A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family
A novel <i>Enterobacter cloacae</i> 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 siz...
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MDPI AG
2021-07-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/13/7/1372 |
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| author | Vera Morozova Ghadeer Jdeed Yuliya Kozlova Igor Babkin Artem Tikunov Nina Tikunova |
| author_facet | Vera Morozova Ghadeer Jdeed Yuliya Kozlova Igor Babkin Artem Tikunov Nina Tikunova |
| author_sort | Vera Morozova |
| collection | DOAJ |
| description | A novel <i>Enterobacter cloacae</i> 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 preQ<sub>0</sub> 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 <i>Seuratvirus, Nonagvirus</i>, and <i>Vidquintavirus</i> genera. In addition, the EC151 genome showed gene synteny typical of the <i>Seuratvirus, Nonagvirus,</i> and <i>Nipunavirus</i> phages. The average genetic distances of EC151/<i>Seuratvirus</i>, EC151/<i>Nonagvirus</i>, and EC151/<i>Vidquintavirus</i> are approximately equal to those between the <i>Seuratvirus, Nonagvirus,</i> and <i>Vidquintavirus</i> genera (~0.7 substitutions per site). Therefore, EC151 may represent a novel genus within the <i>Siphoviridae</i> family. The origin of the deazaguanine DNA modification pathway in the EC151 genome can be traced to <i>Escherichia</i> phages from the <i>Seuratvirus</i> genus. |
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| language | English |
| last_indexed | 2024-03-10T09:19:40Z |
| publishDate | 2021-07-01 |
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| series | Viruses |
| spelling | doaj.art-4968cb4c269a4178a080495381bc7bfb2023-11-22T05:14:57ZengMDPI AGViruses1999-49152021-07-01137137210.3390/v13071372A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae FamilyVera Morozova0Ghadeer Jdeed1Yuliya Kozlova2Igor Babkin3Artem Tikunov4Nina Tikunova5Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaLaboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaLaboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaLaboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaLaboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaLaboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, RussiaA novel <i>Enterobacter cloacae</i> 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 preQ<sub>0</sub> 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 <i>Seuratvirus, Nonagvirus</i>, and <i>Vidquintavirus</i> genera. In addition, the EC151 genome showed gene synteny typical of the <i>Seuratvirus, Nonagvirus,</i> and <i>Nipunavirus</i> phages. The average genetic distances of EC151/<i>Seuratvirus</i>, EC151/<i>Nonagvirus</i>, and EC151/<i>Vidquintavirus</i> are approximately equal to those between the <i>Seuratvirus, Nonagvirus,</i> and <i>Vidquintavirus</i> genera (~0.7 substitutions per site). Therefore, EC151 may represent a novel genus within the <i>Siphoviridae</i> family. The origin of the deazaguanine DNA modification pathway in the EC151 genome can be traced to <i>Escherichia</i> phages from the <i>Seuratvirus</i> genus.https://www.mdpi.com/1999-4915/13/7/1372<i>Enterobacter</i> phage<i>Seuratvirus</i><i>Nonagvirus</i>deazaguanine modification pathwaypreQ<sub>0</sub> transporter |
| spellingShingle | Vera Morozova Ghadeer Jdeed Yuliya Kozlova Igor Babkin Artem Tikunov Nina Tikunova A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family Viruses <i>Enterobacter</i> phage <i>Seuratvirus</i> <i>Nonagvirus</i> deazaguanine modification pathway preQ<sub>0</sub> transporter |
| title | A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family |
| title_full | A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family |
| title_fullStr | A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family |
| title_full_unstemmed | A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family |
| title_short | A New <i>Enterobacter cloacae</i> Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family |
| title_sort | new i enterobacter cloacae i bacteriophage ec151 encodes the deazaguanine dna modification pathway and represents a new genus within the siphoviridae family |
| topic | <i>Enterobacter</i> phage <i>Seuratvirus</i> <i>Nonagvirus</i> deazaguanine modification pathway preQ<sub>0</sub> transporter |
| url | https://www.mdpi.com/1999-4915/13/7/1372 |
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