Personalized therapy with bacteriophages of digestive diseases ; Персонифицированная терапия бактериофагами заболеваний органов пищеварения

IPO “АIDSSPbR"

2022

Journal Infectology / Журнал инфектологии

application/pdf

https://journal.niidi.ru/jofin/article/view/1352/972; Young V.B. The role of the microbiome in human health and disease: an introduction for clinicians. BMJ. 2017; 356: j831.; Феклисова, Л.В. Дисбиотические нарушения слизистых оболочек ротоглотки у детей c рекуррентными респираторными заболеваниями в различные периоды / Л.В. Феклисова, Е.А. Медведева // Инфекционные болезни. 2016. – Т. 14, № 2. – С. 24–28.; Shkoporov A.N., Hill C. Bacteriophages of the human gut: the “known unknown” of the microbiome. Cell Host Microbe. 2019; 25 (2): 195–209.; Summers W.C. Bacteriophage therapy. Annu. Rev. Microbiol. 2001; 55: 437–451.; Aminov R. History of antimicrobial drug discovery: major classes and health impact. Biochem. Pharmacol. 2017; 133: 4–19.; Николаева, С.В. Что нужно знать об антибактериальной терапии респираторных инфекций у детей. Правильный старт – успешный финиш / С.В. Николаева [и др.] // Инфекционные болезни. 2020. – Т. 18, № 4. – С. 195–200.; Becattini S., Taur Y., Pamer E.G. Antibiotic-induced changes in the intestinal microbiota and disease. Trends Mol. Med. 2016; 22 (6): 458–478.; Mushegian A.R. Are there 10 31 virus particles on earth, or more, or fewer? J. Bacteriol. 2020; 202 (9): e00052-20.; Duan Y., Young R., Schnabl B. Bacteriophages and their potential for treatment of gastrointestinal diseases. Nat. Rev. Gastroenterol. Hepatol. 2021. https://doi.org/10.1038/s41575-021-00536-z.; Pratama A.A., van Elsas J.D. The “neglected” soil virome-potential role and impact. Trends Microbiol. 2018; 26 (8): 649–662.; Dion M.B., Oechslin F., Moineau S. Phage diversity, genomics and phylogeny. Nat. Rev. Microbiol. 2020; 18 (3): 125–138.; Hatfull G.F. Bacteriophage genomics. Curr. Opin. Microbiol. 2008; 11 (5): 447–453.; Al-Shayeb B., Sachdeva R., Chen L.-X., et al. Clades of huge phages from across earth’s ecosystems. Nature. 2020; 578 (7795): 425–431.; Gregory A.C., Zablocki O., Zayed A.A., et al. The gut virome database reveals age-dependent patterns of virome diversity in the human gut. Cell Host Microbe. 2020; 28 (5): 724–740.; Ofir G., Sorek R. Contemporary phage biology: from classic models to new insights. Cell. 2018; 172 (6): 1260–1270.; Silva J.B. Storms Z., Sauvageau D. Host receptors for bacteriophage adsorption. FEMS Microbiol. Lett. 2016; 363 (4): fnw002.; Young R. Bacteriophage lysis: mechanism and regulation. Microbiol. Rev. 1992; 56 (3): 430–481.; Dou C., Xiong J., Gu Y., et al. Structural and functional insights into the regulation of the lysis-lysogeny decision in viral communities. Nat. Microbiol. 2018; 3 (11): 1285–1294.; Howard-Varona C., Hargreaves K.R., Abedon S.T., Sullivan M.B. Lysogeny in nature: mechanisms, impact and ecology of temperate phages. ISMEJ. 2017; 11 (7): 1511–1520.; Bondy-Denomy J., Qian J., Westra E.R., et al. Prophages mediate defense against phage infection through diverse mechanisms. ISMEJ. 2016; 10: 2854–2866.; Fortier L.C., Sekulovic O. Importance of prophages to evolution and virulence of bacterial pathogens. Virulence. 2013; 4 (5): 354–365.; Alexeeva S., Guerra Martinez J.A., Spus M., Smid E.J. Spontaneously induced prophages are abundant in a naturally evolved bacterial starter culture and deliver competitive advantage to the host. BMC Microbiol. 2018; 18 (1): 120.; Nanda A.M., Thormann, K., Frunzke J. Impact of spontaneous prophage induction on the fitness of bacterial populations and host-microbe interactions. J. Bacteriol. 2015; 197 (3): 410–419.; Labrie S.J., Samson J.E., Moineau S. Bacteriophage resistance mechanisms. Nat. Rev. Microbiol. 