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It is therefore important to develop alternatives or complementary approaches to antibiotics to tackle H. pylori infections, and (bacterio)phages have proven to be effective antibacterial agents. In this work, prophage isolation was attempted using H. pylori strains and UV radiation. One phage was isolated and further characterized to assess potential phage-inspired therapeutic alternatives to H. pylori infections. HPy1R is a new podovirus prophage with a genome length of 31,162 bp, 37.1% GC, encoding 36 predicted proteins, of which 17 were identified as structural. Phage particles remained stable at 37 \u00b0C, from pH 3 to 11, for 24 h in standard assays. Moreover, when submitted to an in vitro gastric digestion model, only a small decrease was observed in the gastric phase, suggesting that it is adapted to the gastric tract environment. Together with its other characteristics, its capability to suppress H. pylori population levels for up to 24 h post-infection at multiplicities of infection of 0.01, 0.1, and 1 suggests that this newly isolated phage is a potential candidate for phage therapy in the absence of strictly lytic phages.<\/jats:p>","DOI":"10.3390\/ijms23147885","type":"journal-article","created":{"date-parts":[[2022,7,17]],"date-time":"2022-07-17T22:57:06Z","timestamp":1658098626000},"page":"7885","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":19,"title":["Characterization and Genomic Analysis of a New Phage Infecting Helicobacter pylori"],"prefix":"10.3390","volume":"23","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7016-7944","authenticated-orcid":false,"given":"Rute","family":"Ferreira","sequence":"first","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"},{"name":"i3S\u2014Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade, University of Porto, 4200-135 Porto, Portugal"}]},{"given":"Cl\u00e1udia","family":"Sousa","sequence":"additional","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9806-8147","authenticated-orcid":false,"given":"Raquel F. S.","family":"Gon\u00e7alves","sequence":"additional","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8223-3742","authenticated-orcid":false,"given":"Ana Cristina","family":"Pinheiro","sequence":"additional","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6360-2576","authenticated-orcid":false,"given":"M\u00f3nica","family":"Oleastro","sequence":"additional","affiliation":[{"name":"Department of Infectious Diseases, National Institute of Health Doctor Ricardo Jorge (INSA), 1649-016 Lisbon, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2185-5724","authenticated-orcid":false,"given":"Jeroen","family":"Wagemans","sequence":"additional","affiliation":[{"name":"Laboratory of Gene Technology, KU Leuven, 3001 Leuven, Belgium"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7377-1314","authenticated-orcid":false,"given":"Rob","family":"Lavigne","sequence":"additional","affiliation":[{"name":"Laboratory of Gene Technology, KU Leuven, 3001 Leuven, Belgium"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5247-840X","authenticated-orcid":false,"given":"Ceu","family":"Figueiredo","sequence":"additional","affiliation":[{"name":"i3S\u2014Instituto de Investiga\u00e7\u00e3o e Inova\u00e7\u00e3o em Sa\u00fade, University of Porto, 4200-135 Porto, Portugal"},{"name":"Ipatimup\u2014Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal"},{"name":"Department of Pathology, Faculty of Medicine, University of Porto, 4200-319 Porto, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5180-7133","authenticated-orcid":false,"given":"Joana","family":"Azeredo","sequence":"additional","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6865-6044","authenticated-orcid":false,"given":"Lu\u00eds D. R.","family":"Melo","sequence":"additional","affiliation":[{"name":"CEB\u2014Centre of Biological Engineering, University of Minho, 4710-057 Braga, Portugal"},{"name":"LABBELS\u2014Associate Laboratory, Braga\/Guimar\u00e3es, Portugal"}]}],"member":"1968","published-online":{"date-parts":[[2022,7,17]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1111\/hel.12405","article-title":"Pathogenesis of Helicobacter pylori infection","volume":"22","author":"Camilo","year":"2017","journal-title":"Helicobacter"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1053\/j.gastro.2017.04.022","article-title":"Global Prevalence of Helicobacter pylori Infection: Systematic Review and Meta-Analysis","volume":"153","author":"Hooi","year":"2017","journal-title":"Gastroenterology"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"e4","DOI":"10.1017\/erm.2017.4","article-title":"Helicobacter pylori as an oncogenic pathogen, revisited","volume":"19","author":"Miftahussurur","year":"2017","journal-title":"Expert Rev. Mol. Med."