1
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Zalacain M, Achard P, Llanos A, Morrissey I, Hawser S, Holden K, Toomey E, Davies D, Leiris S, Sable C, Ledoux A, Bousquet J, Castandet J, Lozano C, Everett M, Lemonnier M. Meropenem-ANT3310, a unique β-lactam-β-lactamase inhibitor combination with expanded antibacterial spectrum against Gram-negative pathogens including carbapenem-resistant Acinetobacter baumannii. Antimicrob Agents Chemother 2024; 68:e0112023. [PMID: 38289044 PMCID: PMC10916402 DOI: 10.1128/aac.01120-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2023] [Accepted: 12/11/2023] [Indexed: 03/07/2024] Open
Abstract
ANT3310 is a novel broad-spectrum diazabicyclooctane serine β-lactamase inhibitor being developed in combination with meropenem (MEM) for the treatment of serious infections in hospitalized patients where carbapenem-resistant Gram-negative pathogens are expected. In this study, we evaluated the in vitro antibacterial activity of MEM in the presence of ANT3310 at 8 µg/mL against global clinical isolates that included Acinetobacter baumannii (n = 905), carbapenem-resistant Enterobacterales (CRE), carrying either oxacillinase (OXA) (n = 252) or Klebsiella pneumoniae carbapenemase (KPC) (n = 180) carbapenemases, and Pseudomonas aeruginosa (n = 502). MEM was poorly active against A. baumannii, as were MEM-vaborbactam, ceftazidime-avibactam, aztreonam-avibactam, cefepime-taniborbactam, cefepime-zidebactam, and imipenem-relebactam (MIC90 values of ≥32 µg/mL). On the other hand, MEM-ANT3310 displayed an MIC90 value of 4 µg/mL, similar to that observed with sulbactam-durlobactam, a drug developed to specifically treat A. baumannii infections. ANT3310 (8 µg/mL) additionally restored the activity of MEM against OXA- and KPC-producing CREs decreasing MEM MIC90 values from >32 µg/mL to 0.25 and 0.5 µg/mL, respectively. The combination of 8 µg/mL of both MEM and ANT3310 prevented growth of 97.5% of A. baumannii and 100% of OXA- and KPC-positive CREs, with ~90% of P. aeruginosa isolates also displaying MEM MICs ≤8 µg/mL. Furthermore, MEM-ANT3310 was efficacious in both thigh and lung murine infection models with OXA-23 A. baumannii. This study demonstrates the potent in vitro activity of the MEM-ANT3310 combination against both carbapenem-resistant A. baumannii and Enterobacterales clinical isolates, a key differentiator to other β-lactam/β-lactamase combinations.
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2
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Llanos A, Achard P, Bousquet J, Lozano C, Zalacain M, Sable C, Revillet H, Murris M, Mittaine M, Lemonnier M, Everett M. Higher levels of Pseudomonas aeruginosa LasB elastase expression are associated with early-stage infection in cystic fibrosis patients. Sci Rep 2023; 13:14208. [PMID: 37648735 PMCID: PMC10468528 DOI: 10.1038/s41598-023-41333-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Accepted: 08/24/2023] [Indexed: 09/01/2023] Open
Abstract
Pseudomonas aeruginosa is a common pathogen in cystic fibrosis (CF) patients and a major contributor to progressive lung damage. P. aeruginosa elastase (LasB), a key virulence factor, has been identified as a potential target for anti-virulence therapy. Here, we sought to differentiate the P. aeruginosa isolates from early versus established stages of infection in CF patients and to determine if LasB was associated with either stage. The lasB gene was amplified from 255 P. aeruginosa clinical isolates from 70 CF patients from the Toulouse region (France). Nine LasB variants were identified and 69% of the isolates produced detectable levels of LasB activity. Hierarchical clustering using experimental and clinical data distinguished two classes of isolates, designated as 'Early' and 'Established' infection. Multivariate analysis revealed that the isolates from the Early infection class show higher LasB activity, fast growth, tobramycin susceptibility, non-mucoid, pigmented colonies and wild-type lasR genotype. These traits were associated with younger patients with polymicrobial infections and high pFEV1. Our findings show a correlation between elevated LasB activity in P. aeruginosa isolates and early-stage infection in CF patients. Hence, it is this patient group, prior to the onset of chronic disease, that may benefit most from novel therapies targeting LasB.
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Affiliation(s)
- Agustina Llanos
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France.
| | - Pauline Achard
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Justine Bousquet
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Clarisse Lozano
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Magdalena Zalacain
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Carole Sable
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Hélène Revillet
- Service de Bactériologie-Hygiène, CHU de Toulouse, Toulouse, France
- IRSD, INSERM, Université de Toulouse, INRAE, ENVT, UPS, Toulouse, France
| | - Marlène Murris
- Adult Cystic Fibrosis Centre, Pulmonology Unit, Hôpital Larrey, CHU de Toulouse, Toulouse, France
| | | | - Marc Lemonnier
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
| | - Martin Everett
- Antabio SAS, Biostep, 436, rue Pierre et Marie Curie, 31760, Labège, France
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3
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Everett MJ, Davies DT, Leiris S, Sprynski N, Llanos A, Castandet J, Lozano C, LaRock CN, LaRock DL, Corsica G, Docquier JD, Pallin TD, Cridland A, Blench T, Zalacain M, Lemonnier M. Chemical Optimization of Selective Pseudomonas aeruginosa LasB Elastase Inhibitors and Their Impact on LasB-Mediated Activation of IL-1β in Cellular and Animal Infection Models. ACS Infect Dis 2023; 9:270-282. [PMID: 36669138 PMCID: PMC9926489 DOI: 10.1021/acsinfecdis.2c00418] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
LasB elastase is a broad-spectrum exoprotease and a key virulence factor of Pseudomonas aeruginosa, a major pathogen causing lung damage and inflammation in acute and chronic respiratory infections. Here, we describe the chemical optimization of specific LasB inhibitors with druglike properties and investigate their impact in cellular and animal models of P. aeruginosa infection. Competitive inhibition of LasB was demonstrated through structural and kinetic studies. In vitro LasB inhibition was confirmed with respect to several host target proteins, namely, elastin, IgG, and pro-IL-1β. Furthermore, inhibition of LasB-mediated IL-1β activation was demonstrated in macrophage and mouse lung infection models. In mice, intravenous administration of inhibitors also resulted in reduced bacterial numbers at 24 h. These highly potent, selective, and soluble LasB inhibitors constitute valuable tools to study the proinflammatory impact of LasB in P. aeruginosa infections and, most importantly, show clear potential for the clinical development of a novel therapy for life-threatening respiratory infections caused by this opportunistic pathogen.
