-
Bankevich, A., Nurk, S., Antipov, D., Gurevich, A.A., Dvorkin, M., Kulikov, A.S., Lesin, V.M., Nikolenko, S.I., Pham, S., Prjibelski, A.D., Pyshkin, A.V., Sirotkin, A.V., Vyahhi, N., Tesler, G., Alekseyev, M.A., Pevzner, P.A., 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J. Comput. Biol. 19, 455-477.
-
Bulssico, J., Papukashvili, I., Espinosa, L., Gandon, S., Ansaldi, M., 2023. Phage-antibiotic synergy: cell filamentation is a key driver of successful phage predation. PLoS Pathog. 19, e1011602.
-
Burmeister, A.R., Fortier, A., Roush, C., Lessing, A.J., Bender, R.G., Barahman, R., Grant, R., Chan, B.K., Turner, P.E., 2020. Pleiotropy complicates a trade-off between phage resistance and antibiotic resistance. Proc. Natl. Acad. Sci. USA 117, 11207-11216.
-
Chan, B.K., Sistrom, M., Wertz, J.E., Kortright, K.E., Narayan, D., Turner, P.E., 2016. Phage selection restores antibiotic sensitivity in MDR Pseudomonas aeruginosa. Sci. Rep. 6, 26717.
-
Choi, Y.J., Kim, S., Shin, M., Kim, J., 2024. Synergistic antimicrobial effects of phage vB_AbaSi_W9 and antibiotics against Acinetobacter baumannii Infection. Antibiotics (Basel) 13, 680.
-
Coil, D., Jospin, G., Darling, A.E., 2014. A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data. Bioinformatics 31, 587-589.
-
Comeau, A.M., Tetart, F., Trojet, S.N., Prere, M.F., Krisch, H., 2007. Phage-antibiotic synergy (PAS): β-lactam and quinolone antibiotics stimulate virulent phage growth. PLoS One 2, e799.
-
de Leeuw, M., Baron, M., Ben David, O., Kushmaro, A., 2020. Molecular insights into bacteriophage evolution toward its host. Viruses 12, 1132.
-
Dehbanipour, R., Ghalavand, Z., 2022. Acinetobacter baumannii: pathogenesis, virulence factors, novel therapeutic options and mechanisms of resistance to antimicrobial agents with emphasis on tigecycline. J. Clin. Pharm. Ther. 47, 1875-1884.
-
Diallo, K., Dublanchet, A., 2022. Benefits of combined phage-antibiotic therapy for the control of antibiotic-resistant bacteria: a literature review. Antibiotics (Basel) 11, 839.
-
Fujiki, J., Nakamura, K., Nakamura, T., Iwano, H., 2023. Fitness trade-offs between phage and antibiotic sensitivity in phage-resistant variants: molecular action and insights into clinical applications for phage therapy. Int. J. Mol. Sci. 24, 15628.
-
Gordillo Altamirano, F.L., Barr, J.J., 2019. Phage therapy in the postantibiotic era. Clin. Microbiol. Rev. 32, 10-1128.
-
Grygorcewicz, B., Roszak, M., Golec, P., Sleboda-Taront, D., Lubowska, N., Gorska, M., Jursa-Kulesza, J., Rakoczy, R., Wojciuk, B., Dolegowska, B., 2020. Antibiotics act with vB_AbaP_AGC01 phage against Acinetobacter baumannii in human heat-inactivated plasma blood and Galleria mellonella models. Int. J. Mol. Sci. 21, 4390.
-
Han, P., Pu, M., Li, Y., Fan, H., Tong, Y., 2023. Characterization of bacteriophage BUCT631 lytic for K1 Klebsiella pneumoniae and its therapeutic efficacy in Galleria mellonella larvae. Virol. Sin. 38, 801-812.
-
He, P., Cao, F., Qu, Q., Geng, H., Yang, X., Xu, T., Wang, R., Jia, X., Lu, M., Zeng, P., Luan, G., 2024. Host range expansion of Acinetobacter phage vB_Ab4_Hep4 driven by a spontaneous tail tubular mutation. Front. Cell. Infect. Microbiol. 14, 1301089.
-
Huang, L., Huang, S., Jiang, L., Tan, J., Yan, X., Gou, C., Chen, X., Xiang, L., Wang, D., Huang, G., Zhang, Y., Deng, C., 2023. Characterisation and sequencing of the novel phage Abp95, which is effective against multi-genotypes of carbapenem-resistant Acinetobacter baumannii. Sci. Rep. 13, 188.
-
Ibrahim, S., Al-Saryi, N., Al-Kadmy, I.M., Aziz, S.N., 2021. Multidrug-resistant Acinetobacter baumannii as an emerging concern in hospitals. Mol. Biol. Rep. 48, 6987-6998.
