Discovering microbiome-based disease risk factors

Publications

Cross-reactive antibodies against human coronaviruses and the animal coronavirome suggest diagnostics for future zoonotic spillovers

Auteurs: Shelley Klompus, Sigal Leviatan, Thomas Vogl, Roei D. Mazor, Iris N. Kalka, Liat Stoler-Barak, Nachum Nathan, Ayelet Peres, Lihee Moss, Anastasia Godneva, Sharon Kagan Ben Tikva, Eilat Shinar, Hadas Cohen-Dvashi, Ronen Gabizon, Nir London, Ron Diskin, Gur Yaari, Adina Weinberger, Ziv Shulman, Eran Segal
Publié dans: Science Immunology, Numéro 6/61, 2021, ISSN 2470-9468
Éditeur: Science
DOI: 10.1126/sciimmunol.abe9950

Population-wide diversity and stability of serum antibody epitope repertoires against human microbiota

Auteurs: Thomas Vogl, Shelley Klompus, Sigal Leviatan, Iris N. Kalka, Adina Weinberger, Cisca Wijmenga, Jingyuan Fu, Alexandra Zhernakova, Rinse K. Weersma, Eran Segal
Publié dans: Nature Medicine, Numéro 27/8, 2021, Page(s) 1442-1450, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-021-01409-3

Structural variation in the gut microbiome associates with host health

Auteurs: David Zeevi, Tal Korem, Anastasia Godneva, Noam Bar, Alexander Kurilshikov, Maya Lotan-Pompan, Adina Weinberger, Jingyuan Fu, Cisca Wijmenga, Alexandra Zhernakova, Eran Segal
Publié dans: Nature, Numéro 568/7750, 2019, Page(s) 43-48, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/s41586-019-1065-y

A reference map of potential determinants for the human serum metabolome

Auteurs: Noam Bar, Tal Korem, Omer Weissbrod, David Zeevi, Daphna Rothschild, Sigal Leviatan, Noa Kosower, Maya Lotan-Pompan, Adina Weinberger, Caroline I. Le Roy, Cristina Menni, Alessia Visconti, Mario Falchi, Tim D. Spector, Jerzy Adamski, Paul W. Franks, Oluf Pedersen, Eran Segal
Publié dans: Nature, Numéro 588/7836, 2020, Page(s) 135-140, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/s41586-020-2896-2

The road ahead in genetics and genomics

Auteurs: Amy L. McGuire, Stacey Gabriel, Sarah A. Tishkoff, Ambroise Wonkam, Aravinda Chakravarti, Eileen E. M. Furlong, Barbara Treutlein, Alexander Meissner, Howard Y. Chang, Núria López-Bigas, Eran Segal, Jin-Soo Kim
Publié dans: Nature Reviews Genetics, Numéro 21/10, 2020, Page(s) 581-596, ISSN 1471-0056
Éditeur: Nature Publishing Group
DOI: 10.1038/s41576-020-0272-6

Large-scale association analyses identify host factors influencing human gut microbiome composition

Auteurs: Alexander Kurilshikov, Carolina Medina-Gomez, Rodrigo Bacigalupe, Djawad Radjabzadeh, Jun Wang, Ayse Demirkan, Caroline I. Le Roy, Juan Antonio Raygoza Garay, Casey T. Finnicum, Xingrong Liu, Daria V. Zhernakova, Marc Jan Bonder, Tue H. Hansen, Fabian Frost, Malte C. Rühlemann, Williams Turpin, Jee-Young Moon, Han-Na Kim, Kreete Lüll, Elad Barkan, Shiraz A. Shah, Myriam Fornage, Joanna Szopinska
Publié dans: Nature Genetics, Numéro 53/2, 2021, Page(s) 156-165, ISSN 1061-4036
Éditeur: Nature Publishing Group
DOI: 10.1038/s41588-020-00763-1

Wearable and digital devices to monitor and treat metabolic diseases.

