Isolation and Characterization of a Novel Klebsiella pneumoniae N4-like Bacteriophage KP8

Morozova, Vera; Бабкин, И. В.; Kozlova, Yuliya; Baykov, Ivan K.; Bokovaya, O; Tikunov, Artem; Ushakova, T V; Bardashevа, Alevtina; Ryabchikova, E. I.; Zelentsova, Ekaterina A.; Tikunova, Nina

doi:10.3390/v11121115

Cited by 14 publications

(10 citation statements)

References 48 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…So far, only N4-like phages infectious for Gram-negative host bacteria belonging to the α-proteobacteria such as Roseobacter [ 21 ], β-proteobacteria such as Achromobacter [ 3 ] and γ-proteobacteria such as Pseudomonas [ 43 ] from different habitats have been described. From the morphological perspective, N4-like phages show characteristic features of podoviruses, capsid sizes range from 50 [ 35 ] to 85 nm [ 63 ] with short non-contractile tails.…”

Section: Resultsmentioning

confidence: 99%

From Orphan Phage to a Proposed New Family–The Diversity of N4-Like Viruses

et al. 2020

View full text Add to dashboard Cite

Escherichia phage N4 was isolated in 1966 in Italy and has remained a genomic orphan for a long time. It encodes an extremely large virion-associated RNA polymerase unique for bacterial viruses that became characteristic for this group. In recent years, due to new and relatively inexpensive sequencing techniques the number of publicly available phage genome sequences expanded rapidly. This revealed new members of the N4-like phage group, from 33 members in 2015 to 115 N4-like viruses in 2020. Using new technologies and methods for classification, the Bacterial and Archaeal Viruses Subcommittee of the International Committee on Taxonomy of Viruses (ICTV) has moved the classification and taxonomy of bacterial viruses from mere morphological approaches to genomic and proteomic methods. The analysis of 115 N4-like genomes resulted in a huge reassessment of this group and the proposal of a new family “Schitoviridae”, including eight subfamilies and numerous new genera.

show abstract

Section: Resultsmentioning

confidence: 99%

From Orphan Phage to a Proposed New Family–The Diversity of N4-Like Viruses

et al. 2020

View full text Add to dashboard Cite

show abstract

“…Phage host strain CEMTC 2064 was obtained from the same collection. The strain was identified as Enterobacter cloacae by sequencing a 1308-bp fragment of the 16S rRNA gene and a 501 bp internal portion of the rpoB gene, as described previously [ 15 ]. Sequences of the 16S rRNA and rpoB of the investigated strain were deposited in the GenBank database under accession numbers MW980939 and MZ062217, respectively.…”

Section: Methodsmentioning

confidence: 99%

A New Enterobacter cloacae Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family

Morozova

Jdeed

Kozlova

et al. 2021

Viruses

Self Cite

View full text Add to dashboard Cite

A novel Enterobacter cloacae phage, EC151, was isolated and characterized. Electron microscopy revealed that EC151 has a siphovirus-like virion morphology. The EC151 nucleotide sequence shows limited similarity to other phage genomes deposited in the NCBI GenBank database. The size of the EC151 genome is 60,753 bp and contains 58 putative genes. Thirty-nine of them encode proteins of predicted function, 18 are defined as hypothetical proteins, and one ORF identifies as the tRNA-Ser-GCT-encoding gene. Six ORFs were predicted to be members of the deazaguanine DNA modification pathway, including the preQ0 transporter. Comparative proteomic phylogenetic analysis revealed that phage EC151 represents a distinct branch within a group of sequences containing clades formed by members of the Seuratvirus, Nonagvirus, and Vidquintavirus genera. In addition, the EC151 genome showed gene synteny typical of the Seuratvirus, Nonagvirus, and Nipunavirus phages. The average genetic distances of EC151/Seuratvirus, EC151/Nonagvirus, and EC151/Vidquintavirus are approximately equal to those between the Seuratvirus, Nonagvirus, and Vidquintavirus genera (~0.7 substitutions per site). Therefore, EC151 may represent a novel genus within the Siphoviridae family. The origin of the deazaguanine DNA modification pathway in the EC151 genome can be traced to Escherichia phages from the Seuratvirus genus.

show abstract

“…н.) (Morozova et al, 2019 (Brisse et al, 2013;Morozova et al, 2019). Для определения серотипа использовали наиболее близ кие последовательности гена wzi референсных штаммов K. pneumoniae, присутствующие в базе данных NCBI GenBank.…”

Section: материалы и методыunclassified

“…Последовательности ге нов wzi были депонированы в базу данных NCBI GenBank под номерами MT434694, MT447742-MT4477754. Ос таль ные коллекционные штаммы K. pneumoniae и K. qua sipneumoniae были типированы ранее (Morozova et al, 2019).…”

Section: материалы и методыunclassified

Genetic characterization of clinical <I>Klebsiella</I> isolates circulating in Novosibirsk

et al. 2021

Self Cite

View full text Add to dashboard Cite

72 clinical strains of Klebsiella spp. isolated from samples obtained from humans in Novosibirsk, Russia, were analyzed. Species identification of strains was performed using 16S rRNA and rpoB gene sequences. It was revealed that Klebsiella pneumoniae strains were dominant in the population (57 strains), while the remaining 15 strains were K. grimontii, K. aerogenes, K. oxytoca and K. quasipneumoniae. By molecular serotyping using the wzi gene sequence, K. pneumoniae strains were assigned to twenty-one K-serotypes with a high proportion of virulent K1- and K2-serotypes. It was found that K. pneumoniae strains isolated from the hospitalized patients had a higher resistance to antibiotics compared to the other Klebsiella species. Real-time PCR revealed that the population contained genes of the blaSHV, blaTEM, blaCTX families and the blaOXA-48 gene, which are the genetic determinants of beta-lactam resistance. It has been shown that the presence of the blaCTX sequence correlated with the production of extended-spectrum beta-lactamases, and phenotypic resistance to car-bapenems is due to the presence of the blaOXA-48 gene. At the same time, the carbapenemase genes vim, ndm, kpc, imp were not detected. Among the aminoglycoside resistance genes studied, the aph(6)-Id and aadA genes were found, but their presence did not always coincide with phenotypic resistance. Resistance to fluoroquinolones in the vast majority of strains was accompanied by the presence of the aac(6’)-IB-cr, oqxA, oqxB, qnrB, and qnrS genes in various combinations, while the presence of the oqxA and/or oqxB genes alone did not correlate with resistance to fluoroquinolones. Thus, the detection of blaCTX and blaOXA-48 can be used to quickly predict the production of extended-spectrum beta-lactamases and to determine the resistance of Klebsiella to carbapenems. The detection of the aac(6’)-Ib-cr and/or qnrB/qnrS genes can be used to quickly determine resistance to fluoroquinolones.

show abstract

Isolation and Characterization of a Novel Klebsiella pneumoniae N4-like Bacteriophage KP8

Cited by 14 publications

References 48 publications

From Orphan Phage to a Proposed New Family–The Diversity of N4-Like Viruses

From Orphan Phage to a Proposed New Family–The Diversity of N4-Like Viruses

A New Enterobacter cloacae Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family

Genetic characterization of clinical <I>Klebsiella</I> isolates circulating in Novosibirsk

Contact Info

Product

Resources

About