Taxobox virus group i ordo Caudovirales familia Podoviridae subdivision ranks Sub families subdivision Autographivirinae Picovirinae The Podoviridae are a family of bacteriophage s, including the following genera Genus BPP 1 like viruses type species Salmonella phage BPP 1 Species Bordetella phage BPP 1 , Burkholderia phage BcepC6B , Salmonella phage BPP 1 Genus Epsilon15 like viruses type species Salmonella phage epsilon15 Species Escherichia phage PhiV10 , Salmonella phage epsilon15 Genus LUZ24 like viruses type species Pseudomonas phage LUZ24 Species Pseudomonas phage LUZ24 , Pseudomonas phage PaP3 Genus N4 like viruses type species Enterobacteria phage N4 Genus P22 like viruses type species Enterobacteria phage P22 Species Enterobacteria phage P22 , Salmonella phage HK620 , Salmonella phage ST64T , Shigella phage Sf6 Genus Phieco32 like viruses type species Enterobacteria phage Phieco32 Genus Unassigned Species Endosymbiont phage APSE 1 , Lactococcus phage KSY1 , Phormidium phage Pf WMP3 , Phormidium phage Pf WMP4 , Pseudomonas phage 119X , Pseudomonas phage F116 , Roseobacter phage SIO1 , Vibrio phage VpV262 Subfamilies Podoviridae includes the following subfamilies Subfamily Autographivirinae Genus PhiKMV like viruses type species Pseudomonas phage phiKMV Species Pseudomonas phage LKA1 , Pseudomonas phage phiKMV Genus SP6 like viruses type species Enterobacteria phage SP6 Species Enterobacteria phage K1 5 , Enterobacteria phage K1E , Enterobacteria phage K5 , Enterobacteria phage SP6 , Enterobacteria phage Era103 Genus T7 like viruses type species Enterobacteria phage T7 Species Enterobacteria phage T7 , Kluyvera phage Kvp1 , Pseudomonad phage gh 1 Genus Unassigned Species ... NCBI 10744 Taxonomy browser Podoviridae External links http www.expasy.org viralzone all by species 141.html Viralzone Podoviridae Baltimore classification Category Caudovirales Category Bacteriophages Category Microbiology Virus stub ar ca Podov rid de Podoviridae es Podoviridae zh ... more details
Taxobox virus group i ordo Caudovirales familia Podoviridae subfamilia Picovirinae subdivision ranks Genera subdivision Phi29 like viruses AHJD like viruses The Picovirinae are an established subfamily within the Podoviridae family of bacteriophage viruses. Phages of this clade of virus typically have a relatively small dsDNA genome between 16 20 kbp hence the term pico virinae . They also use a typical protein primed DNA polymerase for replication, a property shared with the Tectiviridae family. Currently, this subfamily contains two genera the Phi29 like viruses and the AHJD like viruses , as well as unassigned species Actinomyces phage Av 1 and Streptococcus phage Cp 1. This subdivision is based on genome organization and resemblance at the proteome level. References cite journal url http www.ncbi.nlm.nih.gov pubmed 18555669 title Unifying classical and molecular taxonomic classification analysis of the Podoviridae using BLASTP based tools last Lavigne first R. last2 Seto first2 D. last3 Mahadevan first3 P. last4 Ackermann first4 H. W. last5 Kropinki first5 A. M. journal Research in Microbiology volume 159 issue 5 year 2008 pages 406 14 virus stub Category Caudovirales ... more details
technical date January 2011 Taxobox virus group i ordo Caudovirales familia Podoviridae subdivision ranks Sub family subdivision Autographivirinae Autographivirinae are a taxonomy subfamily of virus es within the Podoviridae family. Since the 1990 s, the term T7 supergroup has been coined for the expanding group of bacteriophage s related to coliphage T7, as members of the Podoviridae family. Enterobacteriaceae phages SP6 and K1 5 were the first to be considered as an estranged subgroup of the T7 like viruses . ref cite journal url http www.ncbi.nlm.nih.gov pubmed 14729334 title Genomic analysis of bacteriophages SP6 and K1 5, an estranged subgroup of the T7 supergroup first Scholl last D. first2 Kieleczawa last2 J. last3 Kemp first3 P. last4 Rush first4 J. last5 Richardson first5 C. C. last6 Merril first6 C. last7 Adhya first7 S. last8 Molineux first8 I. J. journal Journal of Molecular Biology