Auteurs: Keshet A, Reicher L, Bar N, Segal E.
Publié dans: Nature Metabolism, 2023, ISSN 2522-5812
Éditeur: Springer
DOI: 10.1038/s42255-023-00778-y

The rationale and design of the personal diet study, a randomized clinical trial evaluating a personalized approach to weight loss in individuals with pre-diabetes and early-stage type 2 diabetes

Auteurs: Collin J. Popp, David E. St-Jules, Lu Hu, Lisa Ganguzza, Paige Illiano, Margaret Curran, Huilin Li, Antoinette Schoenthaler, Michael Bergman, Ann Marie Schmidt, Eran Segal, Anastasia Godneva, Mary Ann Sevick
Publié dans: Contemporary Clinical Trials, Numéro 79, 2019, Page(s) 80-88, ISSN 1551-7144
Éditeur: Elsevier BV
DOI: 10.1016/j.cct.2019.03.001

Gut microbiome modulates the effects of a personalised postprandial-targeting (PPT) diet on cardiometabolic markers: a diet intervention in pre-diabetes.

Auteurs: Ben-Yacov O, Godneva A, Rein M, Shilo S, Lotan-Pompan M, Weinberger A, Segal E.
Publié dans: Gut, 2023, ISSN 0017-5749
Éditeur: BMJ Publishing Group
DOI: 10.1136/gutjnl-2022-329201

Effect of a Personalized Diet to Reduce Postprandial Glycemic Response vs a Low-fat Diet on Weight Loss in Adults With Abnormal Glucose Metabolism and Obesity: A Randomized Clinical Trial

Auteurs: Popp CJ, Hu L, Kharmats AY, Curran M, Berube L, Wang C, Pompeii ML, Illiano P, St-Jules DE, Mottern M, Li H, Williams N, Schoenthaler A, Segal E, Godneva A, Thomas D, Bergman M, Schmidt AM, Sevick MA
Publié dans: JAMA Network Open, 2022, ISSN 2574-3805
Éditeur: American Medical Association
DOI: 10.1001/jamanetworkopen.2022.33760

Antibody signatures in inflammatory bowel disease: current developments and future applications

Auteurs: Bourgonje AR, Vogl T, Segal E, Weersma RK
Publié dans: Trends Molecular Medicine, 2022, ISSN 1471-4914
Éditeur: Elsevier BV
DOI: 10.1016/j.molmed.2022.05.004

Phage display sequencing reveals that genetic, environmental, and intrinsic factors influence variation of human antibody epitope repertoire

Auteurs: Andreu-Sánchez S, Bourgonje AR, Vogl T, Kurilshikov A, Leviatan S, Ruiz-Moreno AJ, Hu S, Sinha T, Vich Vila A, Klompus S, Kalka IN, de Leeuw K, Arends S, Jonkers I, Withoff S; Lifelines Cohort Study; Brouwer E, Weinberger A, Wijmenga C, Segal E, Weersma RK, Fu J, Zhernakova A
Publié dans: Immunity, 2023, ISSN 1074-7613
Éditeur: Cell Press
DOI: 10.1016/j.immuni.2023.04.003

SARS-CoV-2 antibody testing for estimating COVID-19 prevalence in the population

Auteurs: Thomas Vogl, Sigal Leviatan, Eran Segal
Publié dans: Cell Reports Medicine, Numéro 2/2, 2021, Page(s) 100191, ISSN 2666-3791
Éditeur: Cell
DOI: 10.1016/j.xcrm.2021.100191

Prediction of Personal Glycemic Responses to Food for Individuals With Type 1 Diabetes Through Integration of Clinical and Microbial Data

Auteurs: Shilo S, Godneva A, Rachmiel M, Korem T, Kolobkov D, Karady T, Bar N, Wolf BC, Glantz-Gashai Y, Cohen M, Zuckerman Levin N, Shehadeh N, Gruber N, Levran N, Koren S, Weinberger A, Pinhas-Hamiel O, E. Segal.
Publié dans: Diabetes Care, 2021, ISSN 0149-5992
Éditeur: American Diabetes Association
DOI: 10.2337/dc21-1048

Clinically Accurate Prediction of Glucose Levels in Patients with Type 1 Diabetes

Auteurs: Yotam Amar, Smadar Shilo, Tal Oron, Eran Amar, Moshe Phillip, Eran Segal
Publié dans: Diabetes Technology & Therapeutics, Numéro 22/8, 2020, Page(s) 562-569, ISSN 1520-9156
Éditeur: Mary Ann Liebert Inc.
DOI: 10.1089/dia.2019.0435

