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1. Personalized bacteriophage therapy outcomes for 100 consecutive cases: a multicentre, multinational, retrospective observational study

Author

Pirnay, Jean-Paul, Djebara, Sarah, Steurs, Griet, Griselain, Johann, Cochez, Christel, De Soir, Steven, Glonti, Tea, Spiessens, An, Vanden Berghe, Emily, Green, Sabrina, Wagemans, Jeroen, Lood, Cédric, Schrevens, Eddie, Chanishvili, Nina, Kutateladze, Mzia, de Jode, Mathieu, Ceyssens, Pieter-Jan, Draye, Jean-Pierre, Verbeken, Gilbert, De Vos, Daniel, Rose, Thomas, Onsea, Jolien, Van Nieuwenhuyse, Brieuc, Soentjens, Patrick, Lavigne, Rob, and Merabishvili, Maya

Published
2024
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4. Combination of pre-adapted bacteriophage therapy and antibiotics for treatment of fracture-related infection due to pandrug-resistant Klebsiella pneumoniae

Author

Eskenazi, Anaïs, Lood, Cédric, Wubbolts, Julia, Hites, Maya, Balarjishvili, Nana, Leshkasheli, Lika, Askilashvili, Lia, Kvachadze, Leila, van Noort, Vera, Wagemans, Jeroen, Jayankura, Marc, Chanishvili, Nina, de Boer, Mark, Nibbering, Peter, Kutateladze, Mzia, Lavigne, Rob, Merabishvili, Maya, and Pirnay, Jean-Paul

Published
2022
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5. Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021

Author

Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, and Adriaenssens, Evelien M.

Published
2021
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6. Intravesical bacteriophages for treating urinary tract infections in patients undergoing transurethral resection of the prostate: a randomised, placebo-controlled, double-blind clinical trial

Author

Leitner, Lorenz, Ujmajuridze, Aleksandre, Chanishvili, Nina, Goderdzishvili, Marina, Chkonia, Irina, Rigvava, Sophia, Chkhotua, Archil, Changashvili, Giorgi, McCallin, Shawna, Schneider, Marc P, Liechti, Martina D, Mehnert, Ulrich, Bachmann, Lucas M, Sybesma, Wilbert, and Kessler, Thomas M

Published
2021
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7. Personalized bacteriophage therapy outcomes for 100 consecutive cases:a multicentre, multinational, retrospective observational study