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Affiliation(s)
- Martin J. Everett
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France,
| | - David T. Davies
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Simon Leiris
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Nicolas Sprynski
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Agustina Llanos
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | | | - Clarisse Lozano
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Christopher N. LaRock
- Department
of Microbiology and Immunology, Rollins
Research Center, 1510
Clifton Rd, Atlanta, Georgia 30322, United States
| | - Doris L. LaRock
- Department
of Microbiology and Immunology, Rollins
Research Center, 1510
Clifton Rd, Atlanta, Georgia 30322, United States
| | - Giuseppina Corsica
- Dipartimento
di Biotecnologie Mediche, Università
degli Studi di Siena, Viale Bracci 16, 53100 Siena, Italy
| | - Jean-Denis Docquier
- Dipartimento
di Biotecnologie Mediche, Università
degli Studi di Siena, Viale Bracci 16, 53100 Siena, Italy,Centre
d’Ingénierie des Protéines - InBioS, University of Liège, Allée du six Août 11, 4000 Liège, Belgium
| | - Thomas D. Pallin
- Charles
River Laboratories, 8-9 The Spire Green Centre, Harlow, Essex CM19 5TR, U.K.
| | - Andrew Cridland
- Charles
River Laboratories, 8-9 The Spire Green Centre, Harlow, Essex CM19 5TR, U.K.
| | - Toby Blench
- Charles
River Laboratories, 8-9 The Spire Green Centre, Harlow, Essex CM19 5TR, U.K.
| | - Magdalena Zalacain
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Marc Lemonnier
- Antabio
SAS, Biostep, 436 rue Pierre et Marie Curie, 31670 Labège, France
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4
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Cigana C, Castandet J, Sprynski N, Melessike M, Beyria L, Ranucci S, Alcalá-Franco B, Rossi A, Bragonzi A, Zalacain M, Everett M. Pseudomonas aeruginosa Elastase Contributes to the Establishment of Chronic Lung Colonization and Modulates the Immune Response in a Murine Model. Front Microbiol 2021; 11:620819. [PMID: 33510733 PMCID: PMC7836092 DOI: 10.3389/fmicb.2020.620819] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Accepted: 12/14/2020] [Indexed: 12/12/2022] Open
Abstract
Chronic infection by Pseudomonas aeruginosa in cystic fibrosis (CF) patients is a major contributor to progressive lung damage and is poorly treated by available antibiotic therapy. An alternative approach to the development of additional antibiotic treatments is to identify complementary therapies which target bacterial virulence factors necessary for the establishment and/or maintenance of the chronic infection. The P. aeruginosa elastase (LasB) has been suggested as an attractive anti-virulence target due to its extracellular location, its harmful degradative effects on host tissues and the immune system, and the potential to inhibit its activity using small molecule inhibitors. However, while the relevance of LasB in acute P. aeruginosa infection has been demonstrated, it is still unclear whether this elastase might also play a role in the early phase of chronic lung colonization. By analyzing clinical P. aeruginosa clonal isolates from a CF patient, we found that the isolate RP45, collected in the early phase of persistence, produces large amounts of active LasB, while its clonal variant RP73, collected after years of colonization, does not produce it. When a mouse model of persistent pneumonia was used, deletion of the lasB gene in RP45 resulted in a significant reduction in mean bacterial numbers and incidence of chronic lung colonization at Day 7 post-challenge compared to those mice infected with wild-type (wt) RP45. Furthermore, deletion of lasB in strain RP45 also resulted in an increase in immunomodulators associated with innate and adaptive immune responses in infected animals. In contrast, deletion of the lasB gene in RP73 did not affect the establishment of chronic infection. Overall, these results indicate that LasB contributes to the adaptation of P. aeruginosa to a persistent lifestyle. In addition, these findings support pharmacological inhibition of LasB as a potentially useful therapeutic intervention for P. aeruginosa-infected CF patients prior to the establishment of a chronic infection.
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Affiliation(s)
- Cristina Cigana
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy
| | | | | | - Medede Melessike
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy
| | | | - Serena Ranucci
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy.,Nurix Therapeutics, San Francisco, CA, United States
| | - Beatriz Alcalá-Franco
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy
| | - Alice Rossi
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy
| | - Alessandra Bragonzi
- Division of Immunology, Transplantation and Infectious Diseases, IRCCS San Raffaele Scientific Institute, Milan, Italy
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5
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Davies DT, Leiris S, Zalacain M, Sprynski N, Castandet J, Bousquet J, Lozano C, Llanos A, Alibaud L, Vasa S, Pattipati R, Valige R, Kummari B, Pothukanuri S, De Piano C, Morrissey I, Holden K, Warn P, Marcoccia F, Benvenuti M, Pozzi C, Tassone G, Mangani S, Docquier JD, Pallin D, Elliot R, Lemonnier M, Everett M. Discovery of ANT3310, a Novel Broad-Spectrum Serine β-Lactamase Inhibitor of the Diazabicyclooctane Class, Which Strongly Potentiates Meropenem Activity against Carbapenem-Resistant Enterobacterales and Acinetobacter baumannii. J Med Chem 2020; 63:15802-15820. [DOI: 10.1021/acs.jmedchem.0c01535] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- David T. Davies
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Simon Leiris
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | | | - Nicolas Sprynski
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Jérôme Castandet
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Justine Bousquet
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Clarisse Lozano
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Agustina Llanos
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | | | - Srinivas Vasa
- GVK Biosciences Pvt. Ltd., Survey No. 125
and 126, IDA, Mallapur, Hyderabad, Telangana 500 076, India
| | - Ramesh Pattipati
- GVK Biosciences Pvt. Ltd., Survey No. 125
and 126, IDA, Mallapur, Hyderabad, Telangana 500 076, India
| | - Ravindar Valige
- GVK Biosciences Pvt. Ltd., Survey No. 125
and 126, IDA, Mallapur, Hyderabad, Telangana 500 076, India
| | - Bhaskar Kummari
- GVK Biosciences Pvt. Ltd., Survey No. 125
and 126, IDA, Mallapur, Hyderabad, Telangana 500 076, India
| | - Srinivasu Pothukanuri
- GVK Biosciences Pvt. Ltd., Survey No. 125
and 126, IDA, Mallapur, Hyderabad, Telangana 500 076, India
| | - Cyntia De Piano
- International Health Management Associates (IHMA), Rte. De I’Ile-au-Bois 1A, 1870 Monthey, Switzerland
| | - Ian Morrissey
- International Health Management Associates (IHMA), Rte. De I’Ile-au-Bois 1A, 1870 Monthey, Switzerland
| | - Kirsty Holden
- Evotec (UK) Ltd., Block 23, Alderley Park, Macclesfield, Cheshire SK10 4TG, U.K
| | - Peter Warn
- Evotec (UK) Ltd., Block 23, Alderley Park, Macclesfield, Cheshire SK10 4TG, U.K
| | - Francesca Marcoccia
- Dipartimento di Biotecnologie Mediche, University of Siena, Viale Bracci 16, Siena 53100, Italy
| | - Manuela Benvenuti
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena 53100, Italy
| | - Cecilia Pozzi
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena 53100, Italy
| | - Giusy Tassone
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena 53100, Italy
| | - Stefano Mangani
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena 53100, Italy
| | - Jean-Denis Docquier
- Dipartimento di Biotecnologie Mediche, University of Siena, Viale Bracci 16, Siena 53100, Italy
| | - David Pallin
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow, Essex CM19 5TR, U.K
| | - Richard Elliot
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow, Essex CM19 5TR, U.K
| | - Marc Lemonnier
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Martin Everett
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
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6
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Davies DT, Leiris S, Sprynski N, Castandet J, Lozano C, Bousquet J, Zalacain M, Vasa S, Dasari PK, Pattipati R, Vempala N, Gujjewar S, Godi S, Jallala R, Sathyap RR, Darshanoju NA, Ravu VR, Juventhala RR, Pottabathini N, Sharma S, Pothukanuri S, Holden K, Warn P, Marcoccia F, Benvenuti M, Pozzi C, Mangani S, Docquier JD, Lemonnier M, Everett M. ANT2681: SAR Studies Leading to the Identification of a Metallo-β-lactamase Inhibitor with Potential for Clinical Use in Combination with Meropenem for the Treatment of Infections Caused by NDM-Producing Enterobacteriaceae. ACS Infect Dis 2020; 6:2419-2430. [PMID: 32786279 DOI: 10.1021/acsinfecdis.0c00207] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The clinical effectiveness of the important β-lactam class of antibiotics is under threat by the emergence of resistance, mostly due to the production of acquired serine- (SBL) and metallo-β-lactamase (MBL) enzymes. To address this resistance issue, multiple β-lactam/β-lactamase inhibitor combinations have been successfully introduced into the clinic over the past several decades. However, all of those combinations contain SBL inhibitors and, as yet, there are no MBL inhibitors in clinical use. Consequently, there exists an unaddressed yet growing healthcare problem due to the rise in recent years of highly resistant strains which produce New Delhi metallo (NDM)-type metallo-carbapenemases. Previously, we reported the characterization of an advanced MBL inhibitor lead compound, ANT431. Herein, we discuss the completion of a lead optimization campaign culminating in the discovery of the preclinical candidate ANT2681, a potent NDM inhibitor with strong potential for clinical development.
