Integration and excision of the <i>Mycobacterium tuberculosis</i> prophage‐like element, φRv1

Bibb, Lori A.; Hatfull, Graham F.

doi:10.1046/j.1365-2958.2002.03130.x

Cited by 76 publications

(88 citation statements)

References 32 publications

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“…The phiRv1 element encodes an active-site-specific recombination system where an integrase of the serine recombinase family catalyzes integration and excision and an adjacent small ORF controls the directionality of recombination. Therefore, phiRv1 is probably a mobile DNA element (16). The avirulent strains of Mycobacterium bovis BCG have no prophage elements, while all clinical isolates of M. tuberculosis have at least one copy of either phiRv1 or phiRv2, suggesting that it could play a role in the physiology of M. tuberculosis, e.g., by conferring the ability to form virus-like particles capable of generalized transduction (113).…”

Section: Mycobacteriummentioning

confidence: 99%

Prophage Genomics

Canchaya

Proux

Fournous

et al. 2003

Microbiol Mol Biol Rev

637

621

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The majority of the bacterial genome sequences deposited in the National Center for Biotechnology Information database contain prophage sequences. Analysis of the prophages suggested that after being integrated into bacterial genomes, they undergo a complex decay process consisting of inactivating point mutations, genome rearrangements, modular exchanges, invasion by further mobile DNA elements, and massive DNA deletion. We review the technical difficulties in defining such altered prophage sequences in bacterial genomes and discuss theoretical frameworks for the phage-bacterium interaction at the genomic level. The published genome sequences from three groups of eubacteria (low- and high-G+C gram-positive bacteria and γ-proteobacteria) were screened for prophage sequences. The prophages from Streptococcus pyogenes served as test case for theoretical predictions of the role of prophages in the evolution of pathogenic bacteria. The genomes from further human, animal, and plant pathogens, as well as commensal and free-living bacteria, were included in the analysis to see whether the same principles of prophage genomics apply for bacteria living in different ecological niches and coming from distinct phylogenetical affinities. The effect of selection pressure on the host bacterium is apparently an important force shaping the prophage genomes in low-G+C gram-positive bacteria and γ-proteobacteria

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Section: Mycobacteriummentioning

confidence: 99%

Prophage Genomics

Canchaya

Proux

Fournous

et al. 2003

Microbiol Mol Biol Rev

637

621

View full text Add to dashboard Cite

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“…Unlike its closest sequenced pathogenic relative, Mycobacterium tuberculosis, C. diphtheriae appears to have recently acquired many genes necessary for survival, attachment, and virulence in the host. M. tuberculosis contains only a few small prophage remnants that still have functions related to the excision of these elements (17), and these were not associated with recognizable virulence factors. This difference may be a reflection of the different ecology: M. tuberculosis is a predominantly intracellular pathogen and thus has less opportunity for genetic exchanges than does the extracellular C. diphtheriae.…”

Section: Vol 68 2004 Phages and The Evolution Of Bacterial Pathogenmentioning

confidence: 99%

Phages and the Evolution of Bacterial Pathogens: from Genomic Rearrangements to Lysogenic Conversion

Brüssow

Canchaya

Hardt

2004

Microbiol Mol Biol Rev

1,474

1,295

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Comparative genomics demonstrated that the chromosomes from bacteria and their viruses (bacteriophages) are coevolving. This process is most evident for bacterial pathogens where the majority contain prophages or phage remnants integrated into the bacterial DNA. Many prophages from bacterial pathogens encode virulence factors. Two situations can be distinguished: Vibrio cholerae, Shiga toxin-producing Escherichia coli, Corynebacterium diphtheriae, and Clostridium botulinum depend on a specific prophage-encoded toxin for causing a specific disease, whereas Staphylococcus aureus, Streptococcus pyogenes, and Salmonella enterica serovar Typhimurium harbor a multitude of prophages and each phage-encoded virulence or fitness factor makes an incremental contribution to the fitness of the lysogen. These prophages behave like “swarms” of related prophages. Prophage diversification seems to be fueled by the frequent transfer of phage material by recombination with superinfecting phages, resident prophages, or occasional acquisition of other mobile DNA elements or bacterial chromosomal genes. Prophages also contribute to the diversification of the bacterial genome architecture. In many cases, they actually represent a large fraction of the strain-specific DNA sequences. In addition, they can serve as anchoring points for genome inversions. The current review presents the available genomics and biological data on prophages from bacterial pathogens in an evolutionary framework