Author

Pirnay, Jean Paul, Djebara, Sarah, Steurs, Griet, Griselain, Johann, Cochez, Christel, De Soir, Steven, Glonti, Tea, Spiessens, An, Vanden Berghe, Emily, Green, Sabrina, Wagemans, Jeroen, Lood, Cédric, Schrevens, Eddie, Chanishvili, Nina, Kutateladze, Mzia, de Jode, Mathieu, Ceyssens, Pieter Jan, Draye, Jean Pierre, Verbeken, Gilbert, De Vos, Daniel, Rose, Thomas, Onsea, Jolien, Van Nieuwenhuyse, Brieuc, Soentjens, Patrick, Lavigne, Rob, Merabishvili, Maya, Pang, Kim Win, Metsemakers, Willem Jan, Van der Linden, Dimitri, Chatzis, Olga, Eskenazi, Anaïs, Lopez, Angel, De Voeght, Adrien, Rousseau, Anne Françoise, Tilmanne, Anne, Vens, Daphne, Gérain, Jean, Layeux, Brice, Vlieghe, Erika, Baar, Ingrid, Van Ierssel, Sabrina, Van Laethem, Johan, Guiot, Julien, De Roock, Sophie, Jennes, Serge, Uyttebroek, Saartje, Van Gerven, Laura, Hellings, Peter W., Dupont, Lieven, Debaveye, Yves, Devolder, David, Spriet, Isabel, De Munter, Paul, Depypere, Melissa, Vanfleteren, Michiel, Cornu, Olivier, Verhulst, Stijn, Boiy, Tine, Lamote, Stoffel, Van Zele, Thibaut, Wieërs, Grégoire, Courtin, Cécile, Lebeaux, David, Sartre, Jacques, Ferry, Tristan, Laurent, Frédéric, Paul, Kevin, Di Luca, Mariagrazia, Gottschlich, Stefan, Tkhilaishvili, Tamta, Cesta, Novella, Racenis, Karlis, Barbosa, Telma, López-Cortés, Luis Eduardo, Tomás, Maria, Hübner, Martin, Pham, Truong Thanh, Nagtegaal, Paul, Ten Oever, Jaap, Daniels, Johannes, Loubert, Maartje, Iheb, Ghariani, Jones, Joshua, Hall, Lesley, Young, Matthew, Balarjishvili, Nana, Tediashvili, Marina, Tong, Yigang, Rohde, Christine, Wittmann, Johannes, Hazan, Ronen, Nir-Paz, Ran, Azeredo, Joana, Krylov, Victor, Cameron, David, Pitton, Melissa, Que, Yok Ai, Resch, Gregory, McCallin, Shawna, Dunne, Matthew, Kilcher, Samuel, Pirnay, Jean Paul, Djebara, Sarah, Steurs, Griet, Griselain, Johann, Cochez, Christel, De Soir, Steven, Glonti, Tea, Spiessens, An, Vanden Berghe, Emily, Green, Sabrina, Wagemans, Jeroen, Lood, Cédric, Schrevens, Eddie, Chanishvili, Nina, Kutateladze, Mzia, de Jode, Mathieu, Ceyssens, Pieter Jan, Draye, Jean Pierre, Verbeken, Gilbert, De Vos, Daniel, Rose, Thomas, Onsea, Jolien, Van Nieuwenhuyse, Brieuc, Soentjens, Patrick, Lavigne, Rob, Merabishvili, Maya, Pang, Kim Win, Metsemakers, Willem Jan, Van der Linden, Dimitri, Chatzis, Olga, Eskenazi, Anaïs, Lopez, Angel, De Voeght, Adrien, Rousseau, Anne Françoise, Tilmanne, Anne, Vens, Daphne, Gérain, Jean, Layeux, Brice, Vlieghe, Erika, Baar, Ingrid, Van Ierssel, Sabrina, Van Laethem, Johan, Guiot, Julien, De Roock, Sophie, Jennes, Serge, Uyttebroek, Saartje, Van Gerven, Laura, Hellings, Peter W., Dupont, Lieven, Debaveye, Yves, Devolder, David, Spriet, Isabel, De Munter, Paul, Depypere, Melissa, Vanfleteren, Michiel, Cornu, Olivier, Verhulst, Stijn, Boiy, Tine, Lamote, Stoffel, Van Zele, Thibaut, Wieërs, Grégoire, Courtin, Cécile, Lebeaux, David, Sartre, Jacques, Ferry, Tristan, Laurent, Frédéric, Paul, Kevin, Di Luca, Mariagrazia, Gottschlich, Stefan, Tkhilaishvili, Tamta, Cesta, Novella, Racenis, Karlis, Barbosa, Telma, López-Cortés, Luis Eduardo, Tomás, Maria, Hübner, Martin, Pham, Truong Thanh, Nagtegaal, Paul, Ten Oever, Jaap, Daniels, Johannes, Loubert, Maartje, Iheb, Ghariani, Jones, Joshua, Hall, Lesley, Young, Matthew, Balarjishvili, Nana, Tediashvili, Marina, Tong, Yigang, Rohde, Christine, Wittmann, Johannes, Hazan, Ronen, Nir-Paz, Ran, Azeredo, Joana, Krylov, Victor, Cameron, David, Pitton, Melissa, Que, Yok Ai, Resch, Gregory, McCallin, Shawna, Dunne, Matthew, and Kilcher, Samuel

Abstract

In contrast to the many reports of successful real-world cases of personalized bacteriophage therapy (BT), randomized controlled trials of non-personalized bacteriophage products have not produced the expected results. Here we present the outcomes of a retrospective observational analysis of the first 100 consecutive cases of personalized BT of difficult-to-treat infections facilitated by a Belgian consortium in 35 hospitals, 29 cities and 12 countries during the period from 1 January 2008 to 30 April 2022. We assessed how often personalized BT produced a positive clinical outcome (general efficacy) and performed a regression analysis to identify functional relationships. The most common indications were lower respiratory tract, skin and soft tissue, and bone infections, and involved combinations of 26 bacteriophages and 6 defined bacteriophage cocktails, individually selected and sometimes pre-adapted to target the causative bacterial pathogens. Clinical improvement and eradication of the targeted bacteria were reported for 77.2% and 61.3% of infections, respectively. In our dataset of 100 cases, eradication was 70% less probable when no concomitant antibiotics were used (odds ratio = 0.3; 95% confidence interval = 0.127–0.749). In vivo selection of bacteriophage resistance and in vitro bacteriophage–antibiotic synergy were documented in 43.8% (7/16 patients) and 90% (9/10) of evaluated patients, respectively. We observed a combination of antibiotic re-sensitization and reduced virulence in bacteriophage-resistant bacterial isolates that emerged during BT. Bacteriophage immune neutralization was observed in 38.5% (5/13) of screened patients. Fifteen adverse events were reported, including seven non-serious adverse drug reactions suspected to be linked to BT. While our analysis is limited by the uncontrolled nature of these data, it indicates that BT can be effective in combination with antibiotics and can inform the design of future controlled clinical trials. B