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Affiliation(s)
- David T. Davies
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Simon Leiris
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Nicolas Sprynski
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Jérôme Castandet
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Clarisse Lozano
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Justine Bousquet
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | | | - Srinivas Vasa
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Praveen K. Dasari
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Ramesh Pattipati
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Naresh Vempala
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Swetha Gujjewar
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - SyamKumar Godi
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Raju Jallala
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Rajashekar Reddy Sathyap
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Narasimha A. Darshanoju
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Vengala R. Ravu
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Ramakrishna R. Juventhala
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Narender Pottabathini
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Somesh Sharma
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Srinivasu Pothukanuri
- Srinivas Vasa - GVK Biosciences Pvt. Ltd, Survey No. 125 and 126, IDA, Mallapur, Hyderabad-500 076, Telangana, India
| | - Kirsty Holden
- Evotec (U.K.) Ltd., Block 23, Alderley Park, Macclesfield, Cheshire, SK10 4TG, U.K
| | - Peter Warn
- Evotec (U.K.) Ltd., Block 23, Alderley Park, Macclesfield, Cheshire, SK10 4TG, U.K
| | - Francesca Marcoccia
- Dipartimento di Biotecnologie Mediche, University of Siena, Viale Bracci 16, Siena, 53100, Italy
| | - Manuela Benvenuti
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena, 53100, Italy
| | - Cecilia Pozzi
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena, 53100, Italy
| | - Stefano Mangani
- Dipartimento di Biotecnologie, Chimica e Farmacia, University of Siena, Via Aldo Moro 2, Siena, 53100, Italy
| | - Jean-Denis Docquier
- Dipartimento di Biotecnologie Mediche, University of Siena, Viale Bracci 16, Siena, 53100, Italy
| | - Marc Lemonnier
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
| | - Martin Everett
- Antabio SAS, 436 rue Pierre et Marie Curied, 31670 Labège, France
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7
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Leiris S, Coelho A, Castandet J, Bayet M, Lozano C, Bougnon J, Bousquet J, Everett M, Lemonnier M, Sprynski N, Zalacain M, Pallin TD, Cramp MC, Jennings N, Raphy G, Jones MW, Pattipati R, Shankar B, Sivasubrahmanyam R, Soodhagani AK, Juventhala RR, Pottabathini N, Pothukanuri S, Benvenuti M, Pozzi C, Mangani S, De Luca F, Cerboni G, Docquier JD, Davies DT. SAR Studies Leading to the Identification of a Novel Series of Metallo-β-lactamase Inhibitors for the Treatment of Carbapenem-Resistant Enterobacteriaceae Infections That Display Efficacy in an Animal Infection Model. ACS Infect Dis 2019; 5:131-140. [PMID: 30427656 PMCID: PMC6332448 DOI: 10.1021/acsinfecdis.8b00246] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The clinical effectiveness of carbapenem antibiotics such as meropenem is becoming increasingly compromised by the spread of both metallo-β-lactamase (MBL) and serine-β-lactamase (SBL) enzymes on mobile genetic elements, stimulating research to find new β-lactamase inhibitors to be used in conjunction with carbapenems and other β-lactam antibiotics. Herein, we describe our initial exploration of a novel chemical series of metallo-β-lactamase inhibitors, from concept to efficacy, in a survival model using an advanced tool compound (ANT431) in conjunction with meropenem.
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Affiliation(s)
- Simon Leiris
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Alicia Coelho
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Jérôme Castandet
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Maëlle Bayet
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Clarisse Lozano
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Juliette Bougnon
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Justine Bousquet
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Martin Everett
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Marc Lemonnier
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Nicolas Sprynski
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
| | - Magdalena Zalacain
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
- Zala Drug Discovery Consulting LLC, West Chester, Pennsylvania 19380, United States
| | - Thomas David Pallin
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow CM19 5TR, United Kingdom
| | - Michael C. Cramp
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow CM19 5TR, United Kingdom
| | - Neil Jennings
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow CM19 5TR, United Kingdom
| | - Gilles Raphy
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow CM19 5TR, United Kingdom
| | - Mark W. Jones
- Charles River Laboratories, 8-9 The Spire Green Centre, Harlow CM19 5TR, United Kingdom
| | - Ramesh Pattipati
- GVK Biosciences Private Limited, Plot No. 28 A, IDA Nacharam, Hyderabad 500076, India
| | - Battu Shankar
- GVK Biosciences Private Limited, Plot No. 28 A, IDA Nacharam, Hyderabad 500076, India
| | | | - Ashok K. Soodhagani
- GVK Biosciences Private Limited, Plot No. 28 A, IDA Nacharam, Hyderabad 500076, India
| | | | - Narender Pottabathini
- GVK Biosciences Private Limited, Plot No. 28 A, IDA Nacharam, Hyderabad 500076, India
| | - Srinivasu Pothukanuri
- GVK Biosciences Private Limited, Plot No. 28 A, IDA Nacharam, Hyderabad 500076, India
| | - Manuela Benvenuti
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, 2 Via Aldo Moro, Siena, 53100 Italy
| | - Cecilia Pozzi
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, 2 Via Aldo Moro, Siena, 53100 Italy
| | - Stefano Mangani
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, 2 Via Aldo Moro, Siena, 53100 Italy
| | - Filomena De Luca
- Department of Medical Biotechnology, University of Siena, 16 Viale Bracci, Siena, 53100 Italy
| | - Giulia Cerboni
- Department of Medical Biotechnology, University of Siena, 16 Viale Bracci, Siena, 53100 Italy
| | - Jean-Denis Docquier
- Department of Medical Biotechnology, University of Siena, 16 Viale Bracci, Siena, 53100 Italy
| | - David T. Davies
- Antabio SAS, 436 rue Pierre et Marie Curie, 31670 Labège, France
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8
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Fernández L, Valentín J, Zalacain M, Leung W, Patiño-García A, Pérez-Martínez A. Activated and expanded natural killer cells target osteosarcoma tumor initiating cells in an NKG2D-NKG2DL dependent manner. Cancer Lett 2015; 368:54-63. [PMID: 26276724 DOI: 10.1016/j.canlet.2015.07.042] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Revised: 07/16/2015] [Accepted: 07/16/2015] [Indexed: 12/24/2022]
Abstract
Current therapies fail to cure most metastatic or recurrent bone cancer. We explored the efficacy and the pathways involved in natural killer (NK) cells' elimination of osteosarcoma (OS) cells, including tumor initiating cells (TICs), which are responsible for chemotherapy resistance, recurrence, and metastasis. The expression of ligands for NK cell receptors was studied in primary OS cell lines by flow cytometry. In vitro cytotoxicity of activated and expanded NK (NKAE) cells against OS was tested, and the pathways involved explored by using specific antibody blockade. NKAE cells' ability to target OS TICs was analyzed by flow cytometry and sphere formation assays. Spironolactone (SPIR) was tested for its ability to increase OS cells' susceptibility to NK cell lysis in vitro and in vivo. We found OS cells were susceptible to NKAE cells' lysis both in vivo and in vitro, and this cytolytic activity relied on interaction between NKG2D receptor and NKG2D ligands (NKG2DL). SPIR increased OS cells' susceptibility to lysis by NKAE cells, and could shrink the OS TICs. Our results show NKAE cells target OS cells including the TICs compartment, supporting the use of NK-cell based immunotherapies for OS.