volume 445 issue 5 year 2004 pages 1151 71 ref Pseudomonas phage phiKMV also shared commonalities at the genome organizational level. As such, based on the available morphological and proteomic data, this clade of viruses was established as a subfamily of the Podoviridae family. The name of this subfamily, termed Autographivirinae , refers to the auto graphein or self transcribing phages which encode their own single subunit Ribonucleic acid RNA polymerase, a common characteristic among its members. Currently, the Autographivirinae are subdivided in three genera the T7 like viruses , the phiKMV like viruses and the SP6 like viruses . Unclassified members include cyanophages P60, syn5 and P SSP7. Other bacteriophages like Bacteriophage SIO1 and VpV262 are evolutionary related to the Autographivirinae , but do not contain a phage encoded RNA polymerase and and show greater differences at the genome organization level. ref cite journal url http www.ncbi.nlm.nih.gov pubmed 18555669 title Unifying classical and molecular taxonomic classification analysis of the Podoviridae using BLASTP ... more details
Unreferenced date February 2011 Phieco32 like viruses are a genus within the Podoviridae family. This genus was established based on a combination of Morphology biology morphological features and genome organization. Indeed, type species Enterobacteria phage Phieco32 Enterobacteria phage Phieco32 has a relatively rare morphology, a C3 morphotype, with an elongated head 145 x 44 nm and a short tail 13 nm with short kinked tail fibers. These Bacteriophage phages are temperate and are capable of Transduction genetics generalized transduction with Lysogenic cycle lysogenic conversion , and can have very high burst sizes. Category Caudovirales Category Bacteriophages Category Microbiology Virus stub ... more details
technical date January 2011 Taxobox virus group i ordo Caudovirales familia Podoviridae genus LUZ24 like viruses subdivision ranks Species subdivision Pseudomonas phage LUZ24 LUZ24 Pseudomonas phage PaP3 PaP3 LUZ24 like viruses are a genus of Podoviridae viruses. Current species within this genus are the Pseudomonas eating viruses Pseudomonas phage LUZ24 LUZ24 and Pseudomonas phage PaP3 PaP3 , which have diverged strongly from other phages with known genomes. ref cite journal url http www.ncbi.nlm.nih.gov pubmed 18555669 title Unifying classical and molecular taxonomic classification analysis of the Podoviridae using BLASTP based tools last Lavigne first R. last2 Seto first2 D. last3 Mahadevan first3 P. last4 Ackermann first4 H. W. last5 Kropinski first5 A.M. journal Research in Microbiology volume 159 issue 5 year 2008 pages 406 14 ref ref cite journal author Ceyssens P. J. Lavigne, R. title Bacteriophages of Pseudomonas journal Future Microbiology volume 5 issue 7 pages 1041 55 year 2010 month July pmid 20632804 doi 10.2217 fmb.10.66 url ref Their virion constitutes an icosahedral head 63nm and a short tail 12x8 nm . Although these phages produce small and turbid plaques, all attempts to isolate stable lysogenic P. aeruginosa clones failed. In addition, their genome around 45kb does not encode obvious genes indicative of lysogeny. ref cite journal author Ceyssens, P. J. Hertveldt, K. Ackermann, H. ., et al. title The intron containing genome of the lytic Pseudomonas phage LUZ24 resembles the temperate phage PaP3 journal Virology journal Virology volume 377 issue 2 pages 233 8 year 2008 month August pmid 18519145 doi 10.1016 j.virol.2008.04.038 url ref References Reflist virus stub Category Caudovirales ... more details
The Bpp 1 like viruses are a genus within the Podoviridae family of bacteriophages. This genus of temperate phages is named after its first sequenced member Bordetella phage BPP 1 type species . It includes several Betaproteobacteria infecting phages like BMP 1, BIP 1 and Burkholderia phage BcepC6B. ref cite pmid 18555669 ref The BPP 1 like viruses share several mainly morphogenesis related gene prodcuts with VP2 related and eta15 related phages. Their dsDNA genomes are in the range of 42kb and usually encodes about 50 proteins. The Bordetella phages of this genus contains an RNA directed DNA polymerase which plays a role in tropism. ref cite pmid 20160083 ref ref cite pmid 14973019 ref References reflist virus stub Category Bacteriophages ... more details
