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Article ; Online: Complete Genome Sequence of Pseudomonas aeruginosa Bacteriophage PASA16, Used in Multiple Phage Therapy Treatments Globally.

Alkalay-Oren, Sivan / Yerushalmy, Ortal / Adler, Karen / Khalifa, Leron / Gelman, Daniel / Coppenhagen-Glazer, Shunit / Nir-Paz, Ran / Hazan, Ronen

Microbiology resource announcements

2022 Volume 11, Issue 4, Page(s) e0009222

Abstract: PASA16 is a Pseudomonas aeruginosa phage isolated from a soil sample and used to treat several patients suffering from persistent infections in various countries. PASA16's genome was sequenced, analyzed, and deposited in GenBank. ...

Abstract	PASA16 is a Pseudomonas aeruginosa phage isolated from a soil sample and used to treat several patients suffering from persistent infections in various countries. PASA16's genome was sequenced, analyzed, and deposited in GenBank.
Language	English
Publishing date	2022-03-08
Publishing country	United States
Document type	Journal Article
ISSN	2576-098X
ISSN (online)	2576-098X
DOI	10.1128/mra.00092-22
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Article ; Online: Complete Genome Sequences of Two Enterococcus faecalis Bacteriophages, EFGrKN and EFGrNG, Targeted to Phage Therapy.

Alkalay-Oren, Sivan / Gold, Naama / Khalifa, Leron / Yerushalmy, Ortal / Coppenhagen-Glazer, Shunit / Nir-Paz, Ran / Hazan, Ronen

Microbiology resource announcements

2021 Volume 10, Issue 16

Abstract: EFGrKN and EFGrNG are ... ...

Abstract	EFGrKN and EFGrNG are new
Language	English
Publishing date	2021-04-22
Publishing country	United States
Document type	Journal Article
ISSN	2576-098X
ISSN (online)	2576-098X
DOI	10.1128/MRA.00126-21
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Article ; Online: Microbiome and Resistome Profiles along a Sewage-Effluent-Reservoir Trajectory Underline the Role of Natural Attenuation in Wastewater Stabilization Reservoirs.

Leão, Inês / Khalifa, Leron / Gallois, Nicolas / Vaz-Moreira, Ivone / Klümper, Uli / Youdkes, Daniel / Palmony, Shaked / Dagai, Lotan / Berendonk, Thomas U / Merlin, Christophe / Manaia, Célia M / Cytryn, Eddie

Applied and environmental microbiology

2023 Volume 89, Issue 6, Page(s) e0017023

Abstract: Antibiotic-resistant bacteria and antibiotic resistance gene (ARGs) loads dissipate through sewage treatment plants to receiving aquatic environments, but the mechanisms that mitigate the spread of these ARGs are not well understood due to the complexity ...

Abstract	Antibiotic-resistant bacteria and antibiotic resistance gene (ARGs) loads dissipate through sewage treatment plants to receiving aquatic environments, but the mechanisms that mitigate the spread of these ARGs are not well understood due to the complexity of full-scale systems and the difficulty of source tracking in downstream environments. To overcome this problem, we targeted a controlled experimental system comprising a semicommercial membrane-aerated bioreactor (MABR), whose effluents fed a 4,500-L polypropylene basin that mimicked effluent stabilization reservoirs and receiving aquatic ecosystems. We analyzed a large set of physicochemical measurements, concomitant with the cultivation of total and cefotaxime-resistant Escherichia coli, microbial community analyses, and quantitative PCR (qPCR)/digital droplet PCR (ddPCR) quantification of selected ARGs and mobile genetic elements (MGEs). The MABR removed most of the sewage-derived organic carbon and nitrogen, and simultaneously, E. coli, ARG, and MGE levels dropped by approximately 1.5- and 1.0-log unit mL
MeSH term(s)	Wastewater ; Sewage/microbiology ; Angiotensin Receptor Antagonists ; Genes, Bacterial ; RNA, Ribosomal, 16S/genetics ; Escherichia coli/genetics ; Polypropylenes ; Anti-Bacterial Agents/pharmacology ; Angiotensin-Converting Enzyme Inhibitors ; Bacteria/genetics ; Microbiota
Chemical Substances	Wastewater ; Sewage ; Angiotensin Receptor Antagonists ; RNA, Ribosomal, 16S ; Polypropylenes ; Anti-Bacterial Agents ; Angiotensin-Converting Enzyme Inhibitors
Language	English
Publishing date	2023-05-18
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	223011-2
ISSN	1098-5336 ; 0099-2240
ISSN (online)	1098-5336
ISSN	0099-2240
DOI	10.1128/aem.00170-23
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Article ; Online: Candidate biomarkers of antibiotic resistance for the monitoring of wastewater and the downstream environment.