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"e12734","DOI":"10.1111\/hel.12734","article-title":"Review: Epidemiology of Helicobacter pylori","volume":"25","author":"Mezmale","year":"2020","journal-title":"Helicobacter"},{"key":"ref_5","first-page":"e12638","article-title":"Review: Pathogenesis of Helicobacter pylori infection","volume":"24","author":"Denic","year":"2020","journal-title":"Helicobacter"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"12386","DOI":"10.1111\/hel.12386","article-title":"Survival of Helicobacter pylori in gastric acidic territory","volume":"22","author":"Ansari","year":"2017","journal-title":"Helicobacter"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"88","DOI":"10.1111\/mmi.13218","article-title":"Helicobacter pylori strains vary cell shape and flagellum number to maintain robust motility in viscous environments","volume":"99","author":"Hardcastle","year":"2016","journal-title":"Mol. Microbiol."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"822","DOI":"10.1016\/j.cell.2010.03.046","article-title":"Peptidoglycan crosslinking relaxation promotes Helicobacter pylori\u2019s helical shape and stomach colonization","volume":"141","author":"Sycuro","year":"2010","journal-title":"Cell"},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"6","DOI":"10.1136\/gutjnl-2016-312288","article-title":"Management of Helicobacter pylori infection-the Maastricht V\/Florence Consensus Report","volume":"66","author":"Malfertheiner","year":"2017","journal-title":"Gut"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"1372","DOI":"10.1053\/j.gastro.2018.07.007","article-title":"Prevalence of Antibiotic Resistance in Helicobacter pylori: A Systematic Review and Meta-analysis in World Health Organization Regions Materials and Methods Search Strategy and Selection Criteria Data Extraction","volume":"155","author":"Savoldi","year":"2018","journal-title":"Gastroenterology"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"169","DOI":"10.1016\/j.jconrel.2014.06.020","article-title":"Eradication of Helicobacter pylori: Past, present and future","volume":"189","author":"Lopes","year":"2014","journal-title":"J. Control. Release"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1080\/1040841X.2021.1975643","article-title":"Helicobacter pylori infection: From standard to alternative treatment strategies","volume":"48","author":"Sousa","year":"2021","journal-title":"Crit. Rev. Microbiol."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"318","DOI":"10.1016\/S1473-3099(17)30753-3","article-title":"Discovery, research, and development of new antibiotics: The WHO priority list of antibiotic-resistant bacteria and tuberculosis","volume":"18","author":"Tacconelli","year":"2018","journal-title":"Lancet Infect. Dis."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"111","DOI":"10.4161\/bact.1.2.14590","article-title":"Pros and cons of phage therapy","volume":"1","author":"Abedon","year":"2011","journal-title":"Bacteriophage"},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"777","DOI":"10.1038\/nrmicro3564","article-title":"A century of the phage: Past, present and future","volume":"13","author":"Salmond","year":"2015","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"368","DOI":"10.1016\/j.tim.2018.10.008","article-title":"Phage Therapy: Going Temperate?","volume":"27","author":"Monteiro","year":"2019","journal-title":"Trends Microbiol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/j.anaerobe.2013.05.001","article-title":"Evaluation of bacteriophage therapy to control Clostridium difficile and toxin production in an in vitro human colon model system","volume":"22","author":"Meader","year":"2013","journal-title":"Anaerobe"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"e12779","DOI":"10.1111\/hel.12779","article-title":"An American lineage of Helicobacter pylori prophages found in Colombia","volume":"26","author":"Vale","year":"2021","journal-title":"Helicobacter"},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"e00239-11","DOI":"10.1128\/mBio.00239-11","article-title":"Genome sequencing reveals a phage in Helicobacter pylori","volume":"2","author":"Lehours","year":"2011","journal-title":"MBio"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"14333","DOI":"10.1038\/srep14333","article-title":"Dormant phages of Helicobacter pylori reveal distinct populations in Europe","volume":"5","author":"Vale","year":"2015","journal-title":"Sci. Rep."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"e12394","DOI":"10.1111\/hel.12394","article-title":"Phylogeographic agreement between prophage and bacterial housekeeping genes in Helicobacter pylori strains from The Gambia","volume":"22","author":"Secka","year":"2017","journal-title":"Helicobacter"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"42471","DOI":"10.1038\/srep42471","article-title":"Genomic structure and insertion sites of Helicobacter pylori prophages from various geographical origins","volume":"7","author":"Vale","year":"2017","journal-title":"Sci. Rep."