1
|
Ouchari L, Hemlali M, Ghammaz H, Chouati T, Melloul M, Alaoui Amine S, Rhoulam S, Elannaz H, Touil N, Ennibi K, El Fahime E. Genome sequencing of severe acute respiratory syndrome COVID-19 EF.1 variant strain obtained from a Moroccan patient. Microbiol Resour Announc 2024; 13:e0125523. [PMID: 38501774 PMCID: PMC11008184 DOI: 10.1128/mra.01255-23] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Accepted: 03/08/2024] [Indexed: 03/20/2024] Open
Abstract
Here, we report the identification and coding-complete genome sequence of a severe acute respiratory syndrome COVID-19 (SARS-CoV-2) strain obtained from a Moroccan patient. The detected strain EF.1 belongs to the BQ1.1 subvariant of the BA.5 Omicron variant.
Collapse
Affiliation(s)
- Lahcen Ouchari
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Microbiology and Molecular Biology Team, Plant and Microbial Biotechnology, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University in Rabat, Rabat, Morocco
| | - Mouhssine Hemlali
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Neuroscience and Neurogenetics Research Team, Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
| | - Hamza Ghammaz
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Neuroscience and Neurogenetics Research Team, Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
| | - Taha Chouati
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Neuroscience and Neurogenetics Research Team, Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
| | - Marouane Melloul
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Microbiology and Molecular Biology Team, Plant and Microbial Biotechnology, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University in Rabat, Rabat, Morocco
| | - Sanaâ Alaoui Amine
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
| | - Safaa Rhoulam
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
| | - Hicham Elannaz
- Cell Culture Unit, Center of Virology, Infectious, and Tropical Diseases, Med V Military Hospital, Rabat, Morocco
| | - Nadia Touil
- Cell Culture Unit, Center of Virology, Infectious, and Tropical Diseases, Med V Military Hospital, Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
| | - Khalid Ennibi
- Cell Culture Unit, Center of Virology, Infectious, and Tropical Diseases, Med V Military Hospital, Rabat, Morocco
| | - Elmostafa El Fahime
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Neuroscience and Neurogenetics Research Team, Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, University Mohammed V, Rabat, Morocco
| |
Collapse
|
2
|
Ngom SI, Maski S, Rached B, Chouati T, Oliveira Correia L, Juste C, Meylheuc T, Henrissat B, El Fahime E, Amar M, Béra-Maillet C. Exploring the hemicellulolytic properties and safety of Bacillus paralicheniformis as stepping stone in the use of new fibrolytic beneficial microbes. Sci Rep 2023; 13:22785. [PMID: 38129471 PMCID: PMC10740013 DOI: 10.1038/s41598-023-49724-8] [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: 01/20/2023] [Accepted: 12/11/2023] [Indexed: 12/23/2023] Open
Abstract
Bacillus strains from the Moroccan Coordinated Collections of Microorganisms (CCMM) were characterised and tested for fibrolytic function and safety properties that would be beneficial for maintaining intestinal homeostasis, and recommend beneficial microbes in the field of health promotion research. Forty strains were investigated for their fibrolytic activities towards complex purified polysaccharides and natural fibres representative of dietary fibres (DFs) entering the colon for digestion. We demonstrated hemicellulolytic activities for nine strains of Bacillus aerius, re-identified as Bacillus paralicheniformis and Bacillus licheniformis, using xylan, xyloglucan or lichenan as purified polysaccharides, and orange, apple and carrot natural fibres, with strain- and substrate-dependent production of glycoside hydrolases (GHs). Our combined methods, based on enzymatic assays, secretome, and genome analyses, highlighted the hemicellulolytic activities of B. paralicheniformis and the secretion of specific glycoside hydrolases, in particular xylanases, compared to B. licheniformis. Genomic features of these strains revealed a complete set of GH genes dedicated to the degradation of various polysaccharides from DFs, including cellulose, hemicellulose and pectin, which may confer on the strains the ability to digest a variety of DFs. Preliminary experiments on the safety and immunomodulatory properties of B. paralicheniformis fibrolytic strains were evaluated in light of applications as beneficial microbes' candidates for health improvement. B. paralicheniformis CCMM B969 was therefore proposed as a new fibrolytic beneficial microbe candidate.