2010; 8: 317–327.; Dufour N., Clermont O., La Combe B., et al. Bacteriophage LM33_P 1, a fast-acting weapon against the pandemic ST 131-025b:H4 Escherichia coli clonal complex. J. Antimicrob. Chemother. 2016; 71 (11): 3072–3080.; Liang G., Zhao C., Zhang H., et al. The stepwise assembly of the neonatal virome is modulated by breastfeeding. Nature. 2020; 581 (7809): 470–474.; Lim E.S., Wang D., Holtz L.R. The bacterial microbiome and virome milestones of infant development. Trends Microbiol. 2016; 24 (10): 801–810.; Shapiro J.W., Putonti C. Gene co-occurrence networks reflect bacteriophage ecology and evolution. mBio. 2018; 9 (2): eO1870–1917.; Santiago-Rodriguez T.M., Hollister E.B. Human virome and disease: high-throughput sequencing for virus discovery, identification of phage-bacteria dysbiosis and development of therapeutic approaches with emphasis on the human gut. Viruses. 2019; 11: 656.; Pourcel C., Midoux C., Vergnaud G., Latino L. A carrier state is established in Pseudomonas aeruginosa by phage LeviOrOl, a newly isolated ssRNA levivirus. J. Gen. Virol. 2017; 98 (8): 2181–2189.; Tripathi A., Debelius J., Brenner D.A., et al. The gut-liver axis and the intersection with the microbiome. Nat. Rev. Gastroenterol. Hepatol. 2018; 15 (7): 397–411.; Алексанина, Н.В. Фагорезистентность условнопатогенных бактерий кишечной микробиоты у детей с нарушениями микробиоценоза / Н.В. Алексанина, Т.И. Твердохлебова // Журнал инфектологии. – 2021. – Т. 13, № 2. – С. 102–107.; Clooney A.G., Sutton T.D.S., Shkoporov A.N., et al. Whole-virome analysis sheds light on viral dark matter in inflammatory bowel disease. Cell Host Microbe. 2019; 26 (6): 764–778.; Coughlan S., Das A., O’Herlihy E., et al. The gut virome in irritable bowel syndrome differs from that of controls. Gut Microbes. 2021; 13 (1): 1–15.; Lepage P., Colombet J., Marteau P., et al. Dysbiosis in inflammatory bowel disease: a role for bacteriophages? Gut. 2008; 57 (3): 424–425.; Zuo T., Lu X.-J., Zhang Y., et al. Gut mucosal virome alterations in ulcerative colitis. Gut. 2019; 68 (7): 1169–1179.; Norman J.M., Handley S.A., Baldridg M.T., et al. Disease-specific alterations in the enteric virome in inflammatory bowel disease. Cell. 2015; 160 (3): 447–460.; Nakatsu G., Zhou H., Wu K.K.W., et al. Alterations in enteric virome are associated with colorectal cancer and survival outcomes. Gastroenterology. 2018; 155 (2): 529–541.e5.; Jiang L., Lang S., Duan Y., et al. Intestinal virome in patients with alcoholic hepatitis. Hepatology. 2020; 72 (6): 2182–2196.; Lang S., Demir M., Wisplinghoff H., et al. Intestinal virome signature associated with severity of nonalcoholic fatty liver disease. Gastroenterology. 2020; 159 (5): 1839–1852.; Саперкин, Н.В. Эффективность использования бактериофагов для лечения и профилактики инфекции: систематический обзор / Н.В. Саперкин [и др.] // Журнал инфектологии. – 2019. – Т. 11, № 4. – С. 19–30.; Асланов, Б.И. Бактериофаги как эффективные противоэпидемические средства для купирования вспышек внутрибольничных инфекций / Б.И. Асланов, А.В. Любимова, Л.П. Зуева // Журнал инфектологии. – 2019. Т. 11, № 1. – С. 65–70.; Sarker S.A., Berger B., Deng Y., et al. Oral application of Escherichia coli bacteriophage: safety tests in healthy and diarrheal children from Bangladesh. Environ. Microbiol. 2017; 19 (1): 237–250.; Sarker S.A., Sultana S., Reuteler G., et al. Oral phage therapy of acute bacterial diarrhea with two coliphage preparations: a randomized trial in children from Bangladesh. EBioMedicine. 2016; 4: 124–137.; Yen M., Cairns L.S., Camilli A. A cocktail of three virulent bacteriophages prevents Vibrio cholerae infection in animal models. Nat. Commun. 