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“…La disrupción funcional de Mce1 causa hipervirulencia mientras las disrupciones en Mce2 y Mce3 confieren que los aislados sean atenuados (20) . En este estudio se Mientras que en la familia L encontramos a los fagos PhiRv1, que tienen un sistema activo de integración/ escisión que les da facultades de cambiar de posiciones en el genoma de MTB (21) . El aislado INS-SEN ha mostrado más variabilidad en secuencias PhiRv1 que en los aislados drogorresistentes.…”

Section: Discussionunclassified

Análisis genómico comparativo de cepas peruanas de Mycobacterium tuberculosis

Tarazona

Galarza

Levano

et al. 2016

Rev Peru Med Exp Salud Publica

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Objetivos. Analizar comparativamente tres secuencias genómicas de Mycobacterium tuberculosis (MTB): INS-SEN, cepa sensible; INS-MDR, cepa multidrogorresistente e INS-XDR, cepa extensamente resistente, procedentes de la Ciudad de Lima, Perú. Materiales y métodos. Se identificaron los polimorfismos de un solo nucleótido (SNPs) específicos en las cepas INS-SEN, INS-MDR y INS-XDR mediante el criterio de inclusión/exclusión. Se compararon los tres genomas de MTB y se construyó una filogenia molecular con 27 cepas de MTB de otros estudios, disponibles de la base de datos Genbank. Los SNPs específicos en cada genoma fueron organizados en clústers de grupos ortólogos (COGs). Resultados. El análisis de genomas permitió identificar un conjunto de SNPs asociados a determinantes de virulencia (familia de proteínas mce, policetidos, phiRv1, transposasas, metiltransferasas y relacionados a síntesis de vitaminas) principalmente. Se observa una estrecha relación entre la cepa INS-MDR y INS-XDR, con solo un 6,1% de SNPs diferentes, sin embargo, la cepa INS-SEN presenta un 50,2 y 50,3% de SNPs diferentes a las cepas MDR y XDR, respectivamente. La filogenia molecular agrupó a las cepas peruanas dentro del linaje LAM y cercanamente a las cepas F11 y KZN de Sudáfrica. Conclusiones. Se evidenció una alta similitud (99,9%) de la cepa INS-SEN con la cepa sudafricana F11, de gran alcance mundial, mientras los análisis de las cepas INS-MDR e INS-XDR demuestran una probable expansión de la familia KZN, cepa de Sudáfrica con alta virulencia y patogenicidad.Palabras clave: Tuberculosis; Genómica; Farmacorresistencia bacteriana (fuente: DeCS BIREME). COMPARATIVE GENOMIC ANALYSIS OF PERUVIAN STRAINS OF Mycobacterium tuberculosis ABSTRACT Objectives. To comparatively analyze three genomic sequences of Mycobacterium tuberculosis (MTB), including sensitive (INS-SEN), multi-drug-resistant (INS-MDR), and extremely drug-resistant (INS-XDR) strains, collected in Lima,Peru. Materials and Methods. Specific single nucleotide polymorphisms (SNPs) were identified in the INS SEN, INS-MDR, and INS-XDR strains according to the inclusion/exclusion criteria. The three MTB genomes were compared and a molecular phylogeny was constructed with 27 MTB strains from other studies available from the Genbank database. Results. The specific SNPs in each genome were organized in clusters of orthologous groups (COGs). The genomic analysis allowed for the identification of a set of SNPs associated mainly with virulence determinants (family of mce proteins, polyketides, phiRv1, transposase, and methyltransferases, and other related to vitamin synthesis). A close correlation between the INS-MDR and INS-XDR strains was observed, with only a 6.1% difference in SNPs; however, the INS-SEN strain had 50.2% and 50.3% different SNPs from the MDR and XDR strains, respectively. The molecular phylogeny grouped the Peruvian strains within the LAM lineage and closely to the F11 and KZN strains from South Africa. Conclusions. High similarity (99.9%) was noted between the INS-SEN strain ...

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Integration and excision of the Mycobacterium tuberculosis prophage‐like element, φRv1

Cited by 76 publications

References 32 publications

Prophage Genomics

Prophage Genomics

Phages and the Evolution of Bacterial Pathogens: from Genomic Rearrangements to Lysogenic Conversion

Análisis genómico comparativo de cepas peruanas de Mycobacterium tuberculosis

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