Global chemical effects of the microbiome include new bile-acid conjugations
Quinn, Robert A, Melnik, Alexey V, Vrbanac, Alison, Fu, Ting, Patras, Kathryn A, Christy, Mitchell P, Bodai, Zsolt, Belda-Ferre, Pedro, Tripathi, Anupriya, Chung, Lawton K, Downes, Michael, Welch, Ryan D, Quinn, Melissa, Humphrey, Greg, Panitchpakdi, Morgan, Weldon, Kelly C, Aksenov, Alexander, da Silva, Ricardo, Avila-Pacheco, Julian, Clish, Clary, Bae, Sena, Mallick, Himel, Franzosa, Eric A, Lloyd-Price, Jason, Bussell, Robert, Thron, Taren, Nelson, Andrew T, Wang, Mingxun, Leszczynski, Eric, Vargas, Fernando, Gauglitz, Julia M, Meehan, Michael J, Gentry, Emily, Arthur, Timothy D, Komor, Alexis C, Poulsen, Orit, Boland, Brigid S, Chang, John T, Sandborn, William J, Lim, Meerana, Garg, Neha, Lumeng, Julie C, Xavier, Ramnik J, Kazmierczak, Barbara I, Jain, Ruchi, Egan, Marie, Rhee, Kyung E, Ferguson, David, Raffatellu, Manuela, Vlamakis, Hera, Haddad, Gabriel G, Siegel, Dionicio, Huttenhower, Curtis, Mazmanian, Sarkis K, Evans, Ronald M, Nizet, Victor, Knight, Rob, Dorrestein, Pieter C
Published in Nature (London) (05.03.2020)
Published in Nature (London) (05.03.2020)
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Journal Article
3D molecular cartography using LC-MS facilitated by Optimus and 'ili software
Protsyuk, Ivan, Melnik, Alexey V, Nothias, Louis-Felix, Rappez, Luca, Phapale, Prasad, Aksenov, Alexander A, Bouslimani, Amina, Ryazanov, Sergey, Dorrestein, Pieter C, Alexandrov, Theodore
Published in Nature protocols (01.01.2018)
Published in Nature protocols (01.01.2018)
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Journal Article
The impact of skin care products on skin chemistry and microbiome dynamics
Bouslimani, Amina, da Silva, Ricardo, Kosciolek, Tomasz, Janssen, Stefan, Callewaert, Chris, Amir, Amnon, Dorrestein, Kathleen, Melnik, Alexey V, Zaramela, Livia S, Kim, Ji-Nu, Humphrey, Gregory, Schwartz, Tara, Sanders, Karenina, Brennan, Caitriona, Luzzatto-Knaan, Tal, Ackermann, Gail, McDonald, Daniel, Zengler, Karsten, Knight, Rob, Dorrestein, Pieter C
Published in BMC biology (12.06.2019)
Published in BMC biology (12.06.2019)
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Journal Article
Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease
Aleti, Gajender, Baker, Jonathon L, Tang, Xiaoyu, Alvarez, Ruth, Dinis, Márcia, Tran, Nini C, Melnik, Alexey V, Zhong, Cuncong, Ernst, Madeleine, Dorrestein, Pieter C, Edlund, Anna
Published in mBio (16.04.2019)
Published in mBio (16.04.2019)
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Journal Article
Spatial chemistry of citrus reveals molecules bactericidal to Candidatus Liberibacter asiaticus
A Aksenov, Alexander, Blacutt, Alex, Ginnan, Nichole, Rolshausen, Philippe E, V Melnik, Alexey, Lotfi, Ali, C Gentry, Emily, Ramasamy, Manikandan, Zuniga, Cristal, Zengler, Karsten, Mandadi, Kranthi K, Dorrestein, Pieter C, Roper, M Caroline
Published in Scientific reports (02.09.2024)
Published in Scientific reports (02.09.2024)
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Journal Article
Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols
Crüsemann, Max, O’Neill, Ellis C, Larson, Charles B, Melnik, Alexey V, Floros, Dimitrios J, da Silva, Ricardo R, Jensen, Paul R, Dorrestein, Pieter C, Moore, Bradley S
Published in Journal of natural products (Washington, D.C.) (24.03.2017)
Published in Journal of natural products (Washington, D.C.) (24.03.2017)
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Journal Article
Coupling Targeted and Untargeted Mass Spectrometry for Metabolome-Microbiome-Wide Association Studies of Human Fecal Samples
Melnik, Alexey V, da Silva, Ricardo R, Hyde, Embriette R, Aksenov, Alexander A, Vargas, Fernando, Bouslimani, Amina, Protsyuk, Ivan, Jarmusch, Alan K, Tripathi, Anupriya, Alexandrov, Theodore, Knight, Rob, Dorrestein, Pieter C
Published in Analytical chemistry (Washington) (18.07.2017)
Published in Analytical chemistry (Washington) (18.07.2017)
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Journal Article
Lifestyle chemistries from phones for individual profiling
Bouslimani, Amina, Melnik, Alexey V., Xu, Zhenjiang, Amir, Amnon, da Silva, Ricardo R., Wang, Mingxun, Bandeira, Nuno, Alexandrov, Theodore, Knight, Rob, Dorrestein, Pieter C.