notability date February 2011 technical date February 2011 The Epsilon like viruses are a genus within the Podoviridae , containing bacteriophages eta15 and phiV10. These phages are temperate and infect Salmonella and Escherichia coli , respectively. The virion heads are icosahedral, about 70 nm in diamter, with a short tail of about 15 nm and tailspikes surrounding an external tail hub. The genomes of these phages are linear ds DNA about 40kb , terminally redundant and circularly permuted. Transcriptional units separate the genome in an early and a late region, one on the negative strand regulation and recombination , the one on the positive strand packaging, morphogenesis, lysis and integration . ref cite pmid 18555669 ref References reflist Uncategorized date January 2011 ... more details
technical date January 2011 Taxobox virus group i ordo Caudovirales familia Podoviridae subfamilia Autographivirinae genus PhiKMV like viruses PhiKMV like viruses are a genus of Autographivirinae viruses. Bacteriophage phiKMV ref cite journal last1 Lavigne first1 Rob last2 Burkal tseva first2 Maria V. last3 Robben first3 Johan last4 Sykilinda first4 Nina N. last5 Kurochkina first5 Lidia P. last6 Grymonprez first6 Barbara last7 Jonckx first7 Bart last8 Krylov first8 Victor N. last9 Mesyanzhinov first9 Vadim V. title The genome of bacteriophage KMV, a T7 like virus infecting Pseudomonas aeruginosa journal Virology volume 312 issue 1 pages 49 59 year 2003 pmid 12890620 doi 10.1016 S0042 6822 03 00123 5 ref and its relatives are known to be highly virulent phages, producing large Convert 3 15 mm abbr on diameter clear plaques upon plating on a susceptible host. ref cite journal last1 Ceyssens first1 P. J. last2 Lavigne first2 R. last3 Mattheus first3 W. last4 Chibeu first4 A. last5 Hertveldt first5 K. last6 Mast first6 J. last7 Robben first7 J. last8 Volckaert first8 G. title Genomic Analysis of Pseudomonas aeruginosa Phages LKD16 and LKA1 Establishment of the KMV Subgroup within the T7 Supergroup journal Journal of Bacteriology volume 188 issue 19 pages 6924 31 year 2006 pmid 16980495 pmc 1595506 doi 10.1128 JB.00831 06 ref The only reported exception is phage LKA1, which yields small plaques Convert 1 mm abbr on surrounded by a halo. While all other P. aeruginosa specific phiKMV like viruses use the Type IV pili as primary receptor, LKA1 particles attach to the bacterial lipopolysacharide layer. Electron microscope Electron microscopic imaging of purified phage particles revealed these phages as typical members of the Podoviridae , with a head diameter of approximately Convert 60 nm abbr on and a stubby tail with a length of 8 10nm. Although phiKMV phage resembles the well ... classical and molecular taxonomic classification analysis of the Podoviridae using BLASTP based ... more details
Wikify date January 2011 notability date February 2011 technical date February 2011 The N4 like viruses are a genus within the Podoviridae family. ref cite pmid 18555669 ref Bacteriophage N4 is type species for this genus and was originally isolated from the sewers Genoa, Italy against Escherichia coli K 12. Recently, a number of genomically related phages were isolated, infecting Silicibacter and Sulfitobacter DSS3 2 and EE36 1 ref cite pmid 19689706 ref as well as a number of Pseudomonas phages LUZ7, LIT1 and PEV2 ref cite pmid 20619867 . ref Virion have icosahedral heads 70 nm and short tails 10 nm , and contain short fibers originating from the junction between the head and tail. All the phages of this genus are strictly virulent and contain a linear dsDNA genome with terminal repeats in the range of 70 75kb. A remarkable feature of this clade of phages is the use of three distinct RNA polymerases during its infection cycle. A giant virion encapsulated RNAP polymerase which is co injected early transcription , a heterodimeric phage RNA polymerase middle region and the host RNA polymerase recognizes late promoters . ref cite pmid 18374942 ref References reflist Uncategorized date January 2011 ... more details