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"e2012","DOI":"10.7717\/peerj.2012","article-title":"Comparative analysis of prophage-like elements in Helicobacter sp. genomes","volume":"4","author":"Fan","year":"2016","journal-title":"PeerJ"},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Thiberge, J., Boursaux-eude, C., Lehours, P., Dillies, M., Creno, S., Copp\u00e9e, Y., Rouy, Z., Lajus, A., Ma, L., and Burucoa, C. (2010). From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma. BMC Genomic, 11.","DOI":"10.1186\/1471-2164-11-368"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"1073","DOI":"10.1128\/JB.01021-13","article-title":"Comparative analysis of the full genome of Helicobacter pylori isolate Sahul64 identifies genes of high divergence","volume":"196","author":"Lu","year":"2014","journal-title":"J. Bacteriol."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"e0120659","DOI":"10.1371\/journal.pone.0120659","article-title":"Comparative Genomics of a Helicobacter pylori Isolate from a Chinese Yunnan Naxi Ethnic Aborigine Suggests High Genetic Divergence and Phage Insertion","volume":"10","author":"You","year":"2015","journal-title":"PLoS ONE"},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"fnw157","DOI":"10.1093\/femsle\/fnw157","article-title":"Screening of KHP30-like prophages among Japanese Helicobacter pylori strains, and genetic analysis of a defective KHP30-like prophage sequence integrated in the genome of the H. pylori strain NY40","volume":"363","author":"Uchiyama","year":"2016","journal-title":"FEMS Microbiol. Lett."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1099\/00222615-38-4-245","article-title":"Characterisation of a Helicobacter pylori phage (HP1)","volume":"38","author":"Nalik","year":"1993","journal-title":"J. Med. Microbiol."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"8781","DOI":"10.1128\/JVI.00446-12","article-title":"Genome, integration, and transduction of a novel temperate phage of Helicobacter pylori","volume":"86","author":"Luo","year":"2012","journal-title":"J. Virol."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"3176","DOI":"10.1128\/AEM.03530-12","article-title":"Characterization of Helicobacter pylori bacteriophage KHP30","volume":"79","author":"Uchiyama","year":"2013","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"821","DOI":"10.2217\/fvl.13.58","article-title":"Isolation and characterization of bacteriophages of Helicobacter pylori isolted from Egypt","volume":"8","author":"Askora","year":"2013","journal-title":"Future Virol."},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Cuomo, P., Papaianni, M., Fulgione, A., Guerra, F., Capparelli, R., and Medaglia, C. (2020). An innovative approach to control H. pylori-induced persistent inflammation and colonization. Microorganisms, 8.","DOI":"10.3390\/microorganisms8081214"},{"key":"ref_33","unstructured":"King, A. (2011). Virus taxonomy: Ninth report of the International Committee on Taxonomy of Viruses, Elsevier."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1007\/978-1-60327-565-1_7","article-title":"Determining DNA Packaging Strategy by Analysis of the Termini of the Chromosomes in Tailed-Bacteriophage Virions","volume":"502","author":"Casjens","year":"2009","journal-title":"Methods Mol. Biol."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"1113","DOI":"10.1039\/C3FO60702J","article-title":"A standardised static in vitro digestion method suitable for food-an international consensus","volume":"5","author":"Minekus","year":"2014","journal-title":"Food Funct."},{"key":"ref_36","unstructured":"Levy, M.I., Luebering, J.E., Barton, M., Bosco, S., Braucher, L.S., Charboneau, Y., Nakamura, K., and Rogers, K. (2011). The Digestive System, Britannica Educational Publishing in association with Rosen Educational Services, LLC. [1st ed.]."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"11400","DOI":"10.1128\/JVI.01767-12","article-title":"Complete Genome Sequences of Two Helicobacter pylori Bacteriophages Isolated from Japanese Patients","volume":"86","author":"Uchiyama","year":"2012","journal-title":"J. Virol."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1017\/S1431927613000755","article-title":"Comparison of induction of B45 Helicobacter pylori prophage by acid and UV radiation","volume":"19","author":"Lehours","year":"2013","journal-title":"Microsc. Microanal."},{"key":"ref_39","unstructured":"Schaechter, M. (2009). Bacteriophage Ecology. Encyclopedia of Microbiology, Academic Press."},{"key":"ref_40","first-page":"1","article-title":"Characterising the biology of novel lytic bacteriophages infecting multidrug resistant Klebsiella pneumoniae","volume":"10","author":"Kassner","year":"2013","journal-title":"Virol. J."