Complete Genome Sequence of Xanthomonas campestris pv.
            <i>viticola</i>
            Strain CCRMXCV 80 from Brazil

Lima, Nelson; Gama, Marco Aurélio Siqueira da; Mariano, R. L. R.; Silva, Wilson J.; Farias, Antônio Roberto Gomes de; Falcão, Raul Maia; Sousa‐Paula, Lucas Christian de; Benko‐Iseppon, Ana Maria; Paiva, S. S. L.; Balbino, Valdir Queiroz; Souza, Elineide Barbosa de

doi:10.1128/genomea.01263-17

Cited by 6 publications

(5 citation statements)

References 6 publications

(6 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Comparing population diversity of this bacterial pathogen in its native area (India) and invaded regions in Brazil, may contribute to our knowledge of how bacterial plant pathogens emerge and adapt in new environments. Furthermore, the recent availability of two complete genome sequences of pathovar viticola (this study, Lima et al, 2017) will improve our understanding of genome diversity and the relationships among strains from different geographical origins.…”

Section: Discussionmentioning

confidence: 99%

Xanthomonas citri pv. viticola Affecting Grapevine in Brazil: Emergence of a Successful Monomorphic Pathogen

et al. 2019

Self Cite

View full text Add to dashboard Cite

The pathovar viticola of Xanthomonas citri causes bacterial canker of grapevine. This disease was first recorded in India in 1972, and later in Brazil in 1998, where its distribution is currently restricted to the northeastern region. A multilocus sequence analysis (MLSA) based on seven housekeeping genes and a multilocus variable number of tandem repeat analysis (MLVA) with eight loci were performed in order to assess the genetic relatedness among strains from India and Brazil. Strains isolated in India from three related pathovars affecting Vitaceae species and pathogenic strains isolated from Amaranthus sp. found in bacterial canker-infected vineyards in Brazil were also included. MLSA revealed lack of diversity in all seven genes and grouped grapevine and Amaranthus strains in a monophyletic group in X. citri . The VNTR (variable number of tandem repeat) typing scheme conducted on 107 strains detected 101 haplotypes. The total number of alleles per locus ranged from 5 to 12. A minimum spanning tree (MST) showed that Brazilian strains were clearly separated from Indian strains, which showed unique alleles at three loci. The two strains isolated from symptomatic Amaranthus sp. presented unique alleles at two loci. STRUCTURE analyses revealed three groups congruent with MST and a fourth group with strains from India and Brazil. Admixture among populations were observed in all groups. MST, STRUCTURE and e-BURST analyses showed that the strains collected in 1998 belong to two distinct groups, with predicted founder genotypes from two different vineyards in the same region. This suggest that one introduction of grape planting materials contaminated with genetically distinct strains took place, which was followed by pathogen adaptation. Genome sequencing of one Brazilian strain confirmed typical attributes of pathogenic xanthomonads and allowed the design of a complementary VNTR typing scheme dedicated to X. citri pv. viticola that will allow further epidemiological survey of this genetically monomorphic pathovar.

show abstract

Section: Discussionmentioning

confidence: 99%

Xanthomonas citri pv. viticola Affecting Grapevine in Brazil: Emergence of a Successful Monomorphic Pathogen

et al. 2019

Self Cite

View full text Add to dashboard Cite

show abstract

“…Four genomes of X. citri pv. viticola reported previously were retrieved from the NCBI GenBank database for comparative genome analysis (de Farias et al, 2020; Ferreira et al, 2019; Lima et al, 2017). We also generated genome sequences of two additional isolates from India.…”

Section: Resultsmentioning

confidence: 99%

Comparative genomics reveals the emergence of copper resistance in a non‐pigmented Xanthomonas pathogen of grapevine

Rana

Jaiswal

Bansal

et al. 2023

Environ Microbiol Rep

View full text Add to dashboard Cite

Xanthomonas citri pv. viticola (Xcv) is the causal agent of bacterial canker in grapevine. The pathogen is restricted to India, where it was first reported in the 1970s, and Brazil. In the present study, we report the first complete genome sequence of Xcv LMG965, which is a reference pathotype strain. We also report genome sequences of additional isolates from India and comparative genome‐based studies of isolates from Brazil. Apart from revealing the monophyletic origin of the pathovar, we could also confirm a common frameshift mutation in a gene that is part of the Xanthomonadin pigment biosynthetic gene cluster in all the isolates. The comparative study also revealed multiple intrinsic copper resistance‐related genes in Brazilian isolates, suggesting intense selection, possibly because of heavy and indiscriminate usage of copper as an antimicrobial agent in the orchards. There is also the association of a Tn3‐like transposase in the vicinity of the copper resistance genes, indicating a potential for rapid diversification through horizontal gene transfer events. The findings, along with genomic resources, will allow for systematic genetic and functional studies of Xcv.