Teixeira, A Margarida / Vaz-Moreira, Ivone / Calderón-Franco, David / Weissbrodt, David / Purkrtova, Sabina / Gajdos, Stanislav / Dottorini, Giulia / Nielsen, Per Halkjær / Khalifa, Leron / Cytryn, Eddie / Bartacek, Jan / Manaia, Célia M

Water research

2023 Volume 247, Page(s) 120761

Abstract: Urban wastewater treatment plants (UWTPs) are essential for reducing the pollutants load and protecting water bodies. However, wastewater catchment areas and UWTPs emit continuously antibiotic resistant bacteria (ARB) and antibiotic resistance genes ( ... ...

Abstract	Urban wastewater treatment plants (UWTPs) are essential for reducing the pollutants load and protecting water bodies. However, wastewater catchment areas and UWTPs emit continuously antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs), with recognized impacts on the downstream environments. Recently, the European Commission recommended to monitor antibiotic resistance in UWTPs serving more than 100 000 population equivalents. Antibiotic resistance monitoring in environmental samples can be challenging. The expected complexity of these systems can jeopardize the interpretation capacity regarding, for instance, wastewater treatment efficiency, impacts of environmental contamination, or risks due to human exposure. Simplified monitoring frameworks will be essential for the successful implementation of analytical procedures, data analysis, and data sharing. This study aimed to test a set of biomarkers representative of ARG contamination, selected based on their frequent human association and, simultaneously, rare presence in pristine environments. In addition to the 16S rRNA gene, ten potential biomarkers (intI1, sul1, ermB, ermF, aph(3'')-Ib, qacEΔ1, uidA, mefC, tetX, and crAssphage) were monitored in DNA extracts (n = 116) from raw wastewater, activated sludge, treated wastewater, and surface water (upstream and downstream of UWTPs) samples collected in the Czech Republic, Denmark, Israel, the Netherlands, and Portugal. Each biomarker was sensitive enough to measure decreases (on average by up to 2.5 log-units gene copy/mL) from raw wastewater to surface water, with variations in the same order of magnitude as for the 16S rRNA gene. The use of the 10 biomarkers allowed the typing of water samples whose origin or quality could be predicted in a blind test. The results show that, based on appropriate biomarkers, qPCR can be used for a cost-effective and technically accessible approach to monitoring wastewater and the downstream environment.
MeSH term(s)	Humans ; Wastewater ; Genes, Bacterial ; RNA, Ribosomal, 16S/genetics ; Angiotensin Receptor Antagonists/analysis ; Angiotensin-Converting Enzyme Inhibitors/analysis ; Drug Resistance, Microbial/genetics ; Anti-Bacterial Agents/pharmacology ; Anti-Bacterial Agents/analysis ; Water/analysis
Chemical Substances	Wastewater ; RNA, Ribosomal, 16S ; Angiotensin Receptor Antagonists ; Angiotensin-Converting Enzyme Inhibitors ; Anti-Bacterial Agents ; Water (059QF0KO0R)
Language	English
Publishing date	2023-10-19
Publishing country	England
Document type	Journal Article
ZDB-ID	202613-2
ISSN	1879-2448 ; 0043-1354
ISSN (online)	1879-2448
ISSN	0043-1354
DOI	10.1016/j.watres.2023.120761
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Article ; Online: Pseudomonas aeruginosa

Aslam, Saima / Roach, Dwayne / Nikolich, Mikeljon P / Biswas, Biswajit / Schooley, Robert T / Lilly-Bishop, Kimberley A / Rice, Gregory K / Cer, Regina Z / Hamilton, Theron / Henry, Matthew / Luong, Tiffany / Salabarria, Ann-Charlott / Sisk-Hackworth, Laura / Filippov, Andrey A / Lebreton, Francois / Hall, Lindsey / Nir-Paz, Ran / Onallah, Hadil / Livni, Gilat /

Shostak, Eran / Wieder-Finesod, Anat / Yahav, Dafna / Yerushalmy, Ortal / Alkalay-Oren, Sivan / Braunstein, Ron / Khalifa, Leron / Rimon, Amit / Gelman, Daniel / Hazan, Ronen

Antimicrobial agents and chemotherapy

2024 Volume 68, Issue 4, Page(s) e0172823

Abstract: Left ventricular assist devices (LVAD) are increasingly used for management of heart failure; infection remains a frequent complication. Phage therapy has been successful in a variety of antibiotic refractory infections and is of interest in treating ... ...