Published
2024

8. Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Adriaenssens, Evelien M., Sullivan, Matthew B., Knezevic, Petar, van Zyl, Leonardo J., Sarkar, B. L., Dutilh, Bas E., Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I., Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Edwards, Rob A., Kropinski, Andrew M., Petty, Nicola K., Clokie, Martha R. J., Kushkina, Alla I., Morozova, Vera V., Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M., Oksanen, Hanna M., and Krupovic, Mart

Published
2020
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9. Lysogeny destabilizes computationally simulated microbiomes.

Author

Gilman, R. Tucker, Muldoon, Mark R., Megremis, Spyridon, Robertson, David L., Chanishvili, Nina, and Papadopoulos, Nikolaos G.

Subjects
LYSOGENY, LIFE cycles (Biology), ECOSYSTEMS, BACTERIOPHAGES, SPECIES
Abstract

Microbiomes are ecosystems, and their stability can impact the health of their hosts. Theory predicts that predators influence ecosystem stability. Phages are key predators of bacteria in microbiomes, but phages are unusual predators because many have lysogenic life cycles. It has been hypothesized that lysogeny can destabilize microbiomes, but lysogeny has no direct analog in classical ecological theory, and no formal theory exists. We studied the stability of computationally simulated microbiomes with different numbers of temperate (lysogenic) and virulent (obligate lytic) phage species. Bacterial populations were more likely to fluctuate over time when there were more temperate phages species. After disturbances, bacterial populations returned to their pre‐disturbance densities more slowly when there were more temperate phage species, but cycles engendered by disturbances dampened more slowly when there were more virulent phage species. Our work offers the first formal theory linking lysogeny to microbiome stability. [ABSTRACT FROM AUTHOR]

Published
2024
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17. Characterization of a Bacteriophage GEC_vB_Bfr_UZM3 Active against Bacteroides fragilis

Author

Bakuradze, Nata, primary, Merabishvili, Maia, additional, Kusradze, Ia, additional, Ceyssens, Pieter-Jan, additional, Onsea, Jolien, additional, Metsemakers, Willem-Jan, additional, Grdzelishvili, Nino, additional, Natroshvili, Guliko, additional, Tatrishvili, Tamar, additional, Lazvliashvili, Davit, additional, Mitskevich, Nunu, additional, Pirnay, Jean-Paul, additional, and Chanishvili, Nina, additional

Published
2023
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18. Mitigating antimicrobial resistance (AMR) using implementation research:a development funder's approach

Author

Khurana, Mark P., Essack, Sabiha, Zoubiane, Ghada, Sreenivasan, Nandini, Cordoba, Gloria Cristina, Westwood, Erica, Dalsgaard, Anders, Mdegela, Robinson H., Mpundu, Mirfin, Scotini, Rodrigo, Matondo, Augustine B., Mzula, Alexanda, Chanishvili, Nina, Gogebashvili, Dimitri, Beruashvili, Maia, Tsereteli, Marika, Sooronbaev, Talant, Kjærgaard, Jesper, Bloch, Joakim, Isaeva, Elvira, Mainda, Geoffrey, Muuka, Geoffrey, Mudenda, Ntombi B., Goma, Fusya Y., Chu, Duc-Huy, Chanda, Duncan, Chirwa, Uchizi, Yamba, Kaunda, Kapolowe, Kenneth, Fwoloshi, Sombo, Mwenge, Lawrence, Skov, Robert, Khurana, Mark P., Essack, Sabiha, Zoubiane, Ghada, Sreenivasan, Nandini, Cordoba, Gloria Cristina, Westwood, Erica, Dalsgaard, Anders, Mdegela, Robinson H., Mpundu, Mirfin, Scotini, Rodrigo, Matondo, Augustine B., Mzula, Alexanda, Chanishvili, Nina, Gogebashvili, Dimitri, Beruashvili, Maia, Tsereteli, Marika, Sooronbaev, Talant, Kjærgaard, Jesper, Bloch, Joakim, Isaeva, Elvira, Mainda, Geoffrey, Muuka, Geoffrey, Mudenda, Ntombi B., Goma, Fusya Y., Chu, Duc-Huy, Chanda, Duncan, Chirwa, Uchizi, Yamba, Kaunda, Kapolowe, Kenneth, Fwoloshi, Sombo, Mwenge, Lawrence, and Skov, Robert