Taxobox color violet name Caudovirales virus group I ordo Caudovirales subdivision ranks Families subdivision Myoviridae br Podoviridae br Siphoviridae The Caudovirales are an order of virus es, better known as the tailed bacteriophage s . Under the Baltimore classification scheme, the Caudovirales are group I viruses as they have double stranded DNA dsDNA genomes, which can be anywhere from 18 kbp to 500 kbp in length. The virus particles have a distinct shape each virion has an Icosohedral head that contains the genome, and is attached to a tail by a connector. The order encompasses a wide range of viruses, many of which have the same or similar genes however the nucleotide sequence can vary quite significantly, even amongst the same genus. Due to their characteristic structure, it is believed they share a common origin. Infection Upon encountering a host bacterium, the tail section of the virion binds to receptors on the cell surface, and delivers the DNA into the cell by use of an injectisome like mechanism an injectisome is a nanomachine that evolved for the delivery of proteins, by type three secretion system type III secretion . The tail section of the virus punches a hole through the bacterial cell wall and plasma membrane, and the genome passes down the tail into the cell. Once inside the genes are expressed from transcripts made by the host machinery, using host ribosomes . Typically, the genome is replicated by use of concatamers, in which over lapping segments of DNA are made, and then put together to form the whole genome. Assembly and Maturation Viral capsid proteins come together to form a precursor prohead , into which the genome enters. Once this has occurred, the prohead undergoes maturation by cleavage of capsid subunits to form an icosohedral phage head with 5 fold symmetry. After the head maturation, the tail is joined in one of two ways either the tail is constructed separately, and joined with the connector, or the tail is constructed directly ... more details
Taxobox name Enterobacteria phage T7 virus group I ordo Caudovirales familia Podoviridae subfamily genus T7 like viruses species T7 phage Bacteriophage T7 is a phage capable of infecting susceptible bacteria l cells. It infects most strains of Escherichia coli including Escherichia coli O157 H7 E. coli O157 H7 , a strain of E. coli which can cause foodborne illness . The virus is said to have complex structural symmetry, with a capsid of the phage that is spherical with an inner diameter of 55 Nanometer nm and a tail 19 nm in diameter and 28.5 nm long attached to the capsid. The head of the phage particle contains the roughly 40 Base pair Length measurements kbp dsDNA genome of T7. T7 has been used as a model in synthetic biology . Chan et al. 2005 refactored the genome of T7, replacing approximately 12 Base pair Length measurements kbp of its genome with engineered DNA. ref cite journal last Chan first Leon Y. authorlink coauthors Kosuri, Sriram Drew Endy Endy, Drew year 2005 month title Refactoring bacteriophage T7 journal Molecular Systems Biology volume 1 issue 1 pages 2005.0018 doi 10.1038 msb4100025 url accessdate quote pmid 16729053 pmc 1681472 ref The engineered DNA was designed to be easier to work with in a number of ways individual functional elements were separated by restriction endonuclease sites for simple modification, and overlapping protein coding domains were separated and, where necessary, modified by single base pair silent mutations . Components Gp5 encoded by gene gp5 is T7 phage s DNA polymerase . T7 polymerase uses E. coli s endogenous thioredoxin as a sliding clamp during phage DNA replication though thioredoxin normally has a different function . The sliding clamp functions to hold the polymerase onto the DNA, which increases the rate of synthesis initiation, the process by which a polymerase binds to DNA, is time consuming. The T7 promoter sequence is used extensively in molecular biology due to its extremely high affinity for RNA ... more details
