Vicente AC

References (4)

Title : The genome of a clinical Klebsiella variicola strain reveals virulence-associated traits and a pl9-like plasmid - Andrade_2014_FEMS.Microbiol.Lett_360_13
Author(s) : Andrade BG , de Veiga Ramos N , Marin MF , Fonseca EL , Vicente AC
Ref : FEMS Microbiology Letters , 360 :13 , 2014
Abstract : Klebsiella species frequently cause clinically relevant human infections worldwide. We report the draft genome sequence of a Brazilian clinical isolate (Bz19) of the recently recognized species Klebsiella variicola. The comparison of Bz19 genome content with the At-22 (environmental K. variicola) and several clinical Klebsiella pneumoniae shows that these species share a set of virulence-associated determinants. Of note, this K. variicola strain harbours a plasmid-like element that shares the same backbone present in a multidrug-resistant plasmid found in a clinical K. pneumoniae isolated in USA.
ESTHER : Andrade_2014_FEMS.Microbiol.Lett_360_13
PubMedSearch : Andrade_2014_FEMS.Microbiol.Lett_360_13
PubMedID: 25135672

Title : Complete genome sequence of a sucrose-nonfermenting epidemic strain of Vibrio cholerae O1 from Brazil - de Sa Morais_2012_J.Bacteriol_194_2772
Author(s) : de Sa Morais LL , Garza DR , Loureiro EC , Nunes KN , Vellasco RS , da Silva CP , Nunes MR , Thompson CC , Vicente AC , Santos EC
Ref : Journal of Bacteriology , 194 :2772 , 2012
Abstract : We report the genome sequence of Vibrio cholerae strain IEC224, which fails to ferment sucrose. It was isolated from a cholera outbreak in the Amazon. The defective sucrose phenotype was determined to be due to a frameshift mutation, and a molecular marker of the Latin American main epidemic lineage was identified.
ESTHER : de Sa Morais_2012_J.Bacteriol_194_2772
PubMedSearch : de Sa Morais_2012_J.Bacteriol_194_2772
PubMedID: 22535947
Gene_locus related to this paper: vibch-VC1974 , vibch-y1892

Title : Genome-wide study of the defective sucrose fermenter strain of Vibrio cholerae from the Latin American cholera epidemic - Garza_2012_PLoS.One_7_e37283
Author(s) : Garza DR , Thompson CC , Loureiro EC , Dutilh BE , Inada DT , Junior EC , Cardoso JF , Nunes MR , de Lima CP , Silvestre RV , Nunes KN , Santos EC , Edwards RA , Vicente AC , de Sa Morais LL
Ref : PLoS ONE , 7 :e37283 , 2012
Abstract : The 7th cholera pandemic reached Latin America in 1991, spreading from Peru to virtually all Latin American countries. During the late epidemic period, a strain that failed to ferment sucrose dominated cholera outbreaks in the Northern Brazilian Amazon region. In order to understand the genomic characteristics and the determinants of this altered sucrose fermenting phenotype, the genome of the strain IEC224 was sequenced. This paper reports a broad genomic study of this strain, showing its correlation with the major epidemic lineage. The potentially mobile genomic regions are shown to possess GC content deviation, and harbor the main V. cholera virulence genes. A novel bioinformatic approach was applied in order to identify the putative functions of hypothetical proteins, and was compared with the automatic annotation by RAST. The genome of a large bacteriophage was found to be integrated to the IEC224's alanine aminopeptidase gene. The presence of this phage is shown to be a common characteristic of the El Tor strains from the Latin American epidemic, as well as its putative ancestor from Angola. The defective sucrose fermenting phenotype is shown to be due to a single nucleotide insertion in the V. cholerae sucrose-specific transportation gene. This frame-shift mutation truncated a membrane protein, altering its structural pore-like conformation. Further, the identification of a common bacteriophage reinforces both the monophyletic and African-Origin hypotheses for the main causative agent of the 1991 Latin America cholera epidemics.
ESTHER : Garza_2012_PLoS.One_7_e37283
PubMedSearch : Garza_2012_PLoS.One_7_e37283
PubMedID: 22662140
Gene_locus related to this paper: vibch-VC1974 , vibch-y1892