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Affiliation(s)
- L Fernández
- Clinical Research Department, Spanish National Cancer Research Centre CNIO, C/Melchor Fernández Almagro, 3, 28029 Madrid, Spain
| | - J Valentín
- Tumor Immunology Lab, IdiPAZ, Paseo de la Castellana, 261, 28046 Madrid, Spain
| | - M Zalacain
- Pediatrics Lab, Universidad de Navarra, C/Irunlarrea s/n, 31008 Pamplona, Spain
| | - W Leung
- Bone Marrow and Cell Therapy, St Jude Children's Research Hospital, 262 Danny Thomas Place, Memphis, TN 38105, USA
| | - A Patiño-García
- Pediatrics Lab, Universidad de Navarra, C/Irunlarrea s/n, 31008 Pamplona, Spain
| | - A Pérez-Martínez
- Pediatric Hemato-Oncology, Hospital Universitario La Paz, Paseo de la Castellana, 261, 28046 Madrid, Spain.
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9
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Totoritis R, Duraiswami C, Taylor AN, Kerrigan JJ, Campobasso N, Smith KJ, Ward P, King BW, Murrayz-Thompson M, Jones AD, Van Aller GS, Aubart KM, Zalacain M, Thrall SH, Meek TD, Schwartz B. Understanding the origins of time-dependent inhibition by polypeptide deformylase inhibitors. Biochemistry 2011; 50:6642-54. [PMID: 21711014 DOI: 10.1021/bi200655g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The continual bacterial adaptation to antibiotics creates an ongoing medical need for the development of novel therapeutics. Polypeptide deformylase (PDF) is a highly conserved bacterial enzyme, which is essential for viability. It has previously been shown that PDF inhibitors represent a promising new area for the development of antimicrobial agents, and that many of the best PDF inhibitors demonstrate slow, time-dependent binding. To improve our understanding of the mechanistic origin of this time-dependent inhibition, we examined in detail the kinetics of PDF catalysis and inhibition by several different PDF inhibitors. Varying pH and solvent isotope led to clear changes in time-dependent inhibition parameters, as did inclusion of NaCl, which binds to the active site metal of PDF. Quantitative analysis of these results demonstrated that the observed time dependence arises from slow binding of the inhibitors to the active site metal. However, we also found several metal binding inhibitors that exhibited rapid, non-time-dependent onset of inhibition. By a combination of structural and chemical modification studies, we show that metal binding is only slow when the rest of the inhibitor makes optimal hydrogen bonds within the subsites of PDF. Both of these interactions between the inhibitor and enzyme were found to be necessary to observe time-dependent inhibition, as elimination of either leads to its loss.
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Affiliation(s)
- Rachel Totoritis
- Department of Biological Reagents, GlaxoSmithKline, 1250 South Collegeville Road, Collegeville, Pennsylvania 19426, USA
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10
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Molero P, Ortuño F, Zalacain M, Patiño-García A. Clinical involvement of catechol-O-methyltransferase polymorphisms in schizophrenia spectrum disorders: influence on the severity of psychotic symptoms and on the response to neuroleptic treatment. Pharmacogenomics J 2007; 7:418-26. [PMID: 17363961 DOI: 10.1038/sj.tpj.6500441] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Genetic variation in the catechol-O-methyltransferase (COMT) gene may influence the susceptibility to schizophrenia and the response to neuroleptic treatment. The authors tested for an association between a COMT haplotype and schizophrenia-spectrum disorders and for an eventual influence of a specific COMT genotype in the clinical outcome and in the response to treatment. The genotypes for single nucleotide polymorphisms rs737865, rs4633, rs6267, rs4680 (Val 158 Met) and rs165599 were determined in 207 patients with schizophrenia-spectrum disorders and 204 paired controls. Statistical tests for linkage disequilibrium and for case-control differences in haplotype frequencies were performed using log-linear modelling embedded within the expectation-maximization algorithm. P-values based on permutations were calculated using the software UNPHASED, and odds ratios were estimated using the SHEsis platform. The response to neuroleptic treatment was assessed by the Global Assessment of Functioning scale and the severity of psychotic symptoms by the positive and negative syndrome scale (PANSS) scale. The overall disease status was significantly associated with the T-G (Val) diplotype for rs4633-rs4680 (P=0.0049). A significant association was observed between schizophrenia, but not other related disorders, and genotypes GG (Val/Val) for rs4680 and TT for rs4633. Val/Val patients with schizophrenia showed a higher severity of the psychotic symptoms and a worse response to the neuroleptic treatment. COMT genetic variation seems to be involved in the psychotic symptomatology of the schizophrenia-spectrum disorders and specifically in the narrow schizophrenia phenotype. Our results show an influence of the Val 158 Met polymorphism on the severity of psychotic symptoms and on the response to treatment.
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Affiliation(s)
- P Molero
- Department of Psychiatry, University Clinic of Navarra, Pamplona, Spain
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11
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Rittenhouse S, Biswas S, Broskey J, McCloskey L, Moore T, Vasey S, West J, Zalacain M, Zonis R, Payne D. Selection of retapamulin, a novel pleuromutilin for topical use. Antimicrob Agents Chemother 2006; 50:3882-5. [PMID: 17065625 PMCID: PMC1635201 DOI: 10.1128/aac.00178-06] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2006] [Revised: 03/21/2006] [Accepted: 07/10/2006] [Indexed: 11/20/2022] Open
Abstract
The in vitro activity of retapamulin was determined and compared to that of topical and community antibiotics. The MIC(90)s of retapamulin against Staphylococcus aureus and Streptococcus pyogenes were 0.12 microg/ml and 0.016 microg/ml, respectively. Retapamulin has a low propensity to select resistance and produces an in vitro postantibiotic effect.
