER revealed 12 prophages, including 7 intact, 1 questionable and 4 incomplete prophages. Comparative genome analyses between GMI1000 and FJAT-1458 showed that most of the virulence factors were well conserved and only small portion of them were distinct between them. Two genes, including a methyltransferase and an ISL3 family transposase genes, were identified to be inserted immediately upstream (141 bp) of phcA gene, which assumed to be responsible for avirulence of strain FJAT-1458. It is suggested that strain FJAT-1458 was originated from a wild-type pathogenic strain through an accident phenotype conversion, which is like those when cultured under experimental conditions. Our study provides new insight into the evolution of virulence in R. solanacearum strain under natural environment.
| Published in | American Journal of Bioscience and Bioengineering (Volume 8, Issue 3) |
| DOI | 10.11648/j.bio.20200803.13 |
| Page(s) | 46-58 |
| Creative Commons |
This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited. |
| Copyright |
Copyright © The Author(s), 2020. Published by Science Publishing Group |
Ralstonia Solanacearum, Comparative Genomic Analysis, Virulence Factors, Single Molecular Real-time Sequencing, Phenotype Conversion
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APA Style
Deju Chen, Haifeng Zhang, Yanli Li, Yanpin Chen, Xuefang Zheng, et al. (2020). An Avirulent Ralstonia Solanacearum Strain Undergoes Phenotype Conversion from a Pathogenic Strain Under Natural Environment. American Journal of Bioscience and Bioengineering, 8(3), 46-58. https://doi.org/10.11648/j.bio.20200803.13
ACS Style
Deju Chen; Haifeng Zhang; Yanli Li; Yanpin Chen; Xuefang Zheng, et al. An Avirulent Ralstonia Solanacearum Strain Undergoes Phenotype Conversion from a Pathogenic Strain Under Natural Environment. Am. J. BioSci. Bioeng. 2020, 8(3), 46-58. doi: 10.11648/j.bio.20200803.13
AMA Style
Deju Chen, Haifeng Zhang, Yanli Li, Yanpin Chen, Xuefang Zheng, et al. An Avirulent Ralstonia Solanacearum Strain Undergoes Phenotype Conversion from a Pathogenic Strain Under Natural Environment. Am J BioSci Bioeng. 2020;8(3):46-58. doi: 10.11648/j.bio.20200803.13
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Download@article{10.11648/j.bio.20200803.13,
author = {Deju Chen and Haifeng Zhang and Yanli Li and Yanpin Chen and Xuefang Zheng and Jieping Wang and Jiamei Che and Bo Liu},
title = {An Avirulent Ralstonia Solanacearum Strain Undergoes Phenotype Conversion from a Pathogenic Strain Under Natural Environment},
journal = {American Journal of Bioscience and Bioengineering},
volume = {8},
number = {3},
pages = {46-58},
doi = {10.11648/j.bio.20200803.13},
url = {https://doi.org/10.11648/j.bio.20200803.13},
eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.bio.20200803.13},
abstract = {An avirulent R. solanacearum strain named FJAT-1458 was isolated from living tomato vessel and it showed no toxicity to tomato, pepper and eggplant. Multilocus sequence analysis (MLSA) based on eight genes (egl, hrpB, mutS, pehA, recA, rpoA, rpoB and rpoC) and whole genome average nucleotide identity (ANI) analysis suggested that strain FJAT-1458 belong to phylotype I. Genome sequence of the strain FJAT-1458 revealed a circular chromosome and a circular megaplasmid with whole genome size of 6,059,899 bp and GC content of 66.78%. Functional annotation of FJAT-1458 showed a total of 5,442 genes, with 5,166 protein-encoding genes, 202 pseudogenes and 74 noncoding RNA genes. Among which, 3,938 protein-coding genes can be assigned to 23 COG families, and 1,521 of them had KEGG orthologs. Prophage prediction using PHASTER revealed 12 prophages, including 7 intact, 1 questionable and 4 incomplete prophages. Comparative genome analyses between GMI1000 and FJAT-1458 showed that most of the virulence factors were well conserved and only small portion of them were distinct between them. Two genes, including a methyltransferase and an ISL3 family transposase genes, were identified to be inserted immediately upstream (141 bp) of phcA gene, which assumed to be responsible for avirulence of strain FJAT-1458. It is suggested that strain FJAT-1458 was originated from a wild-type pathogenic strain through an accident phenotype conversion, which is like those when cultured under experimental conditions. Our study provides new insight into the evolution of virulence in R. solanacearum strain under natural environment.},
year = {2020}
}
TY - JOUR T1 - An Avirulent Ralstonia Solanacearum Strain Undergoes Phenotype Conversion from a Pathogenic Strain Under Natural Environment AU - Deju Chen AU - Haifeng Zhang AU - Yanli Li AU - Yanpin Chen AU - Xuefang Zheng AU - Jieping Wang AU - Jiamei Che AU - Bo Liu Y1 - 2020/07/04 PY - 2020 N1 - https://doi.org/10.11648/j.bio.20200803.13 DO - 10.11648/j.bio.20200803.13 T2 - American Journal of Bioscience and Bioengineering JF - American Journal of Bioscience and Bioengineering JO - American Journal of Bioscience and Bioengineering SP - 46 EP - 58 PB - Science Publishing Group SN - 2328-5893 UR - https://doi.org/10.11648/j.bio.20200803.13 AB - An avirulent R. solanacearum strain named FJAT-1458 was isolated from living tomato vessel and it showed no toxicity to tomato, pepper and eggplant. Multilocus sequence analysis (MLSA) based on eight genes (egl, hrpB, mutS, pehA, recA, rpoA, rpoB and rpoC) and whole genome average nucleotide identity (ANI) analysis suggested that strain FJAT-1458 belong to phylotype I. Genome sequence of the strain FJAT-1458 revealed a circular chromosome and a circular megaplasmid with whole genome size of 6,059,899 bp and GC content of 66.78%. Functional annotation of FJAT-1458 showed a total of 5,442 genes, with 5,166 protein-encoding genes, 202 pseudogenes and 74 noncoding RNA genes. Among which, 3,938 protein-coding genes can be assigned to 23 COG families, and 1,521 of them had KEGG orthologs. Prophage prediction using PHASTER revealed 12 prophages, including 7 intact, 1 questionable and 4 incomplete prophages. Comparative genome analyses between GMI1000 and FJAT-1458 showed that most of the virulence factors were well conserved and only small portion of them were distinct between them. Two genes, including a methyltransferase and an ISL3 family transposase genes, were identified to be inserted immediately upstream (141 bp) of phcA gene, which assumed to be responsible for avirulence of strain FJAT-1458. It is suggested that strain FJAT-1458 was originated from a wild-type pathogenic strain through an accident phenotype conversion, which is like those when cultured under experimental conditions. Our study provides new insight into the evolution of virulence in R. solanacearum strain under natural environment. VL - 8 IS - 3 ER -
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