Published in Proceedings of the National Academy of Sciences - PNAS (29.11.2016)
Published in Proceedings of the National Academy of Sciences - PNAS (29.11.2016)
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Journal Article
Untargeted mass spectrometry-based metabolomics approach unveils molecular changes in raw and processed foods and beverages
Gauglitz, Julia M., Aceves, Christine M., Aksenov, Alexander A., Aleti, Gajender, Almaliti, Jehad, Bouslimani, Amina, Brown, Elizabeth A., Campeau, Anaamika, Caraballo-Rodríguez, Andrés Mauricio, Chaar, Rama, da Silva, Ricardo R., Demko, Alyssa M., Di Ottavio, Francesca, Elijah, Emmanuel, Ernst, Madeleine, Ferguson, L. Paige, Holmes, Xavier, Jarmusch, Alan K., Jiang, Lingjing, Kang, Kyo Bin, Koester, Irina, Kwan, Brian, Li, Jie, Li, Yueying, Melnik, Alexey V., Molina-Santiago, Carlos, Ni, Bohan, Oom, Aaron L., Panitchpakdi, Morgan W., Petras, Daniel, Quinn, Robert, Sikora, Nicole, Spengler, Katharina, Teke, Bahar, Tripathi, Anupriya, Ul-Hasan, Sabah, van der Hooft, Justin J.J., Vargas, Fernando, Vrbanac, Alison, Vu, Anthony Q., Wang, Steven C., Weldon, Kelly, Wilson, Kayla, Wozniak, Jacob M., Yoon, Michael, Bandeira, Nuno, Dorrestein, Pieter C.
Published in Food chemistry (01.01.2020)
Published in Food chemistry (01.01.2020)
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Journal Article
Microbial and Nonvolatile Chemical Diversities of Chinese Dark Teas Are Differed by Latitude and Pile Fermentation
Kong, Ya-Shuai, Ren, Hong-Yu, Liu, Rui, da Silva, Ricardo R., Aksenov, Alexander A., Melnik, Alexey V., Zhao, Ming, Le, Miao-Miao, Ren, Zhi-Wei, Xu, Feng-Qing, Yan, Xiao-Wei, Yu, Li-Jun, Zhou, Yu, Xie, Zhong-Wen, Li, Da-Xiang, Wan, Xiao-Chun, Long, Yan-Hua, Xu, Zhenjiang Zech, Ling, Tie-Jun
Published in Journal of agricultural and food chemistry (11.05.2022)
Published in Journal of agricultural and food chemistry (11.05.2022)
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Journal Article
Mass spectrometry tools and workflows for revealing microbial chemistry
Luzzatto-Knaan, Tal, Melnik, Alexey V, Dorrestein, Pieter C
Published in Analyst (London) (07.08.2015)
Published in Analyst (London) (07.08.2015)
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Journal Article
Mass Spectrometry Uncovers the Role of Surfactin as an Interspecies Recruitment Factor
Luzzatto-Knaan, Tal, Melnik, Alexey V, Dorrestein, Pieter C
Published in ACS chemical biology (15.03.2019)
Published in ACS chemical biology (15.03.2019)
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Journal Article
Feature-Based Molecular Networking Analysis of the Metabolites Produced by In Vitro Solid-State Fermentation Reveals Pathways for the Bioconversion of Epigallocatechin Gallate
Xie, Hao-Fen, Kong, Ya-Shuai, Li, Ru-Ze, Nothias, Louis-Félix, Melnik, Alexey V, Zhang, Hong, Liu, Lu-Lu, An, Ting-Ting, Liu, Rui, Yang, Zi, Ke, Jia-Ping, Zhang, Peng, Bao, Guan-Hu, Xie, Zhong-Wen, Li, Da-Xiang, Wan, Xiao-Chun, Dai, Qian-Ying, Zhang, Liang, Zhao, Ming, An, Mao-Qiang, Long, Yan-Hua, Ling, Tie-Jun
Published in Journal of agricultural and food chemistry (29.07.2020)
Published in Journal of agricultural and food chemistry (29.07.2020)
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Journal Article
Intermittent Hypoxia and Hypercapnia, a Hallmark of Obstructive Sleep Apnea, Alters the Gut Microbiome and Metabolome