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Affiliation(s)
- Stephen Rittenhouse
- Department of Microbiology Research, MMPD CEDD, GlaxoSmithKline Pharmaceuticals, 1250 S. Collegeville Rd, Collegeville, PA 19426-0989, USA.
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12
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Huang J, Van Aller GS, Taylor AN, Kerrigan JJ, Liu WS, Trulli JM, Lai Z, Holmes D, Aubart KM, Brown JR, Zalacain M. Phylogenomic and biochemical characterization of three Legionella pneumophila polypeptide deformylases. J Bacteriol 2006; 188:5249-57. [PMID: 16816197 PMCID: PMC1539947 DOI: 10.1128/jb.00866-05] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Legionella pneumophila is a gram-negative facultative intracellular human pathogen that can cause fatal Legionnaires' disease. Polypeptide deformylase (PDF) is a novel broad-spectrum antibacterial target, and reports of inhibitors of PDF with potent activities against L. pneumophila have been published previously. Here, we report the identification of not one but three putative pdf genes, pdfA, pdfB, and pdfC, in the complete genome sequences of three strains of L. pneumophila. Phylogenetic analysis showed that L. pneumophila PdfA is most closely related to the commonly known gamma-proteobacterial PDFs encoded by the gene def. PdfB and PdfC are more divergent and do not cluster with any specific bacterial or eukaryotic PDF. All three putative pdf genes from L. pneumophila strain Philadelphia 1 have been cloned, and their encoded products have been overexpressed in Escherichia coli and purified. Enzymatic characterization shows that the purified PDFs with Ni2+ substituted are catalytically active and able to remove the N-formyl group from several synthetic polypeptides, although they appear to have different substrate specificities. Surprisingly, while PdfA and PdfB with Zn2+ substituted are much less active than the Ni2+ forms of each enzyme, PdfC with Zn2+ substituted was as active as the Ni2+ form for the fMA substrate and exhibited substrate specificity different from that of Ni2+ PdfC. Furthermore, the catalytic activities of these enzymes are potently inhibited by a known small-molecule PDF inhibitor, BB-3497, which also inhibits the extracellular growth of L. pneumophila. These results indicate that even though L. pneumophila has three PDFs, they can be effectively inhibited by PDF inhibitors which can, therefore, have potent anti-L. pneumophila activity.
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Affiliation(s)
- Jianzhong Huang
- Microbiology Department, GlaxoSmithKline, 1250 S. Collegeville Road, Collegeville, PA 19426, USA.
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13
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Agirre X, Román-Gómez J, Jiménez-Velasco A, Garate L, Montiel-Duarte C, Navarro G, Vázquez I, Zalacain M, Calasanz MJ, Heiniger A, Torres A, Minna JD, Prósper F. ASPP1, a common activator of TP53, is inactivated by aberrant methylation of its promoter in acute lymphoblastic leukemia. Oncogene 2006; 25:1862-70. [PMID: 16314841 DOI: 10.1038/sj.onc.1209236] [Citation(s) in RCA: 51] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
We have analyzed the regulation and expression of ASPP members, genes implicated in the regulation of the apoptotic function of the TP53 tumor-suppressor gene, in acute lymphoblastic leukemia (ALL). Expression of ASPP1 was significantly reduced in ALL and was dependent on hypermethylation of the ASPP1 gene promoter. Abnormal ASPP1 expression was associated with normal function of the tumor-suppressor gene TP53 in ALL. The analyses of 180 patients with ALL at diagnosis showed that the ASPP1 promoter was hypermethylated in 25% of cases with decreased mRNA expression. Methylation was significantly higher in adult ALL vs childhood ALL (32 vs 17%, P = 0.03) and T-ALL vs B-ALL (50 vs 9%, P = 0.001). Relapse rate (62 vs 44%, P = 0.05) and mortality (59 vs 43%, P = 0.05) were significantly higher in patients with methylated ASPP1. DFS and OS were 32.8 and 33.7% for patients with unmethylated ASPP1 and 6.1 and 9.9% for methylated patients (P < 0.001 y P < 0.02, respectively). On the multivariate analysis, methylation of the ASPP1 gene promoter was an independent poor prognosis factor in ALL patients. Our results demonstrate that decreased expression of ASPP1 in patients with ALL is due to an abnormal methylation of its promoter and is associated with a poor prognosis.
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Affiliation(s)
- X Agirre
- Foundation for Applied Medical Research, Division of Cancer and Area of Cell Therapy and Hematology Service, Clínica Universitaria, Universidad de Navarra, Navarra, Spain
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14
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Affiliation(s)
- Kelly Aubart
- Microbial, Musculoskeletal, and Proliferative Diseases CEDD, GlaxoSmithKline Pharmaceuticals, Collegeville, PA 19426, USA
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15
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Abstract
Human genetic integrity is compromised by the intense industrial activity, which emphasizes the importance to determine an "acceptable" genetic damage level and to carry out routine genotoxicity assays in the populations at risk. Micronuclei are cytoplasmatic bodies of nuclear origin which correspond to genetic material that is not correctly incorporated in the daughter cells in the cellular division; they reflect the existence of chromosomal aberrations and are originated by chromosomal breaks, replication errors followed by cellular division of the DNA and/or exposure to genotoxic agents. There are several factors able to modify the number of micronuclei present in a given cell, among them are age, gender, vitamins, medical treatments, daily exposure to genotoxic agents, etc. The cytogenetic assay for the detection of micronuclei (CBMN: cytokinesis-block micronucleus) is based on the use of a chemical agent, cytochalasin-B, which is able to block cytocinesis but allowing the nuclear division, therefore yielding binucleated and monodivided cells. The micronuclei scoring is performed on 1000 binucleated cells and the starting sample may vary, although most studies are performed on peripheral blood lymphocytes. The micronuclei assay is considered a practical, universally validated and technically feasible protocol which is useful to evaluate the genetic instability induced by genotoxic agents.
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Affiliation(s)
- M Zalacain
- Laboratorio de Pediatría, Universidad de Navarra, Pamplona, 31080, Spain.