2017; 8: 14187.; Gindin M., Febvre H.P, Rao S., et al. Bacteriophage for Gastrointestinal Health (PHAGE) study: evaluating the safety and tolerability of supplemental bacteriophage consumption. J. Am. Coll. Nutr. 2019; 38 (1): 68–75.; Grubb D.S., Wrigley S.D., Freedman K., et al. PHAGE-2 study: supplemental bacteriophages extend Bifidobacterium animalis subsp. lactis BL04 benefits on gut health and microbiota in healthy adults. Nutrients. 2020; 12 (8): 2474.; Galtier M., De Sordi L., Sivignon A., et al. Bacteriophages targeting adherent invasive Escherichia coli strains as a promising new treatment for Crohn’s disease. J. Crohn’s Colitis. 2017; 11 (7): 840–847.; Duan Y., Llorente C., Lang S., et al. Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease. Nature. 2019; 575 (7783): 505–511.; Wirbel J., Pyl P.T., Kartal E., et al. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nat. Med. 2019; 25 (4): 679–689.; Yacoby I., Bar H., Benhar I. Targeted drug-carrying bacteriophages as antibacterial nanomedicines. Antimicrob. Agents Chemother. 2007; 51 (6): 2156–2163.; Zheng D.W., Dong X., Pan P., et al. Phage-guided modulation of the gut microbiota of mouse models of colorectal cancer augments their responses to chemotherapy. Nat. Biomed. Eng. 2019; 3 (9): 717–728.; Sweere J.M., Van Belleghem J.D., Ishak H., et al. Bacteriophage trigger antiviral immunity and prevent clearance of bacterial infection. Science. 2019; 363 (6434): eaat9691.; Gogokhia L., Buhrke K., Bell R., et al. Expansion of bacteriophages is linked to aggravated intestinal inflammation and colitis. Cell Host Microbe. 2019; 25 (2): 285–299.e8.; Zhang L., Hou X., Sun L., et al. Staphylococcus aureus bacteriophage suppresses LPS-induced inflammation in MAC-T bovine mammary epithelial cells. Front. Microbiol. 2018; 9: 1614.; Merabishvili M., Pirnay J.P., De Vos D. In Bacteriophage therapy: From Lab to Clinical Practice (eds Azeredo J., Sillankorva S.). Springer, 2018: 99–110.; Friman V.P., Soanes-Brown D., Sierocinski P., et al. Preadapting parasitic phages to a pathogen leads to increased pathogen clearance and lowered resistance evolution with Pseudomonas aeruginosa cystic fibrosis bacterial isolates. J. Evolut. Biol. 2016; 29 (1): 188–198.; Dunne M., Rupf B., Tala M., et al. Reprogramming bacteriophage host range through structure-guided design of chimeric receptor binding proteins. Cell Rep. 2019; 29 (5): 1336–1350.; Capparelli R., Parlato M., Borriello G., et al. Experimental phage therapy against Staphylococcus aureus in mice. Antimicrob. Agents Chemother. 2007; 51 (8): 2765–2773.; Fauconnier A. In Bacteriophage therapy: From Lab to Clinical Practice (eds Azeredo, J. & Sillankorva, S.). Springer, 2018: 253–268.; https://journal.niidi.ru/jofin/article/view/1352

10.22625/2072-6732-2022-14-2-47-54

https://journal.niidi.ru/jofin/article/view/1352
https://doi.org/10.22625/2072-6732-2022-14-2-47-54

Authors who publish with this journal agree to the following terms:Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access). ; Авторы, публикующие в данном журнале, соглашаются со следующим:Авторы сохраняют за собой авторские права на работу и предоставляют журналу право первой публикации работы на условиях лицензии Creative Commons Attribution License, которая позволяет другим распространять данную работу с обязательным сохранением ссылок на авторов оригинальной работы и оригинальную публикацию в этом журнале.Авторы сохраняют право заключать отдельные контрактные договорённости, касающиеся не-эксклюзивного распространения версии работы в опубликованном здесь виде (например, размещение ее в институтском хранилище, публикацию в книге), со ссылкой на ее оригинальную публикацию в этом журнале.Авторы имеют право размещать их работу в сети Интернет (например в институтском хранилище или персональном сайте) до и во время процесса рассмотрения ее данным журналом, так как это может привести к продуктивному обсуждению и большему количеству ссылок на данную работу (См. The Effect of Open Access).

edsbas.659472B7