Abstract

Despite the escalating burden of antimicrobial resistance (AMR), the global response has not sufficiently matched the scale and scope of the issue, especially in low- and middle-income countries (LMICs). While many countries have adopted national action plans to combat AMR, their implementation has lagged due to resource constraints, dysfunctional multisectoral coordination mechanisms and, importantly, an under-recognized lack of technical capacity to adapt evidence-based AMR mitigation interventions to local contexts. AMR interventions should be tailored, context-specific, cost-effective and sustainable. The implementation and subsequent scale-up of these interventions require multidisciplinary intervention-implementation research (IIR). IIR involves both quantitative and qualitative approaches, occurs across a three-phase continuum (proof of concept, proof of implementation and informing scale-up), and across four context domains (inner setting, outer setting, stakeholders and the implementation process). We describe the theoretical underpinnings of implementation research (IR), its various components, and how to construct different IR strategies to facilitate sustainable uptake of AMR interventions. Additionally, we provide real-world examples of AMR strategies and interventions to demonstrate these principles in practice. IR provides a practical framework to implement evidence-based and sustainable AMR mitigation interventions., Despite the escalating burden of antimicrobial resistance (AMR), the global response has not sufficiently matched the scale and scope of the issue, especially in low- and middle-income countries (LMICs). While many countries have adopted national action plans to combat AMR, their implementation has lagged due to resource constraints, dysfunctional multisectoral coordination mechanisms and, importantly, an under-recognized lack of technical capacity to adapt evidence-based AMR mitigation interventions to local contexts. AMR interventions should be tailored, context-specific, cost-effective and sustainable. The implementation and subsequent scale-up of these interventions require multidisciplinary intervention-implementation research (IIR). IIR involves both quantitative and qualitative approaches, occurs across a three-phase continuum (proof of concept, proof of implementation and informing scale-up), and across four context domains (inner setting, outer setting, stakeholders and the implementation process). We describe the theoretical underpinnings of implementation research (IR), its various components, and how to construct different IR strategies to facilitate sustainable uptake of AMR interventions. Additionally, we provide real-world examples of AMR strategies and interventions to demonstrate these principles in practice. IR provides a practical framework to implement evidence-based and sustainable AMR mitigation interventions.

Published
2023

20. Professor Giorgi Eliava and the Eliava Institute of Bacteriophage

Author

Chanishvili, Nina, Myelnikov, Dmitriy, and Blauvelt, Timothy K.

Subjects
General Chemical Engineering, Review
Abstract

In the history of medicine little is known about Prof. Giorgi (George) Eliava, who must be recognized as one of the central figures in the story of bacteriophages. Today it may be said without any exaggeration that without the support that Eliava provided to Felix d'Herelle, much of our knowledge about phage therapy would never have been acquired. Eliava played a central role in developing and promoting therapeutic uses of bacteriophages in the Union of Soviet Socialist Republics and beyond, and it was largely due to his efforts—and the institute that he established—that phage therapy survived in Soviet Georgia during the Cold War when it was largely abandoned in the West. Because of his progressive thinking, tireless activities, and close collaborations with many foreign scientists, including d'Herelle, Eliava became a victim of Stalin's regime in 1937, declared an “Enemy of the People” and executed. Most photographs and documents belonging to Eliava were destroyed by the Committee for State Security (Komitet gosudarstvennoi bezopasnosti), so it is difficult to ascertain many of the details of his life, and his scientific activities are largely unknown. His memory was restored only after the reassessment of the outcomes of the Great Terror and Stalin's regime in later periods. In this article, we bring the remarkable but little-known story of Giorgi Eliava to a wide readership and thus pay tribute to his talent and his dedication to science, and celebrate his contributions to phage research and phage therapy.

Published
2022
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21. Mitigating antimicrobial resistance (AMR) using implementation research: a development funder’s approach