29 Phi letter Phi 29 belongs to a family of related Bacteriophage s which includes, in addition to 29, phages PZA, 15, BS32, B103, M2Y M2 , Nf and GA 1. ref name McGrath cite book author Mc Grath S and van Sinderen D editors . title Bacteriophage Genetics and Molecular Biology edition 1st publisher Caister Academic Press year 2007 id ISBN 978 1 904455 14 1 ref These phages, which form part of the Podoviridae family , are the smallest Bacillus phages isolated to date and are among the smallest known dsDNA phages. Most of these phages infect Bacillus subtilis , but often they also infect other related species such as Bacillus amyloliquefaciens , Bacillus pumilus , and Bacillus licheniformis . Phages of this genus have been sub classified into three groups based on serological properties, DNA physical maps, peptide maps and partial or complete DNA sequences . The first group includes phages 29, PZA, 15 and BS32, and the second group includes B103, Nf and M2Y. The most distantly related phage of this family, GA 1, is unable to infect the standard B. subtilis strain 168 and has been placed in a third group. Sequence analysis of the 16S rRNA of the host strain of GA 1, G1R, showed that it is most closely related to B. pumilus . Biology of 29 29 is a paradigm for the study of several molecular mechanisms of general biological processes, including DNA replication and regulation of Transcription genetics transcription . The genome of 29 consists of a linear double stranded ds DNA , which has a terminal protein covalently linked to its 5 ends. Initiation of DNA replication , carried out by a protein primed mechanism, has been studied in detail in vitro and is considered to be a model system that is also used by other linear genomes with a terminal protein linked to their DNA ends. Phage 29 has also been proven to be a versatile system to study in vitro transcription regulation in general and the switch from early to late phage transcription in particular. The detaile ... more details
A DNA virus is a virus that has DNA as its genetic material and replicates using a DNA dependent DNA polymerase . The nucleic acid is usually double stranded DNA dsDNA but may also be single stranded DNA ssDNA . DNA viruses belong to either Group I or Group II of the Baltimore classification system for viruses. Single stranded DNA is usually expanded to double stranded in infected cells. Although Group VII viruses such as hepatitis B contain a DNA genome, they are not considered DNA viruses according to the Baltimore classification, but rather reverse transcribing viruses because they replicate through an RNA intermediate. Group I dsDNA viruses Order Caudovirales Family Myoviridae includes Enterobacteria phage T4 Family Podoviridae Family Siphoviridae includes Enterobacteria phage lambda Enterobacteria phage &lambda Order Herpesvirales Family Alloherpesviridae Family Herpesviridae includes human herpesviruses, chicken pox Varicella Zoster virus Family Malacoherpesviridae Unassigned families Family Ascovirus Ascoviridae Family Adenoviridae includes viruses which cause human adenovirus infection Family Asfarvirus Asfarviridae includes African swine fever virus Family baculovirus Baculoviridae Family Coccolithovirus Coccolithoviridae Family Corticovirus Corticoviridae Family Fusellovirus Fuselloviridae Family Guttavirus Guttaviridae Family Iridoviridae Family Lipothrixviridae Family Mimiviridae Family Whispovirus Nimaviridae Family Papillomavirus Papillomaviridae Family Phycodnaviridae Family Plasmavirus Plasmaviridae Family Polyomaviridae includes SV40 Simian virus 40 , JC virus Family Poxviridae includes Cowpox virus, smallpox Family Rudivirus Rudiviridae Family Tectivirus Tectiviridae Unassigned genera Ampullavirus Nudivirus Salterprovirus Sputnik virophage Rhizidiovirus Group II ssDNA viruses Unassigned bacteriophage families Family Inoviridae Family Microviridae Unassigned families Family Anelloviridae Family Circoviridae Family Geminiviridae Family Nanoviridae Fa ... more details
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