Collapse
Affiliation(s)
- Serigne Inssa Ngom
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78350, Jouy-en-Josas, France
| | - Soufiane Maski
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Département de Biologie, Faculté des Sciences, Université Mohammed V, Rabat, Morocco
| | - Bahia Rached
- Collections Coordonnées Marocaines de Microorganismes, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Plateforme Génomique Fonctionnelle, Unité d'Appui Technique à la Recherche Scientifique, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Laboratoire de Chimie-Physique et Biotechnologies des Biomolécules et Matériaux/Equipe Microbiologie Biomolécules et Biotechnologies, Faculté des Sciences et Techniques, Mohammedia, Morocco
| | - Taha Chouati
- Collections Coordonnées Marocaines de Microorganismes, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Plateforme Génomique Fonctionnelle, Unité d'Appui Technique à la Recherche Scientifique, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Biologie médicale, Pathologie humaine et Expérimentale et Environnement, Faculté de Médecine et de pharmacie de Rabat, Rabat, Morocco
| | - Lydie Oliveira Correia
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, PAPPSO, 78350, Jouy-en-Josas, France
| | - Catherine Juste
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78350, Jouy-en-Josas, France
| | - Thierry Meylheuc
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, MIMA2, 78350, Jouy en Josas, France
| | - Bernard Henrissat
- Architecture et Fonction des Macromolécules Biologiques, Centre National de la Recherche Scientifique, Aix-Marseille Université, 13288, Marseille, France
- Department of Biological Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Kgs. Lyngby, Denmark
| | - Elmostafa El Fahime
- Plateforme Génomique Fonctionnelle, Unité d'Appui Technique à la Recherche Scientifique, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Biologie médicale, Pathologie humaine et Expérimentale et Environnement, Faculté de Médecine et de pharmacie de Rabat, Rabat, Morocco
| | - Mohamed Amar
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
- Collections Coordonnées Marocaines de Microorganismes, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco
| | - Christel Béra-Maillet
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78350, Jouy-en-Josas, France.
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre National pour la Recherche Scientifique et Technique, Rabat, Morocco.
| |
Collapse
|
3
|
Chouati T, Maski S, Melloul M, Ajdig M, Ouchari L, Rached B, El Fahime E. Draft genome sequence of a mosquito repellent Bacillus licheniformis strain Ba1 isolated from desert soil. Microbiol Resour Announc 2023; 12:e0091623. [PMID: 37966237 PMCID: PMC10720417 DOI: 10.1128/mra.00916-23] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Accepted: 10/10/2023] [Indexed: 11/16/2023] Open
Abstract
Microbial volatile organic compounds have been shown to affect a wide insect behavior. In this paper, we report the draft genome sequence of Bacillus licheniformis strain Ba1 previously isolated from desert soil in Morocco. The assembled and annotated draft genome contains 4,726 coding genes, 6 rRNAs and 97 tRNAs.
Collapse
Affiliation(s)
- Taha Chouati
- Genopath Research center, ERNN, Faculty of Medicine and Pharmacy, University Mohammed V in Rabat, Rabat, Morocco
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
| | - Soufiane Maski
- Département de Biologie, Faculté des Sciences, Université Mohammed V, Rabat, Morocco
| | - Marouane Melloul
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
- Microbiology and Molecular Biology Team, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
- Plant and Microbial Biotechnology, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
| | - Mohammed Ajdig
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
- Microbiology and Molecular Biology Team, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
- Plant and Microbial Biotechnology, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
| | - Lahcen Ouchari
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
- Microbiology and Molecular Biology Team, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
- Plant and Microbial Biotechnology, Biodiversity and Environment Center, Faculty of Sciences, Mohammed V University, Rabat, Morocco
| | - Bahia Rached
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
- Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| | - Elmostafa El Fahime
- Genopath Research center, ERNN, Faculty of Medicine and Pharmacy, University Mohammed V in Rabat, Rabat, Morocco