Author

Khurana, Mark P, primary, Essack, Sabiha, additional, Zoubiane, Ghada, additional, Sreenivasan, Nandini, additional, Cordoba, Gloria Cristina, additional, Westwood, Erica, additional, Dalsgaard, Anders, additional, Mdegela, Robinson H, additional, Mpundu, Mirfin, additional, Scotini, Rodrigo, additional, Matondo, Augustine B, additional, Mzula, Alexanda, additional, Chanishvili, Nina, additional, Gogebashvili, Dimitri, additional, Beruashvili, Maia, additional, Tsereteli, Marika, additional, Sooronbaev, Talant, additional, Kjærgaard, Jesper, additional, Bloch, Joakim, additional, Isaeva, Elvira, additional, Mainda, Geoffrey, additional, Muuka, Geoffrey, additional, Mudenda, Ntombi B, additional, Goma, Fusya Y, additional, Chu, Duc-Huy, additional, Chanda, Duncan, additional, Chirwa, Uchizi, additional, Yamba, Kaunda, additional, Kapolowe, Kenneth, additional, Fwoloshi, Sombo, additional, Mwenge, Lawrence, additional, and Skov, Robert, additional

Published
2023
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22. Development of an in vitro homeostasis model between airway epithelial cells, bacteria and bacteriophages: a time-lapsed observation of cell viability and inflammatory response

Author

Tzani-Tzanopoulou, Panagiota, primary, Rozumbetov, Ramazan, additional, Taka, Styliani, additional, Doudoulakakis, Anastassios, additional, Lebessi, Evangelia, additional, Chanishvili, Nina, additional, Kakabadze, Elene, additional, Bakuradze, Nata, additional, Grdzelishvili, Nino, additional, Goderdzishvili, Marina, additional, Legaki, Evangelia, additional, Andreakos, Evangelos, additional, Papadaki, Maria, additional, Megremis, Spyridon, additional, Xepapadaki, Paraskevi, additional, Kaltsas, Grigoris, additional, Akdis, Cezmi A., additional, and Papadopoulos, Nikolaos G., additional

Published
2022
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24. Gut health of children with autism spectrum disorder

Author

Kakabadze, Elene, primary, Makalatia, Khatuna, additional, Bakuradze, Nata, additional, Grdzelishvili, Nino, additional, Kereselidze, Sophie, additional, Ediberidze, Tamar, additional, Berulava, Veriko, additional, Sabauri, Nana, additional, Cholokashvili, Nana, additional, Javakhishvili, Elene, additional, Natroshvili, Gulnara, additional, Tatrishvili, Tamar, additional, Motsikulashvili, Mariam, additional, Chanishvili, Nina, additional, and Abiatari, Ivane, additional

Published
2022
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25. Quality and Safety Requirements for Sustainable Phage Therapy Products

Author

Pirnay, Jean-Paul, Blasdel, Bob G., Bretaudeau, Laurent, Buckling, Angus, Chanishvili, Nina, Clark, Jason R., Corte-Real, Sofia, Debarbieux, Laurent, Dublanchet, Alain, De Vos, Daniel, Gabard, Jérôme, Garcia, Miguel, Goderdzishvili, Marina, Górski, Andrzej, Hardcastle, John, Huys, Isabelle, Kutter, Elizabeth, Lavigne, Rob, Merabishvili, Maia, Olchawa, Ewa, Parikka, Kaarle J., Patey, Olivier, Pouilot, Flavie, Resch, Gregory, Rohde, Christine, Scheres, Jacques, Skurnik, Mikael, Vaneechoutte, Mario, Van Parys, Luc, Verbeken, Gilbert, Zizi, Martin, and Van den Eede, Guy

Published
2015
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26. Corrigendum: Interactions of Bacteriophages and Bacteria at the Airway Mucosa: New Insights Into the Pathophysiology of Asthma

Author

Tzani-Tzanopoulou, Panagiota, primary, Skliros, Dimitrios, additional, Megremis, Spyridon, additional, Xepapadaki, Paraskevi, additional, Andreakos, Evangelos, additional, Chanishvili, Nina, additional, Flemetakis, Emmanouil, additional, Kaltsas, Grigoris, additional, Taka, Styliani, additional, Lebessi, Evangelia, additional, Doudoulakakis, Anastassios, additional, and Papadopoulos, Nikolaos G., additional

Published
2022
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30. In Vitro Evaluation of the Therapeutic Potential of Phage VA7 against Enterotoxigenic Bacteroides fragilis Infection

Author

Bakuradze, Nata, primary, Merabishvili, Maya, additional, Makalatia, Khatuna, additional, Kakabadze, Elene, additional, Grdzelishvili, Nino, additional, Wagemans, Jeroen, additional, Lood, Cedric, additional, Chachua, Irakli, additional, Vaneechoutte, Mario, additional, Lavigne, Rob, additional, Pirnay, Jean-Paul, additional, Abiatari, Ivane, additional, and Chanishvili, Nina, additional

Published
2021
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31. Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021

Author

Sub Bioinformatics, Theoretical Biology and Bioinformatics, Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtboke, Ipek, Brister, J. Rodney, Lood, Cedric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Lobocka, Malgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, Francois, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, Adriaenssens, Evelien M., Sub Bioinformatics, Theoretical Biology and Bioinformatics, Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtboke, Ipek, Brister, J. Rodney, Lood, Cedric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Lobocka, Malgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, Francois, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, and Adriaenssens, Evelien M.

