Literature DB >> 33156891

Genomic sequencing of two isolates of Ralstonia solanacearum causing Sergipe facies and comparative analysis with Bugtok disease isolates.

Jéssica Rodrigues da Silva1, Ana Karolina Leite Pais2, Greecy Mirian Rodrigues Albuquerque2, Adriano Márcio Freire Silva3, Wilson José Silva Junior4, Valdir de Queiroz Balbino4, Maria Esther Noronha Fonseca5, Marco Aurélio Siqueira da Gama2, Elineide Barbosa de Souza6, Rosa de Lima Ramos Mariano2.   

Abstract

Ralstonia solanacearum is the causal agent of Moko disease in bananas, which in the state of Sergipe in northeastern Brazil causes "Sergipe facies". This disease induces atypical symptoms similar to those of Bugtok disease in the Philippines. This study was conducted to sequence, assemble, and annotate the genomes of the Sergipe facies-causing isolates SFC and IBSBF2570 (sequevar IIA-53) and compare their genomes with two representative isolates causing Bugtok disease. The genomes were sequenced and assembled, resulting in lengths of 5.58 Mb (SFC) and 5.46 Mb (IBSBF2570) in 185 and 174 contigs, respectively. The isolates of Sergipe facies and Bugtok disease showed similarities in their gene contents. We identified 5,668 information clusters, 3,752 of which were shared by all genomes (core genes). Moreover, 3,585 single-copy genes were identified. Isolates causing Bugtok disease exclusively shared 266 more information clusters than the isolates causing Sergipe facies. These results suggest that Sergipe facies and Bugtok disease isolates show high genomic similarity. However, the similarity is even greater between the Bugtok disease isolates. This may be because of their longer period of interaction compared to Sergipe facies isolates.

Entities:  

Year:  2020        PMID: 33156891      PMCID: PMC7783953          DOI: 10.1590/1678-4685-GMB-2020-0155

Source DB:  PubMed          Journal:  Genet Mol Biol        ISSN: 1415-4757            Impact factor:   1.771


  9 in total

1.  Circos: an information aesthetic for comparative genomics.

Authors:  Martin Krzywinski; Jacqueline Schein; Inanç Birol; Joseph Connors; Randy Gascoyne; Doug Horsman; Steven J Jones; Marco A Marra
Journal:  Genome Res       Date:  2009-06-18       Impact factor: 9.043

2.  BUSCO: Assessing Genome Assembly and Annotation Completeness.

Authors:  Mathieu Seppey; Mosè Manni; Evgeny M Zdobnov
Journal:  Methods Mol Biol       Date:  2019

3.  QUAST: quality assessment tool for genome assemblies.

Authors:  Alexey Gurevich; Vladislav Saveliev; Nikolay Vyahhi; Glenn Tesler
Journal:  Bioinformatics       Date:  2013-02-19       Impact factor: 6.937

4.  Moko Disease-Causing Strains of Ralstonia solanacearum from Brazil Extend Known Diversity in Paraphyletic Phylotype II.

Authors:  Greecy M R Albuquerque; Liliana A Santos; Kátia C S Felix; Christtianno L Rollemberg; Adriano M F Silva; Elineide B Souza; Gilles Cellier; Philippe Prior; Rosa L R Mariano
Journal:  Phytopathology       Date:  2014-11       Impact factor: 4.025

5.  Polyphasic taxonomic revision of the Ralstonia solanacearum species complex: proposal to emend the descriptions of Ralstonia solanacearum and Ralstonia syzygii and reclassify current R. syzygii strains as Ralstonia syzygii subsp. syzygii subsp. nov., R. solanacearum phylotype IV strains as Ralstonia syzygii subsp. indonesiensis subsp. nov., banana blood disease bacterium strains as Ralstonia syzygii subsp. celebesensis subsp. nov. and R. solanacearum phylotype I and III strains as Ralstonia pseudosolanacearum sp. nov.

Authors:  Irda Safni; Ilse Cleenwerck; Paul De Vos; Mark Fegan; Lindsay Sly; Ulrike Kappler
Journal:  Int J Syst Evol Microbiol       Date:  2014-06-18       Impact factor: 2.747

6.  Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads.

Authors:  Ryan R Wick; Louise M Judd; Claire L Gorrie; Kathryn E Holt
Journal:  PLoS Comput Biol       Date:  2017-06-08       Impact factor: 4.475

7.  ABACAS: algorithm-based automatic contiguation of assembled sequences.

Authors:  Samuel Assefa; Thomas M Keane; Thomas D Otto; Chris Newbold; Matthew Berriman
Journal:  Bioinformatics       Date:  2009-06-03       Impact factor: 6.937

8.  The RAST Server: rapid annotations using subsystems technology.

Authors:  Ramy K Aziz; Daniela Bartels; Aaron A Best; Matthew DeJongh; Terrence Disz; Robert A Edwards; Kevin Formsma; Svetlana Gerdes; Elizabeth M Glass; Michael Kubal; Folker Meyer; Gary J Olsen; Robert Olson; Andrei L Osterman; Ross A Overbeek; Leslie K McNeil; Daniel Paarmann; Tobias Paczian; Bruce Parrello; Gordon D Pusch; Claudia Reich; Rick Stevens; Olga Vassieva; Veronika Vonstein; Andreas Wilke; Olga Zagnitko
Journal:  BMC Genomics       Date:  2008-02-08       Impact factor: 3.969

9.  OrthoVenn2: a web server for whole-genome comparison and annotation of orthologous clusters across multiple species.

Authors:  Ling Xu; Zhaobin Dong; Lu Fang; Yongjiang Luo; Zhaoyuan Wei; Hailong Guo; Guoqing Zhang; Yong Q Gu; Devin Coleman-Derr; Qingyou Xia; Yi Wang
Journal:  Nucleic Acids Res       Date:  2019-07-02       Impact factor: 16.971

  9 in total

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