Rapid identification of Streptomyces isolates by MALDI-TOF MS.
Identifieur interne : 000234 ( Main/Exploration ); précédent : 000233; suivant : 000235Rapid identification of Streptomyces isolates by MALDI-TOF MS.
Auteurs : Lotfi Loucif [Algérie] ; Esma Bendjama [Algérie] ; Djamila Gacemi-Kirane [Algérie] ; Jean-Marc Rolain [France]Source :
- Microbiological research [ 1618-0623 ] ; 2014.
Descripteurs français
- KwdFr :
- ARN ribosomique 16S (génétique), Algérie (MeSH), Gènes d'ARN ribosomique (MeSH), Lacs (microbiologie), Phylogenèse (MeSH), Protéines bactériennes (analyse), Reproductibilité des résultats (MeSH), Spectrométrie de masse MALDI (méthodes), Streptomyces (classification), Streptomyces (composition chimique), Streptomyces (génétique), Streptomyces (isolement et purification), Techniques de typage bactérien (MeSH).
- MESH :
- analyse : Protéines bactériennes.
- composition chimique : Streptomyces.
- génétique : ARN ribosomique 16S, Streptomyces.
- isolement et purification : Streptomyces.
- microbiologie : Lacs.
- méthodes : Spectrométrie de masse MALDI.
- Algérie, Gènes d'ARN ribosomique, Phylogenèse, Reproductibilité des résultats, Techniques de typage bactérien.
- Wicri :
- geographic : Algérie.
English descriptors
- KwdEn :
- Algeria (MeSH), Bacterial Proteins (analysis), Bacterial Typing Techniques (MeSH), Genes, rRNA (MeSH), Lakes (microbiology), Phylogeny (MeSH), RNA, Ribosomal, 16S (genetics), Reproducibility of Results (MeSH), Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization (methods), Streptomyces (chemistry), Streptomyces (classification), Streptomyces (genetics), Streptomyces (isolation & purification).
- MESH :
- chemical , analysis : Bacterial Proteins.
- chemical , genetics : RNA, Ribosomal, 16S.
- geographic : Algeria.
- chemistry : Streptomyces.
- classification : Streptomyces.
- genetics : Streptomyces.
- isolation & purification : Streptomyces.
- methods : Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization.
- microbiology : Lakes.
- Bacterial Typing Techniques, Genes, rRNA, Phylogeny, Reproducibility of Results.
Abstract
The recent emergence of multidrug-resistant bacteria over the last decade has led to a renewal in the discovery of new antimicrobial drugs. Streptomyces members are practically unlimited sources of new antibiotics. However, the identification of Streptomyces species is difficult and time-consuming. Therefore, there is a need for alternative methods for their rapid identification. In this study, an efficient protocol of identification using Matrix-Assisted Laser Desorption Ionization Time-Of-Flight Mass Spectrometry (MALDI-TOF MS) was developed and applied for the rapid identification of Streptomyces isolates from the El Kala lakes in northeastern Algeria. A collection of 48 Streptomyces isolates were used for this study. The optimized procedure allowed us to obtain specific and reproducible protein spectra for each Streptomyces isolate tested. The spectra generated were used to build a preliminary local database based on their initial 16S rRNA identification. The blind test used for the identification of 20 Streptomyces strains already available in our created database and 20 unknown Streptomyces isolates showed that all (100%) of the Streptomyces strains listed in the database were rapidly (<30min) identified with high scores of up to 2.8. Here, for the first time we showed that MALDI-TOF MS could be used as a cost-effective tool for the rapid identification of Streptomyces isolates.
DOI: 10.1016/j.micres.2014.04.004
PubMed: 24862894
Affiliations:
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Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba, Algeria; Département des Sciences Biologiques, Faculté des Sciences, Université El Hadj Lakhdar, Batna, Algeria.</nlm:affiliation><country xml:lang="fr">Algérie</country><wicri:regionArea>Unité de recherche sur les maladies infectieuses et tropicales émergentes (URMITE), UM 63, CNRS 7278, IRD 198, INSERM 1095, IHU Méditérranée Infection, Faculté de Médecine et de Pharmacie, Aix-Marseille-Université, Marseille, France; Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba, Algeria; Département des Sciences Biologiques, Faculté des Sciences, Université El Hadj Lakhdar, Batna</wicri:regionArea><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author><author><name sortKey="Bendjama, Esma" sort="Bendjama, Esma" uniqKey="Bendjama E" first="Esma" last="Bendjama">Esma Bendjama</name><affiliation wicri:level="4"><nlm:affiliation>Unité de recherche sur les maladies infectieuses et tropicales émergentes (URMITE), UM 63, CNRS 7278, IRD 198, INSERM 1095, IHU Méditérranée Infection, Faculté de Médecine et de Pharmacie, Aix-Marseille-Université, Marseille, France; Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba, Algeria; Département des Sciences Biologiques, Faculté des Sciences, Université El Hadj Lakhdar, Batna, Algeria.</nlm:affiliation><country xml:lang="fr">Algérie</country><wicri:regionArea>Unité de recherche sur les maladies infectieuses et tropicales émergentes (URMITE), UM 63, CNRS 7278, IRD 198, INSERM 1095, IHU Méditérranée Infection, Faculté de Médecine et de Pharmacie, Aix-Marseille-Université, Marseille, France; Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba, Algeria; Département des Sciences Biologiques, Faculté des Sciences, Université El Hadj Lakhdar, Batna</wicri:regionArea><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author><author><name sortKey="Gacemi Kirane, Djamila" sort="Gacemi Kirane, Djamila" uniqKey="Gacemi Kirane D" first="Djamila" last="Gacemi-Kirane">Djamila Gacemi-Kirane</name><affiliation wicri:level="1"><nlm:affiliation>Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba, Algeria.