Abstract	Left ventricular assist devices (LVAD) are increasingly used for management of heart failure; infection remains a frequent complication. Phage therapy has been successful in a variety of antibiotic refractory infections and is of interest in treating LVAD infections. We performed a retrospective review of four patients that underwent five separate courses of intravenous (IV) phage therapy with concomitant antibiotic for treatment of endovascular
MeSH term(s)	Humans ; Pseudomonas aeruginosa ; Phage Therapy ; Heart-Assist Devices/adverse effects ; Pseudomonas Infections/therapy ; Pseudomonas Infections/microbiology ; Anti-Bacterial Agents/therapeutic use ; Bacteriophages ; Prophages ; Bacteremia/drug therapy
Chemical Substances	Anti-Bacterial Agents
Language	English
Publishing date	2024-03-12
Publishing country	United States
Document type	Journal Article
ZDB-ID	217602-6
ISSN	1098-6596 ; 0066-4804
ISSN (online)	1098-6596
ISSN	0066-4804
DOI	10.1128/aac.01728-23
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Article ; Online: Isolation and Characterization of

Ben-Zaken, Hadar / Kraitman, Reut / Coppenhagen-Glazer, Shunit / Khalifa, Leron / Alkalay-Oren, Sivan / Gelman, Daniel / Ben-Gal, Gilad / Beyth, Nurit / Hazan, Ronen

Viruses

2021 Volume 13, Issue 5

Abstract: Streptococcus ... ...

Abstract	Streptococcus mutans
MeSH term(s)	Dental Caries/microbiology ; Dental Caries/therapy ; Dental Caries/virology ; Genome, Viral ; Humans ; Phage Therapy ; Saliva/virology ; Streptococcus Phages/classification ; Streptococcus Phages/genetics ; Streptococcus Phages/isolation & purification ; Streptococcus Phages/physiology ; Streptococcus mutans/physiology ; Streptococcus mutans/virology
Language	English
Publishing date	2021-05-02
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2516098-9
ISSN	1999-4915 ; 1999-4915
ISSN (online)	1999-4915
ISSN	1999-4915
DOI	10.3390/v13050825
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Article ; Online: Clinical Phage Microbiology: a suggested framework and recommendations for the in-vitro matching steps of phage therapy.

Gelman, Daniel / Yerushalmy, Ortal / Alkalay-Oren, Sivan / Rakov, Chani / Ben-Porat, Shira / Khalifa, Leron / Adler, Karen / Abdalrhman, Mohanad / Coppenhagen-Glazer, Shunit / Aslam, Saima / Schooley, Robert T / Nir-Paz, Ran / Hazan, Ronen

The Lancet. Microbe

2021 Volume 2, Issue 10, Page(s) e555–e563

Abstract: Phage therapy is a promising solution for bacterial infections that are not eradicated by conventional antibiotics. A crucial element of this approach is appropriate matching of bacteriophages and antibiotics to the bacterial target according to the ... ...

Abstract	Phage therapy is a promising solution for bacterial infections that are not eradicated by conventional antibiotics. A crucial element of this approach is appropriate matching of bacteriophages and antibiotics to the bacterial target according to the clinical setting. However, there is currently little consistency in the protocols used for the laboratory evaluation of bacteriophages intended for antibacterial treatment. In this Personal View, we suggest a framework aimed to match appropriate bacteriophage-based treatments in clinical microbiology laboratories. This framework, which we have termed Clinical Phage Microbiology, is based on the current research on phage treatments. In addition, we discuss special cases that might require additional relevant evaluation, including bacteriophage interactions with the host immune response, biofilm-associated infections, and polymicrobial infections. The Clinical Phage Microbiology pipeline could serve as the basis for future standardisation of laboratory protocols for personalised phage therapy.
MeSH term(s)	Anti-Bacterial Agents/therapeutic use ; Bacterial Infections/therapy ; Bacteriophages ; Biofilms ; Humans ; Phage Therapy
Chemical Substances	Anti-Bacterial Agents
Language	English
Publishing date	2021-08-16
Publishing country	England
Document type	Journal Article ; Review ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, Non-U.S. Gov't
ISSN	2666-5247
ISSN (online)	2666-5247
DOI	10.1016/S2666-5247(21)00127-0
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Article: Isolation and Characterization of Streptococcus mutans Phage as a Possible Treatment Agent for Caries

Ben-Zaken, Hadar / Kraitman, Reut / Coppenhagen-Glazer, Shunit / Khalifa, Leron / Alkalay-Oren, Sivan / Gelman, Daniel / Ben-Gal, Gilad / Beyth, Nurit / Hazan, Ronen

Viruses. 2021 May 02, v. 13, no. 5

2021

Abstract: Streptococcus mutans is a key bacterium in dental caries, one of the most prevalent chronic infectious diseases. Conventional treatment fails to specifically target the pathogenic bacteria, while tending to eradicate commensal bacteria. Thus, caries ... ...