Structured elements drive extensive circular RNA translation

Auteurs: CK. Chen, R. Cheng, J. Demeter, J. Chen, S. Weingarten-Gabbay, L. Jiang, MP. Snyder, JS. Weissman, E. Segal, PK. Jackson, HY. Chang.
Publié dans: Molecular Cell, 2021, ISSN 1097-2765
Éditeur: Cell Press
DOI: 10.1016/j.molcel.2021.07.042

Impact of dietary interventions on pre-diabetic oral and gut microbiome, metabolites and cytokines

Auteurs: Shoer S, Shilo S, Godneva A, Ben-Yacov O, Rein M, Wolf BC, Lotan-Pompan M, Bar N, Weiss EI, Houri-Haddad Y, Pilpel Y, Weinberger A, Segal E.
Publié dans: Nature Communications, 2023, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-023-41042-x

Prediction of gestational diabetes based on nationwide electronic health records

Auteurs: Nitzan Shalom Artzi, Smadar Shilo, Eran Hadar, Hagai Rossman, Shiri Barbash-Hazan, Avi Ben-Haroush, Ran D. Balicer, Becca Feldman, Arnon Wiznitzer, Eran Segal
Publié dans: Nature Medicine, Numéro 26/1, 2020, Page(s) 71-76, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-019-0724-8

Axes of a revolution: challenges and promises of big data in healthcare

Auteurs: Smadar Shilo, Hagai Rossman, Eran Segal
Publié dans: Nature Medicine, Numéro 26/1, 2020, Page(s) 29-38, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-019-0727-5

The pros, cons, and many unknowns of probiotics

Auteurs: Jotham Suez, Niv Zmora, Eran Segal, Eran Elinav
Publié dans: Nature Medicine, Numéro 25/5, 2019, Page(s) 716-729, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-019-0439-x

The Gut Microbiome and Individual-Specific Responses to Diet

Auteurs: Avner Leshem, Eran Segal, Eran Elinav
Publié dans: mSystems, Numéro 5/5, 2020, ISSN 2379-5077
Éditeur: American Society for Microbiology
DOI: 10.1128/msystems.00665-20

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

Auteurs: Kennedy KM, de Goffau MC, Perez-Muñoz ME, Arrieta MC, Bäckhed F, Bork P, Braun T, Bushman FD, Dore J, de Vos WM, Earl AM, Eisen JA, Elovitz MA, Ganal-Vonarburg SC, Gänzle MG, Garrett WS, Hall LJ, Hornef MW, Huttenhower C, Konnikova L, Lebeer S, Macpherson AJ, Massey RC, McHardy AC, Koren O, Lawley TD, Ley RE, O'Mahony L, O'Toole PW, Pamer EG, Parkhill J, Raes J, Rattei T, Salonen A, Segal E, Se
Publié dans: Nature, 2023, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/s41586-022-05546-8

Metabolomic and microbiome profiling reveals personalized risk factors for coronary artery disease

Auteurs: Talmor-Barkan Y, Bar N, Shaul AA, Shahaf N, Godneva A, Bussi Y, Lotan-Pompan M, Weinberger A, Shechter A, Chezar-Azerrad C, Arow Z, Hammer Y, Chechi K, Forslund SK, Fromentin S, Dumas ME, Ehrlich SD, Pedersen O, Kornowski R, E. Segal.
Publié dans: Nature Medicine, 2022, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-022-01686-6

Potential roles of gut microbiome and metabolites in modulating ALS in mice

Auteurs: Eran Blacher, Stavros Bashiardes, Hagit Shapiro, Daphna Rothschild, Uria Mor, Mally Dori-Bachash, Christian Kleimeyer, Claudia Moresi, Yotam Harnik, Maya Zur, Michal Zabari, Rotem Ben-Zeev Brik, Denise Kviatcovsky, Niv Zmora, Yotam Cohen, Noam Bar, Izhak Levi, Nira Amar, Tevie Mehlman, Alexander Brandis, Inbal Biton, Yael Kuperman, Michael Tsoory, Leenor Alfahel, Alon Harmelin, Michal Schwartz, Ad
Publié dans: Nature, Numéro 572/7770, 2019, Page(s) 474-480, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/s41586-019-1443-5

An expanded reference map of the human gut microbiome reveals hundreds of previously unknown species