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16
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Van Aller GS, Nandigama R, Petit CM, DeWolf WE, Quinn CJ, Aubart KM, Zalacain M, Christensen SB, Copeland RA, Lai Z. Mechanism of Time-Dependent Inhibition of Polypeptide Deformylase by Actinonin. Biochemistry 2004; 44:253-60. [PMID: 15628866 DOI: 10.1021/bi048632b] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Polypeptide deformylase (PDF) is an essential bacterial metalloenzyme responsible for the removal of the N-formyl group from the N-terminal methionine of nascent polypeptides. Inhibition of bacterial PDF enzymes by actinonin, a naturally occurring antibacterial agent, has been characterized using steady-state and transient kinetic methods. Slow binding of actinonin to these enzymes is observed under steady-state conditions. Progress curve analysis is consistent with a two-step binding mechanism, in which tightening of the initial encounter complex (EI) results in a final complex (EI*) with an extremely slow, but observable, off-rate (t(1/2) for inhibitor dissociation >or=0.77 days). Stopped-flow measurement of PDF fluorescence confirms formation of EI and provides a direct measurement of the association rate. Rapid dilution studies establish that the potency of actinonin is enhanced by more than 2000-fold upon tightening of EI to form EI*, from K(i) = 530 nM (EI) to Ki*<or= 0.23 nM (EI*). In sharp contrast, the previously reported small molecule PDF inhibitor, SB-543668, is a competitive, readily reversible inhibitor (t(1/2) for dissociation = 2.8 s). In addition, we demonstrate that BB-3497 is also a time-dependent inhibitor of PDF with an extremely slow off-rate. The two-step inhibition model detailed herein for the inhibition of Staphylococcus aureus PDF by actinonin and BB-3497 is consistent with a recent report on the time-dependent inhibition of Escherichia coli PDF by a macrocyclic peptidomimetic inhibitor [Ngugen, K. T., et al. (2004) Bioorg. Chem. 32, 178-191]. This study substantially extends our understanding of PDF inhibition and may facilitate the development of novel antibiotics.
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Affiliation(s)
- Glenn S Van Aller
- Enzymology and Mechanistic Pharmacology, GlaxoSmithKline, 1250 South Collegeville Road, Collegeville, Pennsylvania 19426, USA
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17
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O'Dwyer K, Watts JM, Biswas S, Ambrad J, Barber M, Brulé H, Petit C, Holmes DJ, Zalacain M, Holmes WM. Characterization of Streptococcus pneumoniae TrmD, a tRNA methyltransferase essential for growth. J Bacteriol 2004; 186:2346-54. [PMID: 15060037 PMCID: PMC412112 DOI: 10.1128/jb.186.8.2346-2354.2004] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Down-regulation of expression of trmD, encoding the enzyme tRNA (guanosine-1)-methyltransferase, has shown that this gene is essential for growth of Streptococcus pneumoniae. The S. pneumoniae trmD gene has been isolated and expressed in Escherichia coli by using a His-tagged T7 expression vector. Recombinant protein has been purified, and its catalytic and physical properties have been characterized. The native enzyme displays a molecular mass of approximately 65,000 Da, suggesting that streptococcal TrmD is a dimer of two identical subunits. In fact, this characteristic can be extended to several other TrmD orthologs, including E. coli TrmD. Kinetic studies show that the streptococcal enzyme utilizes a sequential mechanism. Binding of tRNA by gel mobility shift assays gives a dissociation constant of 22 nM for one of its substrates, tRNA(Leu)(CAG). Other heterologous nonsubstrate tRNA species, like, tRNA (Thr)(GGT), tRNA(Phe), and tRNA (Ala)(TGC), bind the enzyme with similar affinities, suggesting that tRNA specificity is achieved via a postbinding event(s).
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Affiliation(s)
- Karen O'Dwyer
- Microbial, Musculoskeletal and Proliferative Diseases CEDD, GlaxoSmithKline, Collegeville, Pennsylvania 19426, USA
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18
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Zalacain M, Biswas S, Ingraham KA, Ambrad J, Bryant A, Chalker AF, Iordanescu S, Fan J, Fan F, Lunsford RD, O'Dwyer K, Palmer LM, So C, Sylvester D, Volker C, Warren P, McDevitt D, Brown JR, Holmes DJ, Burnham MKR. A Global Approach to Identify Novel Broad-Spectrum Antibacterial Targets among Proteins of Unknown Function. J Mol Microbiol Biotechnol 2004; 6:109-26. [PMID: 15044829 DOI: 10.1159/000076741] [Citation(s) in RCA: 68] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
Attempted allelic replacement of 144 Streptococcus pneumoniae open reading frames of previously uncharacterized function led to the identification of 36 genes essential for growth under laboratory conditions. Of these, 14 genes (obg, spoIIIJ2, trmU, yacA, yacM, ydiC, ydiE, yjbN, yneS, yphC, ysxC, ytaG, yloI and yxeH4) were also essential in Staphylococcus aureus and Haemophilus influenzae or Escherichia coli, 2 genes (yrrK and ydiB) were only essential in H. influenzae as well as S. pneumoniae and 8 genes were necessary for growth of S.pneumoniae and S. aureus and did not have a homolog in H. influenzae(murD2, ykqC, ylqF, yqeH, ytgP, yybQ) or were not essential in that organism (yqeL, yhcT). The proteins encoded by these genes could represent good targets for novel antibiotics covering different therapeutic profiles. The putative functions of some of these essential proteins, inferred by bioinformatic analysis, are presented. Four mutants, with deletions of loci not essential for in vitro growth, were found to be severely attenuated in a murine respiratory tract infection model, suggesting that not all targets for antibacterial therapeutics are revealed by simple in vitro essentiality testing. The results of our experiments together with those collated from previously reported studies including Bacillus subtilis, E. coli and Mycoplasma sp. demonstrate that gene conservation amongst bacteria does not necessarily indicate that essentiality in one organism can be extrapolated to others. Moreover, this study demonstrates that different experimental procedures can produce apparently contradictory results.
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Affiliation(s)
- Magdalena Zalacain
- Microbial, Musculoskeletal and Proliferative Diseases CEDD, Collegeville, PA 17426, USA.
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19
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Elkins PA, Watts JM, Zalacain M, van Thiel A, Vitazka PR, Redlak M, Andraos-Selim C, Rastinejad F, Holmes WM. Insights into catalysis by a knotted TrmD tRNA methyltransferase. J Mol Biol 2003; 333:931-49. [PMID: 14583191 DOI: 10.1016/j.jmb.2003.09.011] [Citation(s) in RCA: 103] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The crystal structure of Escherichia coli tRNA (guanosine-1) methyltransferase (TrmD) complexed with S-adenosyl homocysteine (AdoHcy) has been determined at 2.5A resolution. TrmD, which methylates G37 of tRNAs containing the sequence G36pG37, is a homo-dimer. Each monomer consists of a C-terminal domain connected by a flexible linker to an N-terminal AdoMet-binding domain. The two bound AdoHcy moieties are buried at the bottom of deep clefts. The dimer structure appears integral to the formation of the catalytic center of the enzyme and this arrangement strongly suggests that the anticodon loop of tRNA fits into one of these clefts for methyl transfer to occur. In addition, adjacent hydrophobic sites in the cleft delineate a defined pocket, which may accommodate the GpG sequence during catalysis. The dimer contains two deep trefoil peptide knots and a peptide loop extending from each knot embraces the AdoHcy adenine ring. Mutational analyses demonstrate that the knot is important for AdoMet binding and catalytic activity, and that the C-terminal domain is not only required for tRNA binding but plays a functional role in catalytic activity.