-
Kakian, F., Arasteh, N., Mirzaei, E., Motamedifar, M., 2024. Study of MIC of silver and zinc oxide nanoparticles, strong and cost-effective antibacterial against biofilm-producing Acinetobacter baumannii in Shiraz, Southwest of Iran. BMC Infect. Dis. 24, 593.
-
Kasman, L.M., Porter, L.D., 2022. Bacteriophages. StatPearls Publishing, Treasure Island.
-
Khan Mirzaei, M., Nilsson, A.S., 2015. Isolation of phages for phage therapy: a comparison of spot tests and efficiency of plating analyses for determination of host range and efficacy. PLoS One 10, e0118557.
-
Kirby, A.E., 2012. Synergistic action of gentamicin and bacteriophage in a continuous culture population of Staphylococcus aureus. PLoS One 7, e51017.
-
Kropinski, A.M., Prangishvili, D., Lavigne, R., 2009. Position paper: the creation of a rational scheme for the nomenclature of viruses of Bacteria and Archaea. Environ. Microbiol. 11, 2775-2777.
-
Kropinski, A.M., Mazzocco, A., Waddell, T.E., Lingohr, E., Johnson, R.P., 2009. Enumeration of bacteriophages by double agar overlay plaque assay, in: Clokie, M.R., Kropinski, A.M. (Eds.), Methods in molecular biology. Humana Press, Clifton, N.J., pp. 69-76.
-
Laemmli, U.K., 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680-685.
-
Lai, W.C.B., Chen, X., Ho, M.K.Y., Xia, J., Leung, S.S.Y., 2020. Bacteriophage-derived endolysins to target gram-negative bacteria. Int. J. Pharm. 589, 119833.
-
Le, S., He, X., Tan, Y., Huang, G., Zhang, L., Lux, R., Shi, W., Hu, F., 2013. Mapping the tail fiber as the receptor binding protein responsible for differential host specificity of Pseudomonas aeruginosa bacteriophages PaP1 and JG004. PLoS One 8, e68562.
-
Lee, D., Im, J., Na, H., Ryu, S., Yun, C.H., Han, S.H., 2019. The novel Enterococcus phage vB_EfaS_HEf13 has broad lytic activity against clinical isolates of Enterococcus faecalis. Front. Microbiol. 10, 2877.
-
Luo, J., Liu, M., Ai, W., Zheng, X., Liu, S., Huang, K., Zhang, C., Li, Q., Luo, C., 2024. Synergy of lytic phage pB23 and meropenem combination against carbapenem-resistant Acinetobacter baumannii. Antimicrob. Agents Chemother. 68, e0044824.
-
Luong, T., Salabarria, A.C., Roach, D.R., 2020. Phage therapy in the resistance era: where do we stand and where are we going? Clin. Ther. 42, 1659-1680.
-
Maure, A., Robino, E., Van Der Henst, C., 2023. The intracellular life of Acinetobacter baumannii. Trends Microbiol. 31, 1238-1250.
-
Moraru, C., Varsani, A., Kropinski, A.M., 2020. VIRIDIC-a novel tool to calculate the intergenomic similarities of prokaryote-infecting viruses. Viruses 12, 1268.
-
Muller, C., Reuter, S., Wille, J., Xanthopoulou, K., Stefanik, D., Grundmann, H., Higgins, P.G., Seifert, H., 2023. A global view on carbapenem-resistant Acinetobacter baumannii. mBio 14, e0226023.
-
Nasukawa, T., Uchiyama, J., Taharaguchi, S., Ota, S., Ujihara, T., Matsuzaki, S., Murakami, H., Mizukami, K., Sakaguchi, M., 2017. Virus purification by CsCl density gradient using general centrifugation. Arch. Virol. 162, 3523-3528.
-
Ouyang, R., Ongenae, V., Muok, A., Claessen, D., Briegel, A., 2024. Phage fibers and spikes: a nanoscale Swiss army knife for host infection. Curr. Opin. Microbiol. 77, 102429.
-
Roach, D.R., Leung, C.Y., Henry, M., Morello, E., Singh, D., Di Santo, J.P., Weitz, J.S., Debarbieux, L., 2017. Synergy between the host immune system and bacteriophage is essential for successful phage therapy against an acute respiratory pathogen. Cell Host Microbe 22, 38-47.
-
Rodriguez-Gonzalez, R.A., Balacheff, Q., Debarbieux, L., Marchi, J., Weitz, J.S., 2024. Metapopulation model of phage therapy of an acute Pseudomonas aeruginosa lung infection. mSystems 9, e124-e171.
-
Salmond, G.P., Fineran, P.C., 2015. A century of the phage: past, present and future. Nat. Rev. Microbiol. 13, 777-786.
-
Santini, J.M., 2024. The new age of the phage. Essays Biochem. 68, 579-581.