Published
2021

32. Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021

Author

UCL - SST/ELI/ELIM - Applied Microbiology, Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, Adriaenssens, Evelien M., UCL - SST/ELI/ELIM - Applied Microbiology, Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, and Adriaenssens, Evelien M.

Abstract

In this article, we – the Bacterial Viruses Subcommittee and the Archaeal Viruses Subcommittee of the International Committee on Taxonomy of Viruses (ICTV) – summarise the results of our activities for the period March 2020 – March 2021. We report the division of the former Bacterial and Archaeal Viruses Subcommittee in two separate Subcommittees, welcome new members, a new Subcommittee Chair and Vice Chair, and give an overview of the new taxa that were proposed in 2020, approved by the Executive Committee and ratified by vote in 2021. In particular, a new realm, three orders, 15 families, 31 subfamilies, 734 genera and 1845 species were newly created or redefined (moved/promoted).

Published
2021

33. Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV:update of taxonomy changes in 2021

Author

Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, Adriaenssens, Evelien M., Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, and Adriaenssens, Evelien M.

Abstract

In this article, we – the Bacterial Viruses Subcommittee and the Archaeal Viruses Subcommittee of the International Committee on Taxonomy of Viruses (ICTV) – summarise the results of our activities for the period March 2020 – March 2021. We report the division of the former Bacterial and Archaeal Viruses Subcommittee in two separate Subcommittees, welcome new members, a new Subcommittee Chair and Vice Chair, and give an overview of the new taxa that were proposed in 2020, approved by the Executive Committee and ratified by vote in 2021. In particular, a new realm, three orders, 15 families, 31 subfamilies, 734 genera and 1845 species were newly created or redefined (moved/promoted).

Published
2021

34. The Phage Therapy Paradigm: Prêt-à-Porter or Sur-mesure?

Author

Pirnay, Jean-Paul, De Vos, Daniel, Verbeken, Gilbert, Merabishvili, Maia, Chanishvili, Nina, Vaneechoutte, Mario, Zizi, Martin, Laire, Geert, Lavigne, Rob, Huys, Isabelle, Van den Mooter, Guy, Buckling, Angus, Debarbieux, Laurent, Pouillot, Flavie, Azeredo, Joana, Kutter, Elisabeth, Dublanchet, Alain, Górski, Andrzej, and Adamia, Revaz

Published
2011
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35. Investigation of Salmonella Phage–Bacteria Infection Profiles: Network Structure Reveals a Gradient of Target-Range from Generalist to Specialist Phage Clones in Nested Subsets

Author

Makalatia, Khatuna, primary, Kakabadze, Elene, additional, Bakuradze, Nata, additional, Grdzelishvili, Nino, additional, Stamp, Ben, additional, Herman, Ezra, additional, Tapinos, Avraam, additional, Coffey, Aidan, additional, Lee, David, additional, Papadopoulos, Nikolaos G., additional, Robertson, David L., additional, Chanishvili, Nina, additional, and Megremis, Spyridon, additional

Published
2021
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37. Taxonomy of prokaryotic viruses : 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Adriaenssens, Evelien M, Sullivan, Matthew B., Knezevic, Petar, van Zyl, Leonardo J., Sarkar, BL, Dutilh, Bas E., Alfenas-Zerbini, Poliane, Lobocka, Malgorzata, Tong, Yigang, Brister, J. Rodney, Moreno Switt, Andrea I., Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Edwards, Rob A, Kropinski, Andrew M., Petty, Nicola K, Clokie, Martha R. C., Kushkina, Alla I, Morozova, Vera V, Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, François, Turner, Dann, Poranen, Minna, Oksanen, Hanna M, Krupovic, Mart, Molecular and Integrative Biosciences Research Programme, Molecular Principles of Viruses, and Molecular and Translational Virology

Subjects
11832 Microbiology and virology, VIRION, SSDNA, PHAGE, HIS1, CLASSIFICATION
Abstract

This article is a summary of the activities of the ICTV's Bacterial and Archaeal Viruses Subcommittee for the years 2018 and 2019. Highlights include the creation of a new order, 10 families, 22 subfamilies, 424 genera and 964 species. Some of our concerns about the ICTV's ability to adjust to and incorporate new DNA- and protein-based taxonomic tools are discussed.