Title : Genomic taxonomy of Vibrios - Thompson_2009_BMC.Evol.Biol_9_258
Author(s) : Thompson CC , Vicente AC , Souza RC , Vasconcelos AT , Vesth T , Alves N, Jr. , Ussery DW , Iida T , Thompson FL
Ref : BMC Evol Biol , 9 :258 , 2009
Abstract : BACKGROUND: Vibrio taxonomy has been based on a polyphasic approach. In this study, we retrieve useful taxonomic information (i.e. data that can be used to distinguish different taxonomic levels, such as species and genera) from 32 genome sequences of different vibrio species. We use a variety of tools to explore the taxonomic relationship between the sequenced genomes, including Multilocus Sequence Analysis (MLSA), supertrees, Average Amino Acid Identity (AAI), genomic signatures, and Genome BLAST atlases. Our aim is to analyse the usefulness of these tools for species identification in vibrios. RESULTS: We have generated four new genome sequences of three Vibrio species, i.e., V. alginolyticus 40B, V. harveyi-like 1DA3, and V. mimicus strains VM573 and VM603, and present a broad analyses of these genomes along with other sequenced Vibrio species. The genome atlas and pangenome plots provide a tantalizing image of the genomic differences that occur between closely related sister species, e.g. V. cholerae and V. mimicus. The vibrio pangenome contains around 26504 genes. The V. cholerae core genome and pangenome consist of 1520 and 6923 genes, respectively. Pangenomes might allow different strains of V. cholerae to occupy different niches. MLSA and supertree analyses resulted in a similar phylogenetic picture, with a clear distinction of four groups (Vibrio core group, V. cholerae-V. mimicus, Aliivibrio spp., and Photobacterium spp.). A Vibrio species is defined as a group of strains that share > 95% DNA identity in MLSA and supertree analysis, > 96% AAI, < or = 10 genome signature dissimilarity, and > 61% proteome identity. Strains of the same species and species of the same genus will form monophyletic groups on the basis of MLSA and supertree. CONCLUSION: The combination of different analytical and bioinformatics tools will enable the most accurate species identification through genomic computational analysis. This endeavour will culminate in the birth of the online genomic taxonomy whereby researchers and end-users of taxonomy will be able to identify their isolates through a web-based server. This novel approach to microbial systematics will result in a tremendous advance concerning biodiversity discovery, description, and understanding.
ESTHER : Thompson_2009_BMC.Evol.Biol_9_258
PubMedSearch : Thompson_2009_BMC.Evol.Biol_9_258
PubMedID: 19860885
Gene_locus related to this paper: vibal-q1v7b5 , vibal-q1v7d0 , vibal-q1v463 , vibal-q1v627 , vibal-q1v697 , vibal-q1va42 , vibal-q1vai8 , vibal-q1vap1 , vibal-q1vbx2 , vibal-q1vfw6 , vibch-a6xrz3 , vibch-VC2718 , vibch-VCA0688 , vibch-y1892 , vibch-y2276 , vibha-d0x5c8 , vibha-d0x7p9 , vibha-d0xb11 , vibha-d0xgc5 , vibcb-a7mwv0 , vibhb-a7mzs1 , vibhb-a7n5i4 , vibhb-bioh , vibmi-d2y908 , vibmi-d2ygk2 , vibpa-PHAC , vibpa-VPA0468 , vibpa-VPA1467 , vibpa-VPA1496 , vibpa-VPA1595 , vibal-d0wu09 , vibha-d0xda8 , vibmi-u4zh77 , 9vibr-k5u9q4 , vibmi-g0sil5