show abstract

“…The genomic DNA of the two Brazilian strains of X. citri pv. viticola were sequenced (CCRMXCV17 and CCRMXCV117), and the row data of strain (CCRMXCV80) sequenced by Lima and collaborators [15] was used to improve the assembly and have a better resolution of the analysis. The de novo genome assembly performed by the Unicycler software built 60, 53, and 62 contigs with an N50 of 415,434, 379,851, and 292,186 pb in CCRMXCV17, CCRMXCV80, and CCRMXCV117, respectively, resulting in the genome size estimated to be 5,324,845, 5,197,384 and, 5,291,817 pb, respectively.…”

Section: Genome Sequencing and General Features Of X Citri Pv Viticmentioning

confidence: 99%

“…We compared four genomes of X. citri pv. viticola, three Brazilian strains, two sequenced in this study (CCRMXCV17 and CCRMXCV117), one (CCRMXCV80) sequenced by Lima and collaborators [15] and the Indian pathotype strain LMG965 (IBSBF1967 PT ) sequenced by [16]. Additionally, the whole genome sequences, including 13 species and 15 pathovars, with complete genomes of Xanthomonas species available at GenBank were downloaded to include in the genome comparisons (Table S1: Additional file 1).…”

Section: Data Collection Genome Sequencing and Annotationmentioning

confidence: 99%

Comparative genome analysis and phylogenomic of Xanthomonas citri pv. viticola lead to new taxonomic insights about species of Xanthomonas

Farias

Silva

Nascimento

et al. 2020

Preprint

View full text Add to dashboard Cite

Background Xanthomonas citri pv. viticola is one of the most critical grapevine diseases in the Northeast of Brazil, presenting a high risk to Brazilian and worldwide areas of grape production. The X.citri pv. viticola epithet was recently proposed to be changed from X. campestris pv. v iticola based on multilocus sequence analysis and whole-genome sequences. Besides, genomics has revolutionized the field of bacteriology, by associating genome sequencing with comparative analysis such as in silico analysis such as DNA-DNA hybridization, average nucleotide identity, distance between genomes, pan-genomic approach, and phylogenomic, providing valuable insights and knowledge about virulence factors and contributing to increase the understanding and clarifying the taxonomic relationship of Xanthomonas and others prokaryotic species.Results We used the whole-genome sequence of three Brazilian strains and the pathotype to characterize X.citri pv. viticola accessions plus 124 whole-genome sequences of Xanthomonas species available in NCBI, comprising 13 species and 15 pathovars. The whole-genome sequence structure of X. citri pv. viticola was shown presents a high level of conservation concerning other X. citri species. Pan-genomic approaches, average nucleotide identity analysis, and in silico DNA-DNA hybridization were carried out, allowing X.citri pv. viticola characterization and inferences on the phylogenetic relationships within Xanthomonas . The analysis of the sequence of the 128 genomes clustered the Xanthomonas strains in eight main groups according to the recently proposed classification in all approaches used. Also, the analysis revealed that X. hortorum and X. gardneri should be classified as a single species, and the strain 17 of X. campestris and XC01 of X. citri pv. mangiferaeindicae widely described in the literature are misclassified.Conclusions We performed the genomic characterization of three representative Brazilian strains of Xcv . The genomic approaches based in the pan-genome, average nucleotide identity, and in silico DNA-DNA hybridization support the proposed taxonomic position of X.citri pv. viticola and of the recently proposed Xanthomonas species and pathovars. In addition, we detected species delimitation of the misclassified Xanthomonas strains with extensive studies reported in the literature.

show abstract

Complete Genome Sequence of Xanthomonas campestris pv. viticola Strain CCRMXCV 80 from Brazil

Cited by 6 publications

References 6 publications

Xanthomonas citri pv. viticola Affecting Grapevine in Brazil: Emergence of a Successful Monomorphic Pathogen

Xanthomonas citri pv. viticola Affecting Grapevine in Brazil: Emergence of a Successful Monomorphic Pathogen

Comparative genomics reveals the emergence of copper resistance in a non‐pigmented Xanthomonas pathogen of grapevine

Comparative genome analysis and phylogenomic of Xanthomonas citri pv. viticola lead to new taxonomic insights about species of Xanthomonas

Contact Info

Product

Resources

About