Published
2020

38. Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Sub Bioinformatics, Theoretical Biology and Bioinformatics, Adriaenssens, Evelien M, Sullivan, Matthew B, Knezevic, Petar, van Zyl, Leonardo J, Sarkar, B L, Dutilh, Bas E, Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I, Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Kropinski, Andrew M, Petty, Nicola K, Clokie, Martha R J, Kushkina, Alla I, Morozova, Vera V, Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M, Oksanen, Hanna M, Krupovic, Mart, Sub Bioinformatics, Theoretical Biology and Bioinformatics, Adriaenssens, Evelien M, Sullivan, Matthew B, Knezevic, Petar, van Zyl, Leonardo J, Sarkar, B L, Dutilh, Bas E, Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I, Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Kropinski, Andrew M, Petty, Nicola K, Clokie, Martha R J, Kushkina, Alla I, Morozova, Vera V, Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M, Oksanen, Hanna M, and Krupovic, Mart

Published
2020

39. Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

UCL - SST/ELI/ELIM - Applied Microbiology, Adriaenssens, Evelien M., Sullivan, Matthew B., Knezevic, Petar, van Zyl, Leonardo J., Sarkar, B. L., Dutilh, Bas E., Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I., Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Edwards, Rob A., Kropinski, Andrew M., Petty, Nicola K., Clokie, Martha R. J., Kushkina, Alla I., Morozova, Vera V., Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M., Oksanen, Hanna M., Krupovic, Mart, UCL - SST/ELI/ELIM - Applied Microbiology, Adriaenssens, Evelien M., Sullivan, Matthew B., Knezevic, Petar, van Zyl, Leonardo J., Sarkar, B. L., Dutilh, Bas E., Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I., Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Edwards, Rob A., Kropinski, Andrew M., Petty, Nicola K., Clokie, Martha R. J., Kushkina, Alla I., Morozova, Vera V., Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M., Oksanen, Hanna M., and Krupovic, Mart

Abstract

This article is a summary of the activities of the ICTV's Bacterial and Archaeal Viruses Subcommittee for the years 2018 and 2019. Highlights include the creation of a new order, 10 families, 22 subfamilies, 424 genera and 964 species. Some of our concerns about the ICTV's ability to adjust to and incorporate new DNA- and protein-based taxonomic tools are discussed.

Published
2020

40. Interactions of Bacteriophages and Bacteria at the Airway Mucosa: New Insights Into the Pathophysiology of Asthma

Author

Tzani-Tzanopoulou, Panagiota, primary, Skliros, Dimitrios, additional, Megremis, Spyridon, additional, Xepapadaki, Paraskevi, additional, Andreakos, Evangelos, additional, Chanishvili, Nina, additional, Flemetakis, Emmanouil, additional, Kaltsas, Grigoris, additional, Taka, Styliani, additional, Lebessi, Evangelia, additional, Doudoulakakis, Anastassios, additional, and Papadopoulos, Nikolaos G., additional

Published
2021
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42. Extended-Spectrum β-Lactamases in Human Isolates of Multidrug-Resistant Non-typhoidal Salmonella enterica

Author

Sedrakyan, Anahit M., primary, Ktsoyan, Zhanna A., additional, Arakelova, Karine A., additional, Zakharyan, Magdalina K., additional, Hovhannisyan, Alvard I., additional, Gevorgyan, Zaruhi U., additional, Mnatsakanyan, Armine A., additional, Kakabadze, Elene G., additional, Makalatia, Khatuna B., additional, Chanishvili, Nina A., additional, Pirnay, Jean-Paul, additional, Arakelyan, Arsen A., additional, and Aminov, Rustam I., additional

Published
2020
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43. Characterization of Salmonella Isolates from Various Geographical Regions of the Caucasus and Their Susceptibility to Bacteriophages

Author

Makalatia, Khatuna, primary, Kakabadze, Elene, additional, Wagemans, Jeroen, additional, Grdzelishvili, Nino, additional, Bakuradze, Nata, additional, Natroshvili, Gulnara, additional, Macharashvili, Nino, additional, Sedrakyan, Anahit, additional, Arakelova, Karine, additional, Ktsoyan, Zhanna, additional, Zakharyan, Magdalina, additional, Gevorgyan, Zaruhi, additional, Mnatsakanyan, Armine, additional, Tishkova, Farida, additional, Lood, Cédric, additional, Vandenheuvel, Dieter, additional, Lavigne, Rob, additional, Pirnay, Jean-Paul, additional, De Vos, Daniel, additional, Chanishvili, Nina, additional, and Merabishvili, Maia, additional