Abstract	Streptococcus mutans is a key bacterium in dental caries, one of the most prevalent chronic infectious diseases. Conventional treatment fails to specifically target the pathogenic bacteria, while tending to eradicate commensal bacteria. Thus, caries remains one of the most common and challenging diseases. Phage therapy, which involves the use of bacterial viruses as anti-bacterial agents, has been gaining interest worldwide. Nevertheless, to date, only a few phages have been isolated against S. mutans. In this study, we describe the isolation and characterization of a new S. mutans phage, termed SMHBZ8, from hundreds of human saliva samples that were collected, filtered, and screened. The SMHBZ8 genome was sequenced and analyzed, visualized by TEM, and its antibacterial properties were evaluated in various states. In addition, we tested the lytic efficacy of SMHBZ8 against S. mutans in a human cariogenic dentin model. The isolation and characterization of SMHBZ8 may be the first step towards developing a potential phage therapy for dental caries.
Keywords	Streptococcus mutans ; bacteria ; bacteriophages ; dental caries ; genome ; humans ; models ; phage therapy ; saliva
Language	English
Dates of publication	2021-0502
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	2516098-9
ISSN	1999-4915
ISSN	1999-4915
DOI	10.3390/v13050825
Database	NAL-Catalogue (AGRICOLA)

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Article: Defeating Antibiotic- and Phage-Resistant

Khalifa, Leron / Gelman, Daniel / Shlezinger, Mor / Dessal, Axel Lionel / Coppenhagen-Glazer, Shunit / Beyth, Nurit / Hazan, Ronen

Frontiers in microbiology

2018 Volume 9, Page(s) 326

Abstract: The deteriorating effectiveness of antibiotics is propelling researchers worldwide towards alternative techniques such as phage therapy: curing infectious diseases using viruses of bacteria called bacteriophages. In a previous paper, we isolated phage ... ...

Abstract	The deteriorating effectiveness of antibiotics is propelling researchers worldwide towards alternative techniques such as phage therapy: curing infectious diseases using viruses of bacteria called bacteriophages. In a previous paper, we isolated phage EFDG1, highly effective against both planktonic and biofilm cultures of one of the most challenging pathogenic species, the vancomycin-resistant
Language	English
Publishing date	2018-02-28
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2018.00326
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Article ; Online: Mitigating risks and maximizing sustainability of treated wastewater reuse for irrigation.

Yalin, David / Craddock, Hillary A / Assouline, Shmuel / Ben Mordechay, Evyatar / Ben-Gal, Alon / Bernstein, Nirit / Chaudhry, Rabia M / Chefetz, Benny / Fatta-Kassinos, Despo / Gawlik, Bernd M / Hamilton, Kerry A / Khalifa, Leron / Kisekka, Isaya / Klapp, Iftach / Korach-Rechtman, Hila / Kurtzman, Daniel / Levy, Guy J / Maffettone, Roberta / Malato, Sixto /

Manaia, Célia M / Manoli, Kyriakos / Moshe, Orah F / Rimelman, Andrew / Rizzo, Luigi / Sedlak, David L / Shnit-Orland, Maya / Shtull-Trauring, Eliav / Tarchitzky, Jorge / Welch-White, Venus / Williams, Clinton / McLain, Jean / Cytryn, Eddie

Water research X

2023 Volume 21, Page(s) 100203

Abstract: Scarcity of freshwater for agriculture has led to increased utilization of treated wastewater (TWW), establishing it as a significant and reliable source of irrigation water. However, years of research indicate that if not managed adequately, TWW may ... ...

Abstract	Scarcity of freshwater for agriculture has led to increased utilization of treated wastewater (TWW), establishing it as a significant and reliable source of irrigation water. However, years of research indicate that if not managed adequately, TWW may deleteriously affect soil functioning and plant productivity, and pose a hazard to human and environmental health. This review leverages the experience of researchers, stakeholders, and policymakers from Israel, the United-States, and Europe to present a holistic, multidisciplinary perspective on maximizing the benefits from municipal TWW use for irrigation. We specifically draw on the extensive knowledge gained in Israel, a world leader in agricultural TWW implementation. The first two sections of the work set the foundation for understanding current challenges involved with the use of TWW, detailing known and emerging agronomic and environmental issues (such as salinity and phytotoxicity) and public health risks (such as contaminants of emerging concern and pathogens). The work then presents solutions to address these challenges, including technological and agronomic management-based solutions as well as source control policies. The concluding section presents suggestions for the path forward, emphasizing the importance of improving links between research and policy, and better outreach to the public and agricultural practitioners. We use this platform as a call for action, to form a global harmonized data system that will centralize scientific findings on agronomic, environmental and public health effects of TWW irrigation. Insights from such global collaboration will help to mitigate risks, and facilitate more sustainable use of TWW for food production in the future.
Language	English
Publishing date	2023-09-22
Publishing country	England
Document type	Journal Article
ISSN	2589-9147
ISSN (online)	2589-9147
DOI	10.1016/j.wroa.2023.100203
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