Tripathi, Anupriya, Melnik, Alexey V, Xue, Jin, Poulsen, Orit, Meehan, Michael J, Humphrey, Gregory, Jiang, Lingjing, Ackermann, Gail, McDonald, Daniel, Zhou, Dan, Knight, Rob, Dorrestein, Pieter C, Haddad, Gabriel G
Published in mSystems (01.05.2018)
Published in mSystems (01.05.2018)
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Journal Article
Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides
Nguyen, Don D, Melnik, Alexey V, Koyama, Nobuhiro, Lu, Xiaowen, Schorn, Michelle, Fang, Jinshu, Aguinaldo, Kristen, Lincecum, Jr, Tommie L, Ghequire, Maarten G K, Carrion, Victor J, Cheng, Tina L, Duggan, Brendan M, Malone, Jacob G, Mauchline, Tim H, Sanchez, Laura M, Kilpatrick, A Marm, Raaijmakers, Jos M, De Mot, René, Moore, Bradley S, Medema, Marnix H, Dorrestein, Pieter C
Published in Nature microbiology (31.10.2016)
Published in Nature microbiology (31.10.2016)
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Journal Article
The Molecular Effect of Wearing Silver-Threaded Clothing on the Human Skin
Melnik, Alexey V, Callewaert, Chris, Dorrestein, Kathleen, Broadhead, Rosie, Minich, Jeremiah J, Ernst, Madeleine, Humphrey, Greg, Ackermann, Gail, Gathercole, Rob, Aksenov, Alexander A, Knight, Rob, Dorrestein, Pieter C
Published in mSystems (23.02.2023)
Published in mSystems (23.02.2023)
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Journal Article
Multi-omic approach to decipher the impact of skincare products with pre/postbiotics on skin microbiome and metabolome
Li, Min, Mao, Junhong, Diaz, Isabel, Kopylova, Evguenia, Melnik, Alexey V, Aksenov, Alexander A, Tipton, Craig D, Soliman, Nadia, Morgan, Andrea M, Boyd, Thomas
Published in Frontiers in medicine (18.07.2023)
Published in Frontiers in medicine (18.07.2023)
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Journal Article
Metabolic Profiling of Interspecies Interactions During Sessile Bacterial Cultivation Reveals Growth and Sporulation Induction in Paenibacillus amylolyticus in Response to Xanthomonas retroflexus
Herschend, Jakob, Ernst, Madeleine, Koren, Klaus, Melnik, Alexey V, da Silva, Ricardo R, Røder, Henriette L, Damholt, Zacharias B V, Hägglund, Per, Svensson, Birte, Sørensen, Søren J, Kühl, Michael, Dorrestein, Pieter C, Burmølle, Mette
Published in Frontiers in cellular and infection microbiology (29.03.2022)
Published in Frontiers in cellular and infection microbiology (29.03.2022)
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Journal Article
B. infantis EVC001 Is Well-Tolerated and Improves Human Milk Oligosaccharide Utilization in Preterm Infants in the Neonatal Intensive Care Unit
Bajorek, Sarah, Duar, Rebbeca M, Corrigan, Maxwell, Matrone, Christa, Winn, Kathryn A, Norman, Susan, Mitchell, Ryan D, Cagney, Orla, Aksenov, Alexander A, Melnik, Alexey V, Kopylova, Evguenia, Perez, Jose
Published in Frontiers in pediatrics (05.01.2022)
Published in Frontiers in pediatrics (05.01.2022)
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Journal Article
SIRIUS 4: a rapid tool for turning tandem mass spectra into metabolite structure information
Dührkop, Kai, Fleischauer, Markus, Ludwig, Marcus, Aksenov, Alexander A, Melnik, Alexey V, Meusel, Marvin, Dorrestein, Pieter C, Rousu, Juho, Böcker, Sebastian
Published in Nature methods (01.04.2019)
Published in Nature methods (01.04.2019)
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Journal Article