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Characterization and genomic analyses of two newly isolated Morganella phages define distant members among Tevenvirinae and Autographivirinae subfamilies

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ABSTRACT

Morganella morganii is a common but frequent neglected environmental opportunistic pathogen which can cause deadly nosocomial infections. The increased number of multidrug-resistant M. morganii isolates motivates the search for alternative and effective antibacterials. We have isolated two novel obligatorily lytic M. morganii bacteriophages (vB_MmoM_MP1, vB_MmoP_MP2) and characterized them with respect to specificity, morphology, genome organization and phylogenetic relationships. MP1’s dsDNA genome consists of 163,095 bp and encodes 271 proteins, exhibiting low DNA (<40%) and protein (<70%) homology to other members of the Tevenvirinae. Its unique property is a >10 kb chromosomal inversion that encompass the baseplate assembly and head outer capsid synthesis genes when compared to other T-even bacteriophages. MP2 has a dsDNA molecule with 39,394 bp and encodes 55 proteins, presenting significant genomic (70%) and proteomic identity (86%) but only to Morganella bacteriophage MmP1. MP1 and MP2 are then novel members of Tevenvirinae and Autographivirinae, respectively, but differ significantly from other tailed bacteriophages of these subfamilies to warrant proposing new genera. Both bacteriophages together could propagate in 23 of 27 M. morganii clinical isolates of different origin and antibiotic resistance profiles, making them suitable for further studies on a development of bacteriophage cocktail for potential therapeutic applications.

No MeSH data available.


Phylogenetic analysis of MP2.Phylogenetic tree from MP2 DNA polymerase and its most closely related proteins from other closely related and distant phages. The tree was generated using the “one click” mode at phylogeny.fr.
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f6: Phylogenetic analysis of MP2.Phylogenetic tree from MP2 DNA polymerase and its most closely related proteins from other closely related and distant phages. The tree was generated using the “one click” mode at phylogeny.fr.

Mentions: To assess the exact taxonomic position of these two phages, the large subunit terminase proteins of MP1 and related phages, and the DNA polymerases of MP2 and related phages were analysed in “one click” mode at phylogeny.fr46. These genes have been previously used as marker in several phylogenetic studies of the T4- and T7-like phages58596061. The phylogenetic tree was constructed with all phages currently annotated as Tevenvirinae and Autographivirinae subfamilies along with MP1 and MP2. The resulting trees had a very good correlation with current taxonomy, meaning, every individual branch corresponded quite well with current ICTV recognized genus (Figs 5 and 6). In Tevenvirinae, which now has a total of eight genera, a novel branch containing the Morganella phage MP1 and Proteus phage Pm5461 was visualized. It is quite clear that MP1 and Pm5461 are phylogenetically related to each other, but significantly diverged from other tailed phages in evolution (Fig. 5). As for the Autographivirinae subfamily, the four genera (T7virus, Sp6virus, Phikmvvirus and Kp34virus) were also positioned on completely different branches in the resulting tree, as expected (Fig. 6). Phages MP2 and MmP1 form a distinct clade linked with the T7virus which is associated with a lower overall nucleotide (<10% BLASTN) and proteomic (<50% CoreGenes) identity. This suggests that both MP1 and MmP1 have diverged from a common T7-like ancestor due to genetic drift.


Characterization and genomic analyses of two newly isolated Morganella phages define distant members among Tevenvirinae and Autographivirinae subfamilies
Phylogenetic analysis of MP2.Phylogenetic tree from MP2 DNA polymerase and its most closely related proteins from other closely related and distant phages. The tree was generated using the “one click” mode at phylogeny.fr.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC5384007&req=5

f6: Phylogenetic analysis of MP2.Phylogenetic tree from MP2 DNA polymerase and its most closely related proteins from other closely related and distant phages. The tree was generated using the “one click” mode at phylogeny.fr.
Mentions: To assess the exact taxonomic position of these two phages, the large subunit terminase proteins of MP1 and related phages, and the DNA polymerases of MP2 and related phages were analysed in “one click” mode at phylogeny.fr46. These genes have been previously used as marker in several phylogenetic studies of the T4- and T7-like phages58596061. The phylogenetic tree was constructed with all phages currently annotated as Tevenvirinae and Autographivirinae subfamilies along with MP1 and MP2. The resulting trees had a very good correlation with current taxonomy, meaning, every individual branch corresponded quite well with current ICTV recognized genus (Figs 5 and 6). In Tevenvirinae, which now has a total of eight genera, a novel branch containing the Morganella phage MP1 and Proteus phage Pm5461 was visualized. It is quite clear that MP1 and Pm5461 are phylogenetically related to each other, but significantly diverged from other tailed phages in evolution (Fig. 5). As for the Autographivirinae subfamily, the four genera (T7virus, Sp6virus, Phikmvvirus and Kp34virus) were also positioned on completely different branches in the resulting tree, as expected (Fig. 6). Phages MP2 and MmP1 form a distinct clade linked with the T7virus which is associated with a lower overall nucleotide (<10% BLASTN) and proteomic (<50% CoreGenes) identity. This suggests that both MP1 and MmP1 have diverged from a common T7-like ancestor due to genetic drift.

View Article: PubMed Central - PubMed

ABSTRACT

Morganella morganii is a common but frequent neglected environmental opportunistic pathogen which can cause deadly nosocomial infections. The increased number of multidrug-resistant M. morganii isolates motivates the search for alternative and effective antibacterials. We have isolated two novel obligatorily lytic M. morganii bacteriophages (vB_MmoM_MP1, vB_MmoP_MP2) and characterized them with respect to specificity, morphology, genome organization and phylogenetic relationships. MP1&rsquo;s dsDNA genome consists of 163,095&thinsp;bp and encodes 271 proteins, exhibiting low DNA (&lt;40%) and protein (&lt;70%) homology to other members of the Tevenvirinae. Its unique property is a &gt;10&thinsp;kb chromosomal inversion that encompass the baseplate assembly and head outer capsid synthesis genes when compared to other T-even bacteriophages. MP2 has a dsDNA molecule with 39,394&thinsp;bp and encodes 55 proteins, presenting significant genomic (70%) and proteomic identity (86%) but only to Morganella bacteriophage MmP1. MP1 and MP2 are then novel members of Tevenvirinae and Autographivirinae, respectively, but differ significantly from other tailed bacteriophages of these subfamilies to warrant proposing new genera. Both bacteriophages together could propagate in 23 of 27&thinsp;M. morganii clinical isolates of different origin and antibiotic resistance profiles, making them suitable for further studies on a development of bacteriophage cocktail for potential therapeutic applications.

No MeSH data available.