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Affiliation(s)
- Patricia A Elkins
- GlaxoSmithKline, 709 Swedeland Road, UE0447, King of Prussia, PA 19406, USA
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20
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Choudhry AE, Mandichak TL, Broskey JP, Egolf RW, Kinsland C, Begley TP, Seefeld MA, Ku TW, Brown JR, Zalacain M, Ratnam K. Inhibitors of pantothenate kinase: novel antibiotics for staphylococcal infections. Antimicrob Agents Chemother 2003; 47:2051-5. [PMID: 12760898 PMCID: PMC155856 DOI: 10.1128/aac.47.6.2051-2055.2003] [Citation(s) in RCA: 69] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
Abstract
Pantothenate kinase (CoaA) catalyzes the first step of the coenzyme A biosynthetic pathway. Here we report the identification of the Staphylococcus aureus coaA gene and characterization of the enzyme. We have also identified a series of low-molecular-weight compounds which are effective inhibitors of S. aureus CoaA.
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Affiliation(s)
- Anthony E Choudhry
- Microbial, Musculoskeletal and Proliferative Diseases and Bioinformatics, GlaxoSmithKline Pharmaceuticals, Collegeville Pennsylvania 19426, USA
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21
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Chan PF, O'Dwyer KM, Palmer LM, Ambrad JD, Ingraham KA, So C, Lonetto MA, Biswas S, Rosenberg M, Holmes DJ, Zalacain M. Characterization of a novel fucose-regulated promoter (PfcsK) suitable for gene essentiality and antibacterial mode-of-action studies in Streptococcus pneumoniae. J Bacteriol 2003; 185:2051-8. [PMID: 12618474 PMCID: PMC150135 DOI: 10.1128/jb.185.6.2051-2058.2003] [Citation(s) in RCA: 76] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The promoter of the Streptococcus pneumoniae putative fuculose kinase gene (fcsK), the first gene of a novel fucose utilization operon, is induced by fucose and repressed by glucose or sucrose. When the streptococcal polypeptide deformylase (PDF) gene (def1, encoding PDF) was placed under the control of P(fcsK), fucose-dependent growth of the S. pneumoniae (P(fcsK)::def1) strain was observed, confirming the essential nature of PDF in this organism. The mode of antibacterial action of actinonin, a known PDF inhibitor, was also confirmed with this strain. The endogenous fuculose kinase promoter is a tightly regulated, titratable promoter which will be useful for target validation and for confirmation of the mode of action of novel antibacterial drugs in S. pneumoniae.
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Affiliation(s)
- Pan F Chan
- Microbial, Musculoskeletal and Proliferative Diseases Center of Excellence for Drug Discovery, GlaxoSmithKline Pharmaceuticals, Collegeville, Pennsylvania 19426, USA.
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22
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Chan PF, Macarron R, Payne DJ, Zalacain M, Holmes DJ. Novel antibacterials: a genomics approach to drug discovery. Curr Drug Targets Infect Disord 2002; 2:291-308. [PMID: 12570737 DOI: 10.2174/1568005023342227] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The appearance of antibiotic resistant pathogens, including vancomycin resistant Staphylococcus aureus, in the clinic has necessitated the development of new antibiotics. The golden age of antibiotic discovery, in which potent selective compounds were readily extracted from natural product extracts is over and novel approaches need to be implemented to cover the therapeutic shortfall. The generation of huge quantities of bacterial sequence data has allowed the identification of all the possible targets for therapeutic intervention and allowed the development of screens to identify inhibitors. Here, we described a number of target classes in which genomics has contributed to its identification. As a result of analyzing sequence data, all of the tRNA synthetases and all of the two-component signal transduction systems were readily isolated; which would not have been easily identified if whole genome sequences were not available. Fatty acid biosynthesis is a known antibacterial target, but genomics showed which genes in that pathway had the appropriate spectrum to be considered as therapeutic targets. Genes of unknown function may seem untractable targets, but if those that are broad spectrum and essential are identified, it becomes valuable to invest time and effort to determine their cellular role. In addition, we discuss the role of genomics in developing technologies that assist in the discovery of new antibiotics including microarray gridding technology. Genomics can also increase the chemical diversity against which the novel targets can be screened.
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Affiliation(s)
- Pan F Chan
- Department of Microbiology. Microbial, Musculoskeletal and Proliferative Diseases CEDD, GlaxoSmithKline, 1250 South Collegeville Road, Collegeville, PA 19426-0989, USA
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Chalker AF, Lupas A, Ingraham K, So CY, Lunsford RD, Li T, Bryant A, Holmes DJ, Marra A, Pearson SC, Ray J, Burnham MK, Palmer LM, Biswas S, Zalacain M. Genetic characterization of gram-positive homologs of the XerCD site-specific recombinases. J Mol Microbiol Biotechnol 2000; 2:225-33. [PMID: 10939248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2023] Open
Abstract
Homologs of the XerCD enzymes, which in Escherichia coli have been shown to be responsible for resolving chromosomal multimers prior to chromosome segregation, were identified in the genomes of Staphylococcus aureus and Streptococcus pneumoniae. Phylogenetic and conservation pattern analysis suggests that the S. aureus gene products are orthologs of XerC and D. A S. aureus xerC null mutant displayed in vitro characteristics consistent with the segregation defect reported for E. coli xer mutants, and was found to be attenuated in a murine infection model. Strikingly, the S. aureus xerD gene appears to be absolutely required for viability, and may therefore be the first example of an essential gene of the lambda integrase family. In contrast, phylogenetic and conservation pattern analysis show that the S. pneumoniae gene products are more closely related to phage integrases than to XerCD. S. pneumoniae xer1, 2 and 3 null mutants were each found to be attenuated in a murine infection model, suggesting that they may control processes which affect virulence.
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Affiliation(s)
- A F Chalker
- SmithKline Beecham Pharmaceuticals, Collegeville, PA 19426-0989, USA.
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Abstract
The tylosin producer Streptomyces fradiae contains four known resistance genes, two of which (tlrA and tlrD) encode methyltransferases that act on ribosomal RNA at a common site. Expression of tlrA is regulated via transcriptional attenuation. A short transcript, only 411 nucleotides long, terminates 27 nucleotides into the methylase-coding sequence in the uninduced state. Induction of tlrA is proposed to involve a ribosome-mediated conformational change within the mRNA leader that allows transcription to continue beyond the attenuation site, resulting in a transcript about 1450 nucleotides long. Transplantation of tlrD and/or tlrA into Streptomyces albus revealed that the induction specificity of tlrA depends upon the state of the ribosomes and is significantly altered in strains also expressing tlrD.