Published
2020
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44. Intravesical Bacteriophages for Treating Urinary Tract Infections: A Randomised, Placebo-Controlled, Double-Blind Clinical Trial

Author

Leitner, Lorenz, primary, Ujmajuridze, Aleksandre, additional, Chanishvili, Nina, additional, Goderdzishvili, Marina, additional, Chkonia, Irina, additional, Rigvava, Sophia, additional, Chkhotua, Archil, additional, Changashvili, Giorgi, additional, Schneider, Marc P., additional, Liechti, Martina D., additional, Mehnert, Ulrich, additional, Bachmann, Lucas M., additional, Sybesma, Wilbert, additional, and Kessler, Thomas M., additional

Published
2020
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45. Automated Phage Isolation

Author

Trojok Rüdiger, Kakabadze Elene, Gaudenz Urs, Sczyrba Thomas, Pfeifer Michael, Jefimowicz Andreas, Cosenza Marco R, Telzerow Anja, Landry Jonathan, Chollet Julian, Grdzelishvili Nino, Makalatia Khatuna, and Chanishvili Nina

Subjects
diybio, biohacking, phage therapy, bioteleportation, bio server, phage isolation, phage trainer
Abstract

Citizens scientists organised in the Do It Yourself Biology (DIYbio) community identified phage therapy as the best solution to the antimicrobial resistance crisis. Since 2014 the community develops open source and low budget liquid handling automation technology such as digital microfluidic chips, peristaltic and syringe pumps and optical and electrical sensors to facilitate phage isolation from water samples. In 2017 a multidrugresistant pathogen contamination was found in an educational reagent kit used by DIYbiologists. The pathogen was sequenced (Whole Genome Sequencing) on an MiSeq Illumina platform and identified as Enterobacter hormaechei subsp. Steigerwaltii. Subsequently five novel phages were isolated from Tbilisi river water for biological decontamination. The contamination case is used as a test run to merge phage therapy protocols with our latest automation technology to advance personalised phage therapy and biological phage decontamination.

Published
2018
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46. Expert Opinion on Three Phage Therapy Related Topics: Bacterial Phage Resistance, Phage Training and Prophages in Bacterial Production Strain

Author

Rohde, Christine, Resch, Grégory, Pirnay, Jean-Paul, Blasdel, Bob G., Debarbieux, Laurent, Gelman, Daniel, Górski, Andrzej, Hazan, Ronen, Huys, Isabelle, Kakabadze, Elene, Łobocka, Małgorzata, Maestri, Alice, De Freitas Almeida, Gabriel, Makalatia, Khatuna, Malik, Danish J., Mašlaňová, Ivana, Merabishvili, Maia, Pantucek, Roman, Rose, Thomas, Štveráková, Dana, Raemdonck, Hilde Van, Verbeken, Gilbert, and Chanishvili, Nina

Subjects
resistance, lääkeresistenssi, prophage, viruses, regulation, adaptation, tuotanto, bakteriofagit, lääkesuunnittelu, fagiterapia
Abstract

Phage therapy is increasingly put forward as a “new” potential tool in the fight against antibiotic resistant infections. During the “Centennial Celebration of Bacteriophage Research” conference in Tbilisi, Georgia on 26–29 June 2017, an international group of phage researchers committed to elaborate an expert opinion on three contentious phage therapy related issues that are hampering clinical progress in the field of phage therapy. This paper explores and discusses bacterial phage resistance, phage training and the presence of prophages in bacterial production strains while reviewing relevant research findings and experiences. Our purpose is to inform phage therapy stakeholders such as policy makers, officials of the competent authorities for medicines, phage researchers and phage producers, and members of the pharmaceutical industry. This brief also points out potential avenues for future phage therapy research and development as it specifically addresses those overarching questions that currently call for attention whenever phages go into purification processes for application. peerReviewed

Published
2018

47. Intravesical bacteriophages for treating urinary tract infections in patients undergoing transurethral resection of the prostate: a randomized, placebo-controlled, double-blind clinical trial

Author

Ujmajuridze, Aleksandre, primary, Leitner, Lorenz, additional, Chanishvili, Nina, additional, Goderdzishvili, Marina, additional, Chkonia, Irina, additional, Rigvava, Sophia, additional, Chkhotua, Archil, additional, Changashvili, Giorgi, additional, Schneider, Marc P., additional, Liechti, Martina D., additional, Mehnert, Ulrich, additional, Bachmann, Lucas M., additional, Sybesma, Wilbert, additional, and Kessler, Thomas M., additional

Published
2019
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