Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics
Mass spectrometry-based metabolomics has become a powerful tool for the detection of metabolites in complex biological systems and for the identification of novel metabolites. We previously identified a number of unexpected metabolites in the cyanobacterium Synechococcus sp. PCC 7002, such as histid...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2013-09-01
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| Series: | Marine Drugs |
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| Online Access: | http://www.mdpi.com/1660-3397/11/10/3617 |
| _version_ | 1797999962922942464 |
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| author | Muriel Gugger Nikos C. Kyrpides Ferran Garcia-Pichel Nick Jose Natalia N. Ivanova Richard Baran Trent R. Northen |
| author_facet | Muriel Gugger Nikos C. Kyrpides Ferran Garcia-Pichel Nick Jose Natalia N. Ivanova Richard Baran Trent R. Northen |
| author_sort | Muriel Gugger |
| collection | DOAJ |
| description | Mass spectrometry-based metabolomics has become a powerful tool for the detection of metabolites in complex biological systems and for the identification of novel metabolites. We previously identified a number of unexpected metabolites in the cyanobacterium Synechococcus sp. PCC 7002, such as histidine betaine, its derivatives and several unusual oligosaccharides. To test for the presence of these compounds and to assess the diversity of small polar metabolites in other cyanobacteria, we profiled cell extracts of nine strains representing much of the morphological and evolutionary diversification of this phylum. Spectral features in raw metabolite profiles obtained by normal phase liquid chromatography coupled to mass spectrometry (MS) were manually curated so that chemical formulae of metabolites could be assigned. For putative identification, retention times and MS/MS spectra were cross-referenced with those of standards or available sprectral library records. Overall, we detected 264 distinct metabolites. These included indeed different betaines, oligosaccharides as well as additional unidentified metabolites with chemical formulae not present in databases of metabolism. Some of these metabolites were detected only in a single strain, but some were present in more than one. Genomic interrogation of the strains revealed that generally, presence of a given metabolite corresponded well with the presence of its biosynthetic genes, if known. Our results show the potential of combining metabolite profiling and genomics for the identification of novel biosynthetic genes. |
| first_indexed | 2024-04-11T11:12:47Z |
| format | Article |
| id | doaj.art-3aafac27e9734828bb71cb312cd6c21b |
| institution | Directory Open Access Journal |
| issn | 1660-3397 |
| language | English |
| last_indexed | 2024-04-11T11:12:47Z |
| publishDate | 2013-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Marine Drugs |
| spelling | doaj.art-3aafac27e9734828bb71cb312cd6c21b2022-12-22T04:27:25ZengMDPI AGMarine Drugs1660-33972013-09-0111103617363110.3390/md11103617Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted MetabolomicsMuriel GuggerNikos C. KyrpidesFerran Garcia-PichelNick JoseNatalia N. IvanovaRichard BaranTrent R. NorthenMass spectrometry-based metabolomics has become a powerful tool for the detection of metabolites in complex biological systems and for the identification of novel metabolites. We previously identified a number of unexpected metabolites in the cyanobacterium Synechococcus sp. PCC 7002, such as histidine betaine, its derivatives and several unusual oligosaccharides. To test for the presence of these compounds and to assess the diversity of small polar metabolites in other cyanobacteria, we profiled cell extracts of nine strains representing much of the morphological and evolutionary diversification of this phylum. Spectral features in raw metabolite profiles obtained by normal phase liquid chromatography coupled to mass spectrometry (MS) were manually curated so that chemical formulae of metabolites could be assigned. For putative identification, retention times and MS/MS spectra were cross-referenced with those of standards or available sprectral library records. Overall, we detected 264 distinct metabolites. These included indeed different betaines, oligosaccharides as well as additional unidentified metabolites with chemical formulae not present in databases of metabolism. Some of these metabolites were detected only in a single strain, but some were present in more than one. Genomic interrogation of the strains revealed that generally, presence of a given metabolite corresponded well with the presence of its biosynthetic genes, if known. Our results show the potential of combining metabolite profiling and genomics for the identification of novel biosynthetic genes.http://www.mdpi.com/1660-3397/11/10/3617cyanobacteriametabolomicsmass spectrometryMS/MSbetainesoligosaccharides |
| spellingShingle | Muriel Gugger Nikos C. Kyrpides Ferran Garcia-Pichel Nick Jose Natalia N. Ivanova Richard Baran Trent R. Northen Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics Marine Drugs cyanobacteria metabolomics mass spectrometry MS/MS betaines oligosaccharides |
| title | Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics |
| title_full | Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics |
| title_fullStr | Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics |
| title_full_unstemmed | Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics |
| title_short | Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics |
| title_sort | functional genomics of novel secondary metabolites from diverse cyanobacteria using untargeted metabolomics |
| topic | cyanobacteria metabolomics mass spectrometry MS/MS betaines oligosaccharides |
| url | http://www.mdpi.com/1660-3397/11/10/3617 |
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