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Affiliation(s)
- G H Kelemen
- Department of Biochemistry, University of Leicester, UK
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Raibaud A, Zalacain M, Holt TG, Tizard R, Thompson CJ. Nucleotide sequence analysis reveals linked N-acetyl hydrolase, thioesterase, transport, and regulatory genes encoded by the bialaphos biosynthetic gene cluster of Streptomyces hygroscopicus. J Bacteriol 1991; 173:4454-63. [PMID: 2066341 PMCID: PMC208109 DOI: 10.1128/jb.173.14.4454-4463.1991] [Citation(s) in RCA: 85] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Nucleotide sequence analysis of a 5,000-bp region of the bialaphos antibiotic production (bap) gene cluster defined five open reading frames (ORFs) which predicted structural genes in the order bah, ORF1, ORF2, and ORF3 followed by the regulatory gene, brpA (H. Anzai, T. Murakami, S. Imai, A. Satoh, K. Nagaoka, and C.J. Thompson, J. Bacteriol. 169:3482-3488, 1987). The four structural genes were translationally coupled and apparently cotranscribed from an undefined promoter(s) under the positive control of the brpA gene product. S1 mapping experiments indicated that brpA was transcribed by two promoters (brpAp1 and brpAp2) which initiate transcription 150 and 157 bp upstream of brp A within an intergenic region and at least one promoter further upstream within the bap gene cluster (brpAp3). All three transcripts were present at low levels during exponential growth and increased just before the stationary phase. The levels of the brpAp3 band continued to increase at the onset of stationary phase, whereas brpAp1-and brpAp2-protected fragments showed no further change. BrpA contained a possible helix-turn-helix motif at its C terminus which was similar to the C-terminal regulatory motif found in the receiver component of a family of two-component transcriptional activator proteins. This motif was not associated with the N-terminal domain conserved in other members of the family. The structural gene cluster sequenced began with bah, encoding a bialaphos acetylhydrolase which removes the N-acetyl group from bialaphos as one of the final steps in the biosynthetic pathway. The observation that Bah was similar to a rat and to a bacterial (Acinetobacter calcoaceticus) lipase probably reflects the fact that the ester bonds of triglycerides and the amide bond linking acetate to phosphinothricin are similar and hydrolysis is catalyzed by structurally related enzymes. This was followed by two regions encoding ORF1 and ORF2 which were similar to each other (48% nucleotide identity, 31% amino acid identity), as well as to GrsT, a protein encoded by a gene located adjacent to gramicidin S synthetase in Bacillus brevis, and to vertebrate (mallard duck and rat) thioesterases. The amino acid sequence and hydrophobicity profile of ORF3 indicated that it was related to a family of membrane transport proteins. It was strikingly similar to the citrate uptake protein encoded by the transposon Tn3411.
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Zalacain M, Cundliffe E. Methylation of 23S ribosomal RNA due to carB, an antibiotic-resistance determinant from the carbomycin producer, Streptomyces thermotolerans. Eur J Biochem 1990; 189:67-72. [PMID: 1691981 DOI: 10.1111/j.1432-1033.1990.tb15460.x] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
A resistance gene, carB, originally isolated from the carbomycin-producing organism, Streptomyces thermotolerans, confers on Streptomyces lividans high-level resistance to the drug. However, ribosomes from S. lividans expressing carB show only moderate resistance to this macrolide in vitro, although they are highly resistant to the action of lincosamide antibiotics. The carB product monomethylates the amino group of the adenosine residue located at position 2058 in 23S ribosomal RNA. In contrast, ribosomes from S. lividans expressing ermE, in which 23S RNA is dimethylated at this same position, are much more highly resistant to macrolides and insensitive to lincosamides.
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Affiliation(s)
- M Zalacain
- Department of Biochemistry, University of Leicester, England
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Jenkins G, Zalacain M, Cundliffe E. Inducible ribosomal RNA methylation in Streptomyces lividans, conferring resistance to lincomycin. J Gen Microbiol 1989; 135:3281-8. [PMID: 2483994 DOI: 10.1099/00221287-135-12-3281] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Streptomyces lividans TK21 possesses inducible ribosomal RNA methylase activity that confers high-level resistance to lincomycin and lower levels of resistance to certain macrolides. The methylase gene (designated lrm) is inducible by erythromycin and other macrolides and also by celesticetin (a lincosamide) but not by lincomycin. The lrm enzyme monomethylates the N6-amino group of adenosine at position 2058 within 23S-like ribosomal RNA.
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Affiliation(s)
- G Jenkins
- Department of Biochemistry and Leicester Biocentre, University of Leicester, UK
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Abstract
Ribosomes from Streptomyces griseofuscus expressing tlrA, a resistance gene isolated from the tylosin producer Streptomyces fradiae, are resistant to macrolide and lincosamide antibiotics in vitro. The tlrA product was found to be a methylase that introduces two methyl groups into a single base within 23S rRNA, generating N6,N6-dimethyladenine at position 2058. This activity is therefore similar to the ermE resistance mechanism in Saccharopolyspora erythraea (formerly Streptomyces erythraeus).
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Affiliation(s)
- M Zalacain
- Department of Biochemistry, University of Leicester, United Kingdom
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Zalacain M, Pardo JM, Jiménez A. Purification and characterization of a hygromycin B phosphotransferase from Streptomyces hygroscopicus. Eur J Biochem 1987; 162:419-22. [PMID: 3026811 DOI: 10.1111/j.1432-1033.1987.tb10618.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
A hygromycin B phosphotransferase activity from Streptomyces hygroscopicus has been highly purified by ammonium sulphate fractionation followed by affinity column chromatography through Sepharose-6B-hygromycin-B. The combined active fractions showed a single protein band (41 kDa) when subjected to polyacrylamide gel electrophoresis in the presence of sodium dodecyl sulphate. When gel electrophoresis was performed under non-denaturing conditions, the single protein band promoted in situ phosphorylation of hygromycin B, indicating that this protein corresponded to the purified hygromycin B phosphotransferase. The enzyme has been purified 236-fold and approximate Km values of 0.56 microM for hygromycin B and ATP, respectively, were deduced.
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Zalacain M, Malpartida F, Pulido D, Jiménez A. Cloning and expression in Escherichia coli of a hygromycin B phosphotransferase gene from Streptomyces hygroscopicus. Eur J Biochem 1987; 162:413-8. [PMID: 3026810 DOI: 10.1111/j.1432-1033.1987.tb10617.x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The Streptomyces hygroscopicus hyg gene encoding a hygromycin B phosphotransferase has been introduced into different sites of both the Escherichia coli plasmid pBR322 and the Escherichia coli-Saccharomyces cerevisiae shuttle vector YRp7. When this gene was inserted into the BamHI site of pBR322 and then cloned in E. coli phosphorylating activity was not detected, indicating that the hyg gene promoter was not functional in this bacterium. However, when the hyg gene was inserted into either the unique PstI site of pBR322 or into each of the two PstI sites of YRp7, phosphotransferase activity was observed. Analysis of the translation products from these constructions by coupled in vitro transcription-translation systems suggested that in all cases transcrition was regulated by a promoter not provided by the inserted hyg gene and that the synthesized polypeptide was identical to that present in S. hygroscopicus.
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Zalacain M, González A, Guerrero MC, Mattaliano RJ, Malpartida F, Jiménez A. Nucleotide sequence of the hygromycin B phosphotransferase gene from Streptomyces hygroscopicus. Nucleic Acids Res 1986; 14:1565-81. [PMID: 3005976 PMCID: PMC339529 DOI: 10.1093/nar/14.4.1565] [Citation(s) in RCA: 108] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
The nucleotide sequence of a 1467 bp fragment of Streptomyces hygroscopicus DNA containing the gene (hyg) encoding a hygromycin B phosphotransferase (HPH) has been determined. The N-terminal amino acid sequence of HPH determined by automated Edman degradation has allowed the coding sequence of the hyg gene to be identified. The translation initiation triplet is GTG and 5 bp preceding it there is a sequence complementary to the 3'-end of 16S rRNA from S. lividans. The transcriptional start and termination sites have been determined; the presumptive promoter region has only partial homology to that of the Streptomyces vinaceus vph gene and is different to the promoter sequences of other Streptomyces genes.
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