- Supporting Unit for Scientific and Technical Research, National Center for Scientific and Technical Research, Rabat, Morocco
| |
Collapse
|
4
|
Chaoui L, Chouati T, Zalegh I, Mhand RA, Mellouki F, Rhallabi N. Identification and assessment of antimicrobial resistance bacteria in a hemodialysis water treatment system. J Water Health 2022; 20:441-449. [PMID: 36366996 DOI: 10.2166/wh.2022.267] [Citation(s) in RCA: 2] [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: 06/16/2023]
Abstract
The water treatment process is a vital factor for hemodialysis (HD) patients. This study aimed to assess the degree of contamination of HD water by bacteria at the HD center of Mohammedia, Morocco, in addition to evaluating the antimicrobial resistance of isolated bacteria. Fifty-four water samples were taken, the appropriate cultures were used to isolate the pathogenic bacteria, which were identified biochemically and molecularly by 16S RNA sequencing. Their susceptibility to antimicrobial drugs was determined by the disk diffusion method. Approximately 5.5% of water samples were above the norm. The isolated bacteria that colonized the HD systems were mostly Gram-negative bacilli, such as Stenotrophomonas maltophilia, Pseudomonas spp., and Burkholderia cepacian. Results of the antibiotics test showed remarkable resistance levels. Among Pseudomonas spp. and S. maltophilia, 10 strains were classified as multidrug-resistant (MDR), and 4 as extensively drug-resistant (XDR). The diversity of bacterial strains isolated in the water used for HD treatments, and their worrying resistance levels pose a significant risk to patients. For these reasons, an urgent need for periodic microbiological monitoring of water after each treatment step must be applied, and the treatment process should also be optimized.
Collapse
Affiliation(s)
- Laila Chaoui
- Provincial Diagnostic Laboratory Epidemiological and Environmental Health, Provincial Health Delegation, Mohammedia, Morocco E-mail: ; Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| | - Taha Chouati
- Laboratory of Microbiology and Molecular Biology, UATRS-PGF, National Center for Scientific and Technical Research, Rabat, Morocco
| | - Imane Zalegh
- Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| | - Rajaa Ait Mhand
- Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| | - Fouad Mellouki
- Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| | - Naima Rhallabi
- Laboratory of physical chemistry and biotechnologies of biomolecules and materials, University Hassan II Casablanca, FSTM, Mohammedia, Morocco
| |
Collapse
|
5
|
Melloul M, Chouati T, Hemlali M, Alaoui Amine S, Touil N, Elannaz H, Ennibi K, Youbi M, Merabet M, Bellefquih AM, Nourlil J, Maaroufi A, El Fahime E. Genome Sequences of the Delta Variant (B.1.617.2) and the Kappa Variant (B.1.617.1) Detected in Morocco. Microbiol Resour Announc 2021; 10:e0072721. [PMID: 34591666 PMCID: PMC8483667 DOI: 10.1128/mra.00727-21] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 09/09/2021] [Indexed: 11/23/2022] Open
Abstract
Here, we report the identification and coding-complete genome sequences of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) strains obtained from patients with COVID-19. The strains identified belong to variant of concern B.1.617.2 and variant of interest B.1.617.1.
Collapse
Affiliation(s)
- Marouane Melloul
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, Mohammed V University, Rabat, Morocco
| | - Taha Chouati
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
| | - Mouhssine Hemlali
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, Mohammed V University, Rabat, Morocco
| | - Sanaa Alaoui Amine
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, Mohammed V University, Rabat, Morocco
| | - Nadia Touil
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, Mohammed V University, Rabat, Morocco
| | - Hicham Elannaz
- Research and Biosafety Laboratory, Mohammed V Military Teaching Hospital, Rabat, Morocco
| | - Khalid Ennibi
- Research and Biosafety Laboratory, Mohammed V Military Teaching Hospital, Rabat, Morocco
| | - Mohammed Youbi
- DELM (Epidemiology and Disease Control Department), Ministry of Health, Rabat, Morocco
| | - Mouad Merabet
- DELM (Epidemiology and Disease Control Department), Ministry of Health, Rabat, Morocco
| | | | - Jalal Nourlil
- Laboratory of Virology, Pasteur Institute, Casablanca, Morocco
| | | | - Elmostafa El Fahime
- Molecular Biology and Functional Genomics Platform, National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
- Genomic Center for Human Pathologies (GENOPATH), Faculty of Medicine and Pharmacy, Mohammed V University, Rabat, Morocco
| |
Collapse
|