-
Schooley, R.T., Biswas, B., Gill, J.J., Hernandez-Morales, A., Lancaster, J., Lessor, L., Barr, J.J., Reed, S.L., Rohwer, F., Benler, S., Segall, A.M., Taplitz, R., Smith, D.M., Kerr, K., Kumaraswamy, M., Nizet, V., Lin, L., McCauley, M.D., Strathdee, S.A., Benson, C.A., Pope, R.K., Leroux, B.M., Picel, A.C., Mateczun, A.J., Cilwa, K.E., Regeimbal, J.M., Estrella, L.A., Wolfe, D.M., Henry, M.S., Quinones, J., Salka, S., Bishop-Lilly, K.A., Young, R., Hamilton, T., 2017. Development and use of personalized bacteriophage-based therapeutic cocktails to treat a patient with a disseminated resistant Acinetobacter baumannii infection. Antimicrob. Agents Chemother. 61, e0095417.
-
Shrum, B., Anantha, R.V., Xu, S.X., Donnelly, M., Haeryfar, S.M., McCormick, J.K., Mele, T., 2014. A robust scoring system to evaluate sepsis severity in an animal model. BMC Res. Notes 7, 233.
-
Simmonds, P., Adriaenssens, E.M., Zerbini, F.M., Abrescia, N.G., Aiewsakun, P., Alfenas-Zerbini, P., Bao, Y., Barylski, J., Drosten, C., Duffy, S., Duprex, W.P., Dutilh, B.E., Elena, S.F., Garcia, M.L., Junglen, S., Katzourakis, A., Koonin, E.V., Krupovic, M., Kuhn, J.H., Lambert, A.J., Lefkowitz, E.J., Lobocka, M., Lood, C., Mahony, J., Meier-Kolthoff, J.P., Mushegian, A.R., Oksanen, H.M., Poranen, M.M., Reyes-Munoz, A., Robertson, D.L., Roux, S., Rubino, L., Sabanadzovic, S., Siddell, S., Skern, T., Smith, D.B., Sullivan, M.B., Suzuki, N., Turner, D., Van Doorslaer, K., Vandamme, A.M., Varsani, A., Vasilakis, N., 2023. Four principles to establish a universal virus taxonomy. PLoS Biol. 21, e3001922.
-
Subramanian, S., Dover, J.A., Parent, K.N., Doore, S.M., 2022. Host range expansion of Shigella phage Sf6 evolves through point mutations in the tailspike. J. Virol. 96, e92922.
-
Summers, W.C., 2024. The cold war and phage therapy: how geopolitics stalled development of viruses as antibacterials. Annu. Rev. Virol. 11, 381-393.
-
Taati Moghadam, M., Amirmozafari, N., Shariati, A., Hallajzadeh, M., Mirkalantari, S., Khoshbayan, A., Masjedian Jazi, F., 2020. How phages overcome the challenges of drug resistant bacteria in clinical infections. Infect. Drug Resist. 13, 45-61.
-
Tamma, P.D., Suh, G.A., 2021. Phage are all the rage: bacteriophage in clinical practice. J. Pediatric Infect. Dis. Soc. 10, 749-753.
-
Tiwari, B.R., Kim, S., Rahman, M., Kim, J., 2011. Antibacterial efficacy of lytic Pseudomonas bacteriophage in normal and neutropenic mice models. J. Microbiol. 49, 994-999.
-
Torres-Barcelo, C., Hochberg, M.E., 2016. Evolutionary rationale for phages as complements of antibiotics. Trends Microbiol. 24, 249-256.
-
Tu, Q., Pu, M., Li, Y., Wang, Y., Li, M., Song, L., Li, M., An, X., Fan, H., Tong, Y., 2023. Acinetobacter baumannii phages: past, present and future. Viruses 15, 673.
-
Turner, D., Kropinski, A.M., Adriaenssens, E.M., 2021. A roadmap for genome-based phage taxonomy. Viruses 13, 506.
-
Valencia-Toxqui, G., Ramsey, J., 2024. How to introduce a new bacteriophage on the block: a short guide to phage classification. J. Virol. 98, e0182123.
-
Wang, Z., Bi, J., Wang, H., Tan, M., 2021. Assessment of potential toxicity of onion-like carbon nanoparticles from grilled turbot Scophthalmus maximus L. Foods 11, 95.
-
Yang, H., Liang, L., Lin, S., Jia, S., 2010. Isolation and characterization of a virulent bacteriophage AB1 of Acinetobacter baumannii. BMC Microbiol. 10, 131.
-
Zheng, X., Liu, M., Li, P., Xu, S., Chen, L., Xu, G., Pang, X., Du, H., Huo, X., Tan, Z., Li, J., Li, Z., Zhang, W., 2024. Antibacterial activity evaluation of a novel K3-specific phage against Acinetobacter baumannii and evidence for receptor-binding domain transfer across morphologies. Virol. Sin. 39, 767-781.