Auteurs: Leviatan S, Shoer S, Rothschild D, Gorodetski M, Segal E.
Publié dans: Nature Communication, 2022, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-022-31502-1

Prediction of type 2 diabetes mellitus onset using logistic regression-based scorecards

Auteurs: Edlitz Y, Segal E
Publié dans: Elife, 2022, ISSN 2050-084X
Éditeur: eLife Sciences Publications
DOI: 10.7554/elife.71862

Rich data sets could end costly drug discovery

Auteurs: Eran Segal
Publié dans: Nature, Numéro 577/7792, 2020, Page(s) S19-S19, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/d41586-020-00200-7

Systemic antibody responses against human microbiota flagellins are overrepresented in chronic fatigue syndrome patients

Auteurs: Vogl T, Kalka IN, Klompus S, Leviatan S, Weinberger A, Segal E
Publié dans: Science Advances, 2022, ISSN 2375-2548
Éditeur: American Association for the Advancement of Science
DOI: 10.1126/sciadv.abq2422

Microbiome and metabolome features of the cardiometabolic disease spectrum

Auteurs: Fromentin S, Forslund SK, Chechi K, Aron-Wisnewsky J, Chakaroun R, Nielsen T, Tremaroli V, Ji B, Prifti E, Myridakis A, Chilloux J, Andrikopoulos P, Fan Y, Olanipekun MT, Alves R, Adiouch S, Bar N, Talmor-Barkan Y, Belda E, Caesar R, Coelho LP, Falony G, Fellahi S, Galan P, Galleron N, Helft G, Hoyles L, Isnard R, Le Chatelier E, Julienne H, Olsson L, Pedersen HK, Pons N, Quinquis B, Rouault C, Ro
Publié dans: Nature Medicine, 2022, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-022-01688-4

Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome

Auteurs: Ruben A.T. Mars, Yi Yang, Tonya Ward, Mo Houtti, Sambhawa Priya, Heather R. Lekatz, Xiaojia Tang, Zhifu Sun, Krishna R. Kalari, Tal Korem, Yogesh Bhattarai, Tenghao Zheng, Noam Bar, Gary Frost, Abigail J. Johnson, Will van Treuren, Shuo Han, Tamas Ordog, Madhusudan Grover, Justin Sonnenburg, Mauro D’Amato, Michael Camilleri, Eran Elinav, Eran Segal, Ran Blekhman, Gianrico Farrugia, Jonathan R. S
Publié dans: Cell, Numéro 182/6, 2020, Page(s) 1460-1473.e17, ISSN 0092-8674
Éditeur: Cell Press
DOI: 10.1016/j.cell.2020.08.007

Allergenic food protein consumption is associated with systemic IgG antibody responses in non-allergic individuals

Auteurs: Leviatan S, Vogl T, Klompus S, Kalka IN, Weinberger A, Segal E.
Publié dans: Immunity, 2022, ISSN 1074-7613
Éditeur: Cell Press
DOI: 10.1016/j.immuni.2022.11.004

Effects of personalized diets by prediction of glycemic responses on glycemic control and metabolic health in newly diagnosed T2DM: a randomized dietary intervention pilot trial

Auteurs: Rein M, Ben-Yacov O, Godneva A, Shilo S, Zmora N, Kolobkov D, Cohen-Dolev N, Wolf BC, Kosower N, Lotan-Pompan M, Weinberger A, Halpern Z, Zelber-Sagi S, Elinav E, E. Segal
Publié dans: BMC Medicine, 2022, ISSN 1741-7015
Éditeur: BioMed Central
DOI: 10.1186/s12916-022-02254-y

Potential role of indolelactate and butyrate in multiple sclerosis revealed by integrated microbiome-metabolome analysis

Auteurs: Izhak Levi, Michael Gurevich, Gal Perlman, David Magalashvili, Shay Menascu, Noam Bar, Anastasia Godneva, Liron Zahavi, Danyel Chermon, Noa Kosower, Bat Chen Wolf, Gal Malka, Maya Lotan-Pompan, Adina Weinberger, Erez Yirmiya, Daphna Rothschild, Sigal Leviatan, Avishag Tsur, Maria Didkin, Sapir Dreyer, Hen Eizikovitz, Yamit Titngi, Sue Mayost, Polina Sonis, Mark Dolev, Yael Stern, Anat Achiron, Era
Publié dans: Cell Reports Medicine, Numéro 2/4, 2021, Page(s) 100246, ISSN 2666-3791
Éditeur: Elsevier B.V.
DOI: 10.1016/j.xcrm.2021.100246

