A Taxonomically-informed Mass Spectrometry Search Tool for Microbial Metabolomics Data
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Sara L. Jackrel | Emily C. Gentry | Allegra T. Aron | Yasin El Abiead | Manuel Liebeke | K. Gindro | W. Gerwick | K. Forchhammer | J. S. Sinninghe Damsté | R. Knight | G. Koellensperger | J. Wolfender | N. Bandeira | R. Cichewicz | Kou-San Ju | A. Patterson | H. Mohimani | Neha Garg | D. Petráš | Nicole E. Avalon | N. Lopes | G. Tamayo-Castillo | C. Molina-Santiago | P. Rezende-Teixeira | P. Jimenez | L. Costa-Lotufo | H. M. Roager | Mingxun Wang | Sammy Pontrelli | I. Dubery | F. Tugizimana | Matthew F. Traxler | B. Siewert | G. Barbera | C. licona-cassani | G. D. da Silva | M. F. Laursen | K. McPhail | U. Peintner | M. Brönstrup | Raimo Franke | N. Madala | N. Bale | K. Broders | Evelyn Rampler | Harald Schoeny | Felina Hildebrand | B. Pullman | F. Hammerle | P. Chaverri | Hiutung Chu | Carlismari O. Grundmann | Lisa Panzenboeck | H. Koolen | B. Wagner | S. L. La Rosa | P. Pope | J. Clement | K. Kang | A. Bauermeister | Diego Romero | Rita de Cassia Pessotti | E. Escudero-Leyva | Jerry Cui | Eve T Roxborough | Andreas Sichert | L. Quirós-Guerrero | Mariana Silva dos Santos | Adriano Rutz | R. Gregor | Robin Schmid | Nicole Aiosa | Patric Bourceau | Bipin Rimal | C.-Y. Hsu | Arturo Vera-Ponce de León | M. Meehan | P. Dorrestein | J. Zemlin | P. W. P. Gomes | Katharina Hohenwallner | E. A. Moreira | L. P. S. de Carvalho | Pierre-Marie Allard | A. Caraballo-Rodríguez | D. Silva | Daniel McDonald | Adriana Vasquez Ayala | Marvic Carrillo Terrazas | Renee E. Oles | L. Rodríguez-Orduña | S. Ding | Christopher M. Rath | Simone Zuffa | E. O’Neill | Josep Massana-Codina | L. Nephali | A. I. Pérez-Lorente | Ekaterina Buzun | Jiaqi Zhao | Mirte C. M. Kuijpers | Daniel Alvarado-Villalobos | Alexandre Jean Bory | Juliette Joubert | Henna Gadhavi | Jane Odoi | Xu Guan | Fernanda Motta Ribeiro Silva | Sidnee E. Ober-Singleton
[1] Philipp E. Geyer,et al. Profiling the human intestinal environment under physiological conditions , 2023, Nature.
[2] D. Shalon,et al. Human metabolome variation along the upper intestinal tract , 2023, Nature Metabolism.
[3] Ajay S. Gulati,et al. Bile salt hydrolases shape the bile acid landscape and restrict Clostridioides difficile growth in the murine gut , 2023, Nature Microbiology.
[4] M. Serrano,et al. Hallmarks of aging: An expanding universe , 2022, Cell.
[5] J. V. van Meurs,et al. Gut microbiome-wide association study of depressive symptoms , 2022, Nature Communications.
[6] S. Swanson,et al. P-Massive: A Real-Time Search Engine for a Multi-Terabyte Mass Spectrometry Database , 2022, SC22: International Conference for High Performance Computing, Networking, Storage and Analysis.
[7] D. Wishart,et al. MiMeDB: the Human Microbial Metabolome Database , 2022, Nucleic Acids Res..
[8] M. Kleiner,et al. Dietary protein and the intestinal microbiota: An understudied relationship , 2022, iScience.
[9] Tom O. Delmont,et al. Biosynthetic potential of the global ocean microbiome , 2022, Nature.
[10] C. Steinbeck,et al. The LOTUS initiative for open knowledge management in natural products research , 2022, eLife.
[11] Roger G. Linington,et al. The Natural Products Atlas 2.0: a database of microbially-derived natural products , 2021, Nucleic Acids Res..
[12] Kun Lu,et al. High-coverage metabolomics uncovers microbiota-driven biochemical landscape of interorgan transport and gut-brain communication in mice , 2021, Nature Communications.
[13] Emily C. Gentry,et al. High-confidence structural annotation of metabolites absent from spectral libraries , 2021, Nature Biotechnology.
[14] P. Dorrestein,et al. Mass spectrometry-based metabolomics in microbiome investigations , 2021, Nature reviews. Microbiology.
[15] R. Kerby,et al. Dominant Bacterial Phyla from the Human Gut Show Widespread Ability To Transform and Conjugate Bile Acids , 2021, mSystems.
[16] Emily C. Gentry,et al. A Synthesis-Based Reverse Metabolomics Approach for the Discovery of Chemical Structures from Humans and Animals. , 2021 .
[17] William W. Van Treuren,et al. A metabolomics pipeline for the mechanistic interrogation of the gut microbiome , 2021, Nature.
[18] Wout Bittremieux,et al. Universal Spectrum Identifier for mass spectra , 2020, Nature Methods.