</nlm:affiliation><country xml:lang="fr">Algérie</country><wicri:regionArea>Département de Biochimie, Faculté des Sciences, Université Badji Mokhtar, Annaba</wicri:regionArea><wicri:noRegion>Annaba</wicri:noRegion></affiliation></author><author><name sortKey="Rolain, Jean Marc" sort="Rolain, Jean Marc" uniqKey="Rolain J" first="Jean-Marc" last="Rolain">Jean-Marc Rolain</name><affiliation wicri:level="4"><nlm:affiliation>Unité de recherche sur les maladies infectieuses et tropicales émergentes (URMITE), UM 63, CNRS 7278, IRD 198, INSERM 1095, IHU Méditérranée Infection, Faculté de Médecine et de Pharmacie, Aix-Marseille-Université, Marseille, France. Electronic address: jean-marc.rolain@univ-amu.fr.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Unité de recherche sur les maladies infectieuses et tropicales émergentes (URMITE), UM 63, CNRS 7278, IRD 198, INSERM 1095, IHU Méditérranée Infection, Faculté de Médecine et de Pharmacie, Aix-Marseille-Université, Marseille</wicri:regionArea><placeName><region type="region">Provence-Alpes-Côte d'Azur</region><region type="old region">Provence-Alpes-Côte d'Azur</region><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université d'Aix-Marseille</orgName></affiliation></author></analytic><series><title level="j">Microbiological research</title><idno type="eISSN">1618-0623</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Algeria (MeSH)</term><term>Bacterial Proteins (analysis)</term><term>Bacterial Typing Techniques (MeSH)</term><term>Genes, rRNA (MeSH)</term><term>Lakes (microbiology)</term><term>Phylogeny (MeSH)</term><term>RNA, Ribosomal, 16S (genetics)</term><term>Reproducibility of Results (MeSH)</term><term>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization (methods)</term><term>Streptomyces (chemistry)</term><term>Streptomyces (classification)</term><term>Streptomyces (genetics)</term><term>Streptomyces (isolation & purification)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN ribosomique 16S (génétique)</term><term>Algérie (MeSH)</term><term>Gènes d'ARN ribosomique (MeSH)</term><term>Lacs (microbiologie)</term><term>Phylogenèse (MeSH)</term><term>Protéines bactériennes (analyse)</term><term>Reproductibilité des résultats (MeSH)</term><term>Spectrométrie de masse MALDI (méthodes)</term><term>Streptomyces (classification)</term><term>Streptomyces (composition chimique)</term><term>Streptomyces (génétique)</term><term>Streptomyces (isolement et purification)</term><term>Techniques de typage bactérien (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>Bacterial Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Ribosomal, 16S</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Algeria</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>Protéines bactériennes</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN ribosomique 16S</term><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Streptomyces</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Lacs</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Lakes</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Spectrométrie de masse MALDI</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Bacterial Typing Techniques</term><term>Genes, rRNA</term><term>Phylogeny</term><term>Reproducibility of Results</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Algérie</term><term>Gènes d'ARN ribosomique</term><term>Phylogenèse</term><term>Reproductibilité des résultats</term><term>Techniques de typage bactérien</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Algérie</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The recent emergence of multidrug-resistant bacteria over the last decade has led to a renewal in the discovery of new antimicrobial drugs. Streptomyces members are practically unlimited sources of new antibiotics. However, the identification of Streptomyces species is difficult and time-consuming. Therefore, there is a need for alternative methods for their rapid identification. In this study, an efficient protocol of identification using Matrix-Assisted Laser Desorption Ionization Time-Of-Flight Mass Spectrometry (MALDI-TOF MS) was developed and applied for the rapid identification of Streptomyces isolates from the El Kala lakes in northeastern Algeria. A collection of 48 Streptomyces isolates were used for this study. The optimized procedure allowed us to obtain specific and reproducible protein spectra for each Streptomyces isolate tested. The spectra generated were used to build a preliminary local database based on their initial 16S rRNA identification. The blind test used for the identification of 20 Streptomyces strains already available in our created database and 20 unknown Streptomyces isolates showed that all (100%) of the Streptomyces strains listed in the database were rapidly (<30min) identified with high scores of up to 2.8. Here, for the first time we showed that MALDI-TOF MS could be used as a cost-effective tool for the rapid identification of Streptomyces isolates. </div></front></TEI><affiliations><list><country><li>Algérie</li><li>France</li></country><region><li>Provence-Alpes-Côte d'Azur</li></region><settlement><li>Marseille</li></settlement><orgName><li>Université d'Aix-Marseille</li></orgName></list><tree><country name="Algérie"><region name="Provence-Alpes-Côte d'Azur"><name sortKey="Loucif, Lotfi" sort="Loucif, Lotfi" uniqKey="Loucif L" first="Lotfi" last="Loucif">Lotfi Loucif</name></region><name sortKey="Bendjama, Esma" sort="Bendjama, Esma" uniqKey="Bendjama E" first="Esma" last="Bendjama">Esma Bendjama</name><name sortKey="Gacemi Kirane, Djamila" sort="Gacemi Kirane, Djamila" uniqKey="Gacemi Kirane D" first="Djamila" last="Gacemi-Kirane">Djamila Gacemi-Kirane</name></country><country name="France"><region name="Provence-Alpes-Côte d'Azur"><name sortKey="Rolain, Jean Marc" sort="Rolain, Jean Marc" uniqKey="Rolain J" first="Jean-Marc" last="Rolain">Jean-Marc Rolain</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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