Identifying gut microbes that affect human health

Auteurs: Sigal Leviatan, Eran Segal
Publié dans: Nature, Numéro 587/7834, 2020, Page(s) 373-374, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/d41586-020-03069-8

CGMap: Characterizing continuous glucose monitor data in thousands of non-diabetic individuals

Auteurs: Keshet A, Shilo S, Godneva A, Talmor-Barkan Y, Aviv Y, Segal E, Rossman H
Publié dans: Cell Metabolism, 2023, ISSN 1550-4131
Éditeur: Cell Press
DOI: 10.1016/j.cmet.2023.04.002

BREAst Cancer Personalised NuTrition (BREACPNT): dietary intervention in breast cancer survivors treated with endocrine therapy - a protocol for a randomised clinical trial

Auteurs: Rein MS, Dadiani M, Godneva A, Bakalenik-Gavry M, Morzaev-Sulzbach D, Vachnish Y, Kolobkov D, Lotan-Pompan M, Weinberger A, Segal E, Gal-Yam EN.
Publié dans: BMJ Open, 2022, ISSN 2044-6055
Éditeur: BMJ Publishing Group
DOI: 10.1136/bmjopen-2022-062498

The Gut Microbiome of Adults With Type 1 Diabetes and Its Association With the Host Glycemic Control

Auteurs: Shilo S, Godneva A, Rachmiel M, Korem T, Bussi Y, Kolobkov D, Karady T, Bar N, Wolf BC, Glantz-Gashai Y, Cohen M, Levin NZ, Shehadeh N, Gruber N, Levran N, Koren S, Weinberger A, Pinhas-Hamiel O, E. Segal.
Publié dans: Diabetes Care, 2022, ISSN 0149-5992
Éditeur: American Diabetes Association
DOI: 10.2337/dc21-1656

BIPS-A code base for designing and coding of a Phage ImmunoPrecipitation Oligo Library

Auteurs: Leviatan S, Kalka IN, Vogl T, Klompas S, Weinberger A, Segal E.
Publié dans: PLoS Computational Biology, 2022, ISSN 1553-7358
Éditeur: Public Library of Science
DOI: 10.1371/journal.pcbi.1010663

The human tumor microbiome is composed of tumor type–specific intracellular bacteria

Auteurs: Deborah Nejman, Ilana Livyatan, Garold Fuks, Nancy Gavert, Yaara Zwang, Leore T. Geller, Aviva Rotter-Maskowitz, Roi Weiser, Giuseppe Mallel, Elinor Gigi, Arnon Meltser, Gavin M. Douglas, Iris Kamer, Vancheswaran Gopalakrishnan, Tali Dadosh, Smadar Levin-Zaidman, Sofia Avnet, Tehila Atlan, Zachary A. Cooper, Reetakshi Arora, Alexandria P. Cogdill, Md Abdul Wadud Khan, Gabriel Ologun, Yuval Bussi,
Publié dans: Science, Numéro 368/6494, 2020, Page(s) 973-980, ISSN 0036-8075
Éditeur: American Association for the Advancement of Science
DOI: 10.1126/science.aay9189

The gut microbiome: a key player in the complexity of amyotrophic lateral sclerosis (ALS)

Auteurs: Sarah L. Boddy, Ilaria Giovannelli, Matilde Sassani, Johnathan Cooper-Knock, Michael P. Snyder, Eran Segal, Eran Elinav, Lynne A. Barker, Pamela J. Shaw, Christopher J. McDermott
Publié dans: BMC Medicine, Numéro 19/1, 2021, ISSN 1741-7015
Éditeur: BioMed Central
DOI: 10.1186/s12916-020-01885-3

Clinical efficacy of fecal microbial transplantationtreatment in adults with moderate‐to‐severe atopicdermatitis

Auteurs: Mashiah J, Karady T, Fliss-Isakov N, Sprecher E, Slodownik D, Artzi O, Samuelov L, Ellenbogen E, Godneva A, E. Segal, