Research output: Contribution to journal › Article › peer-review
De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments. / Behsaz, Bahar; Mohimani, Hosein; Gurevich, Alexey ; Prjibelski, Andrey ; Fisher, Mark F.; Vargas, Fernando ; Smarr, Larry; Dorrestein, Pieter C.; Mylne, Joshua S; Pevzner, Pavel A. .
In: Cell Systems, 18.12.2019.Research output: Contribution to journal › Article › peer-review
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TY - JOUR
T1 - De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments
AU - Behsaz, Bahar
AU - Mohimani, Hosein
AU - Gurevich, Alexey
AU - Prjibelski, Andrey
AU - Fisher, Mark F.
AU - Vargas, Fernando
AU - Smarr, Larry
AU - Dorrestein, Pieter C.
AU - Mylne, Joshua S
AU - Pevzner, Pavel A.
PY - 2019/12/18
Y1 - 2019/12/18
N2 - Cyclic and branch cyclic peptides (cyclopeptides) represent a class of bioactive natural products that include many antibiotics and anti-tumor compounds. Despite the recent advances in metabolomics analysis, still little is known about the cyclopeptides in the human gut and their possible interactions due to a lack of computational analysis pipelines that are applicable to such compounds. Here, we introduce CycloNovo, an algorithm for automated de novo cyclopeptide analysis and sequencing that employs de Bruijn graphs, the workhorse of DNA sequencing algorithms, to identify cyclopeptides in spectral datasets. CycloNovo reconstructed 32 previously unreported cyclopeptides (to the best of our knowledge) in the human gut and reported over a hundred cyclopeptides in other environments represented by various spectra on Global Natural Products Social Molecular Network (GNPS).
AB - Cyclic and branch cyclic peptides (cyclopeptides) represent a class of bioactive natural products that include many antibiotics and anti-tumor compounds. Despite the recent advances in metabolomics analysis, still little is known about the cyclopeptides in the human gut and their possible interactions due to a lack of computational analysis pipelines that are applicable to such compounds. Here, we introduce CycloNovo, an algorithm for automated de novo cyclopeptide analysis and sequencing that employs de Bruijn graphs, the workhorse of DNA sequencing algorithms, to identify cyclopeptides in spectral datasets. CycloNovo reconstructed 32 previously unreported cyclopeptides (to the best of our knowledge) in the human gut and reported over a hundred cyclopeptides in other environments represented by various spectra on Global Natural Products Social Molecular Network (GNPS).
KW - Natural products
KW - peptide sequencing
KW - Mass Spectrometry
KW - Metabolomics
KW - Microbiome
KW - antimicrobial peptides
U2 - 10.1016/j.cels.2019.11.007
DO - 10.1016/j.cels.2019.11.007
M3 - Article
JO - Cell Systems
JF - Cell Systems
SN - 2405-4712
ER -
ID: 49522846