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1016\/S0065-2164(10)70007-1","article-title":"Bacteriophage Host Range and Bacterial Resistance","volume":"70","author":"Hyman","year":"2010","journal-title":"Adv. Appl. Microbiol."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1016\/B978-0-12-800259-9.00004-4","article-title":"Bacteria\u2013Phage Interactions in Natural Environments","volume":"89","author":"Koskella","year":"2014","journal-title":"Adv. Appl. Microbiol."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1038\/nrmicro2315","article-title":"Bacteriophage resistance mechanisms","volume":"8","author":"Labrie","year":"2010","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"1386","DOI":"10.1016\/S0016-5085(97)70155-0","article-title":"A standardized mouse model of Helicobacter pylori infection: Introducing the Sydney strain","volume":"112","author":"Lee","year":"1997","journal-title":"Gastroenterology"},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"4668","DOI":"10.1128\/IAI.72.8.4668-4679.2004","article-title":"Chronic Helicobacter pylori Infection with Sydney Strain 1 and a Newly Identified Mouse-Adapted Strain (Sydney Strain 2000) in C57BL\/6 and BALB\/c Mice","volume":"72","author":"Thompson","year":"2004","journal-title":"Infect. Immun."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"1011","DOI":"10.1042\/BST20150135","article-title":"The substrate-binding protein in bacterial ABC transporters: Dissecting roles in the evolution of substrate specificity","volume":"43","author":"Maqbool","year":"2015","journal-title":"Biochem. Soc. Trans."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"769","DOI":"10.2217\/fmb.13.47","article-title":"Phage cocktails and the future of phage therapy","volume":"8","author":"Chan","year":"2013","journal-title":"Future Microbiol."},{"key":"ref_48","doi-asserted-by":"crossref","unstructured":"Yang, H.J., Zhang, J.Y., Wei, C., Yang, L.Y., Zuo, Q.F., Zhuang, Y., Feng, Y.J., Srinivas, S., Zeng, H., and Zou, Q.M. (2016). Immunisation With Immunodominant Linear B Cell Epitopes Vaccine of Manganese Transport Protein C Confers Protection against Staphylococcus aureus Infection. PLoS ONE, 11.","DOI":"10.1371\/journal.pone.0149638"},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"6702","DOI":"10.1128\/IAI.69.11.6702-6706.2001","article-title":"Immunization with components of two iron uptake ABC transporters protects mice against systemic Streptococcus pneumoniae infection","volume":"69","author":"Brown","year":"2001","journal-title":"Infect. Immun."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"191","DOI":"10.1007\/s12223-011-0039-8","article-title":"The influence of external factors on bacteriophages\u2014review","volume":"56","year":"2011","journal-title":"Folia Microbiol."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"39235","DOI":"10.1038\/srep39235","article-title":"Genetically manipulated phages with improved pH resistance for oral administration in veterinary medicine","volume":"6","author":"Nobrega","year":"2016","journal-title":"Sci. Rep."},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"e01979-20","DOI":"10.1128\/AEM.01979-20","article-title":"Encapsulation and Delivery of Therapeutic Phages 1 Downloaded from","volume":"87","author":"Loh","year":"2020","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_53","doi-asserted-by":"crossref","unstructured":"Costa, P., Pereira, C., Gomes, A.T.P.C., and Almeida, A. (2019). Efficiency of Single Phage Suspensions and Phage Cocktail in the Inactivation of Escherichia coli and Salmonella Typhimurium: An in vitro Preliminary Study. Microorganisms, 7.","DOI":"10.3390\/microorganisms7040094"},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1016\/j.resmic.2014.09.012","article-title":"Characterization of Staphylococcus epidermidis phage vB_SepS_SEP9\u2014A unique member of the Siphoviridae family","volume":"165","author":"Melo","year":"2014","journal-title":"Res. Microbiol."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"506","DOI":"10.1099\/vir.0.060590-0","article-title":"Isolation and characterization of a new Staphylococcus epidermidis broad-spectrum bacteriophage","volume":"95","author":"Melo","year":"2014","journal-title":"J. Gen. Virol."},{"key":"ref_56","doi-asserted-by":"crossref","unstructured":"Aziz, R.K., Bartels, D., Best, A.A., DeJongh, M., Disz, T., Edwards, R.A., Formsma, K., Gerdes, S., Glass, E.M., and Kubal, M. (2008). The RAST Server: Rapid Annotations using Subsystems Technology. BMC Genom., 9.","DOI":"10.1186\/1471-2164-9-75"},{"key":"ref_57","doi-asserted-by":"crossref","first-page":"W686","DOI":"10.1093\/nar\/gki366","article-title":"The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs","volume":"33","author":"Schattner","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"Altschul","year":"1990","journal-title":"J. Mol. Biol."