[19] J. Doré,et al. Introduction to host microbiome symbiosis in health and disease , 2020, Mucosal Immunology.
[20] Juho Rousu,et al. Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra , 2020, Nature Biotechnology.
[21] S. Mazmanian,et al. The gut microbiota–brain axis in behaviour and brain disorders , 2020, Nature Reviews Microbiology.
[22] O. Pedersen,et al. Gut microbiota in human metabolic health and disease , 2020, Nature Reviews Microbiology.
[23] Justin J. J. van der Hooft,et al. ReDU: a framework to find and reanalyze public mass spectrometry data , 2020, Nature Methods.
[24] Julie C. Lumeng,et al. Global chemical effects of the microbiome include new bile-acid conjugations , 2020, Nature.
[25] Justin J. J. van der Hooft,et al. Mass spectrometry searches using MASST , 2020, Nature Biotechnology.
[26] Lu Sun,et al. NCBI Taxonomy: a comprehensive update on curation, resources and tools , 2020, Database J. Biol. Databases Curation.
[27] J. Jansson,et al. Soil microbiomes and climate change , 2019, Nature Reviews Microbiology.
[28] Jacob M. Luber,et al. The Landscape of Genetic Content in the Gut and Oral Human Microbiome. , 2019, Cell host & microbe.
[29] William A. Walters,et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 , 2019, Nature Biotechnology.
[30] S. Böcker,et al. SIRIUS 4: a rapid tool for turning tandem mass spectra into metabolite structure information , 2019, Nature Methods.
[31] Karsten Zengler,et al. GABA Modulating Bacteria of the Human Gut Microbiota , 2018, Nature Microbiology.
[32] Amir I. Mina,et al. A selective gut bacterial bile salt hydrolase alters host metabolism , 2018, eLife.
[33] S. Brady,et al. Accessing Bioactive Natural Products from the Human Microbiome. , 2018, Cell host & microbe.
[34] Rohit Loomba,et al. Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity , 2017, Nature.
[35] Kristian Fog Nielsen,et al. Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking , 2016, Nature Biotechnology.
[36] P. Bork,et al. ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data , 2016, Molecular biology and evolution.
[37] R. Ismagilov,et al. Indigenous Bacteria from the Gut Microbiota Regulate Host Serotonin Biosynthesis , 2015 .
[38] Yun-Han Huang,et al. Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist , 2015, Proceedings of the National Academy of Sciences.
[39] Hanspeter Pfister,et al. UpSet: Visualization of Intersecting Sets , 2014, IEEE Transactions on Visualization and Computer Graphics.
[40] J. Segre,et al. The human microbiome: our second genome. , 2012, Annual review of genomics and human genetics.
[41] Nuno Bandeira,et al. Mass spectral molecular networking of living microbial colonies , 2012, Proceedings of the National Academy of Sciences.
[42] P. Dorrestein,et al. Connecting chemotypes and phenotypes of cultured marine microbial assemblages by imaging mass spectrometry. , 2011, Angewandte Chemie.
[43] K. S. Lam,et al. Discovery and development of the anticancer agent salinosporamide A (NPI-0052). , 2009, Bioorganic & medicinal chemistry.
[44] Nigel W. Hardy,et al. Proposed minimum reporting standards for chemical analysis , 2007, Metabolomics.
[45] H. Shibuya,et al. Bioproduction of bile acids and the glycine conjugates by Penicillium fungus , 2007, Journal of Natural Medicines.
[46] C. Lee,et al. Biosynthesis of bile acids in a variety of marine bacterial taxa. , 2007, Journal of microbiology and biotechnology.
[47] M. Lawlor,et al. Yersiniabactin Is a Virulence Factor for Klebsiella pneumoniae during Pulmonary Infection , 2007, Infection and Immunity.
[48] S. Maneerat,et al. Bile acids are new products of a marine bacterium, Myroides sp. strain SM1 , 2005, Applied Microbiology and Biotechnology.
[49] A. Endo. The origin of the statins , 2004 .
[50] E. Denamur,et al. Yersinia High-Pathogenicity Island Contributes to Virulence in Escherichia coli Causing Extraintestinal Infections , 2002, Infection and Immunity.
[51] R. Pukall,et al. Arylomycins A and B, new biaryl-bridged lipopeptide antibiotics produced by Streptomyces sp. Tü 6075. I. Taxonomy, fermentation, isolation and biological activities. , 2002, The Journal of antibiotics.
[52] G. Jung,et al. Structure elucidation of yersiniabactin, a siderophore from highly virulent Yersinia strains , 1995 .
[53] R Monaghan,et al. Mevinolin: a highly potent competitive inhibitor of hydroxymethylglutaryl-coenzyme A reductase and a cholesterol-lowering agent. , 1980, Proceedings of the National Academy of Sciences of the United States of America.
[54] Eduard Szöcs,et al. taxize: taxonomic search and retrieval in R , 2013, F1000Research.
[55] Hiroyuki Ogata,et al. KEGG: Kyoto Encyclopedia of Genes and Genomes , 1999, Nucleic Acids Res..
[56] Supplemental Information 2: Kyoto Encyclopedia of genes and genomes. , 2022 .