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"W244","DOI":"10.1093\/nar\/gki408","article-title":"The HHpred interactive server for protein homology detection and structure prediction","volume":"33","author":"Soding","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1016\/S0014-5793(02)03730-4","article-title":"Reliability of transmembrane predictions in whole-genome data","volume":"532","author":"Sonnhammer","year":"2002","journal-title":"FEBS Lett."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"W429","DOI":"10.1093\/nar\/gkm256","article-title":"Advantages of combined transmembrane topology and signal peptide prediction\u2014The Phobius web server","volume":"35","author":"Kall","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"849","DOI":"10.1093\/bioinformatics\/17.9.849","article-title":"The HMMTOP transmembrane topology prediction server","volume":"17","author":"Tusnady","year":"2001","journal-title":"Bioinformatics"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1038\/nmeth.1701","article-title":"SignalP 4.0: Discriminating signal peptides from transmembrane regions","volume":"8","author":"Petersen","year":"2011","journal-title":"Nat. Methods"},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"D366","DOI":"10.1093\/nar\/gkp911","article-title":"phiSITE: Database of gene regulation in bacteriophages","volume":"38","author":"Klucar","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"356","DOI":"10.1093\/bioinformatics\/15.5.356","article-title":"Promoter 2.0: For the recognition of PolII promoter sequences","volume":"15","author":"Knudsen","year":"1999","journal-title":"Bioinformatics"},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"3406","DOI":"10.1093\/nar\/gkg595","article-title":"Mfold web server for nucleic acid folding and hybridization prediction","volume":"31","author":"Zuker","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"11","DOI":"10.4161\/rna.8.1.13346","article-title":"ARNold: A web tool for the prediction of Rho-independent transcription terminators","volume":"8","author":"Naville","year":"2011","journal-title":"RNA Biol."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"W78","DOI":"10.1093\/nar\/gkv487","article-title":"OrthoVenn: A web server for genome wide comparison and annotation of orthologous clusters across multiple species","volume":"43","author":"Wang","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"3348","DOI":"10.1128\/AAC.00419-13","article-title":"The Comprehensive Antibiotic Resistance Database","volume":"57","author":"McArthur","year":"2013","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"D749","DOI":"10.1093\/nar\/gkx1033","article-title":"TADB 2.0: An updated database of bacterial type II toxin\u2013antitoxin loci","volume":"46","author":"Xie","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41598-017-07910-5","article-title":"PhageTerm: A tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data","volume":"7","author":"Garneau","year":"2017","journal-title":"Sci. Rep."},{"key":"ref_72","doi-asserted-by":"crossref","unstructured":"Wagemans, J., Tsonos, J., Holtappels, D., Fortuna, K., Hernalsteens, J.P., De Greve, H., Estrozi, L.F., Bacia-Verloop, M., Moriscot, C., and Noben, J.P. (2020). Structural Analysis of Jumbo Coliphage phAPEC6. Int. J. Mol. Sci., 21.","DOI":"10.3390\/ijms21093119"},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"2856","DOI":"10.1038\/nprot.2006.468","article-title":"In-gel digestion for mass spectrometric characterization of proteins and proteomes","volume":"1","author":"Shevchenko","year":"2007","journal-title":"Nat. Protoc."},{"key":"ref_74","doi-asserted-by":"crossref","unstructured":"Chiva, C., Olivella, R., Borr\u00e0s, E., Espadas, G., Pastor, O., Sol\u00e9, A., and Sabid\u00f3, E. (2018). QCloud: A cloud-based quality control system for mass spectrometry-based proteomics laboratories. PLoS ONE, 13.","DOI":"10.1371\/journal.pone.0189209"},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"10543","DOI":"10.1007\/s00253-016-7858-0","article-title":"Characterization and genome sequencing of a Citrobacter freundii phage CfP1 harboring a lysin active against multidrug-resistant isolates","volume":"100","author":"Oliveira","year":"2016","journal-title":"Appl. Microbiol. Biotechnol."}],"container-title":["International Journal of Molecular Sciences"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1422-0067\/23\/14\/7885\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T23:52:30Z","timestamp":1760140350000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1422-0067\/23\/14\/7885"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,7,17]]},"references-count":75,"journal-issue":{"issue":"14","published-online":{"date-parts":[[2022,7]]}},"alternative-id":["ijms23147885"],"URL":"https:\/\/doi.org\/10.3390\/ijms23147885","relation":{},"ISSN":["1422-0067"],"issn-type":[{"value":"1422-0067","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,7,17]]}}}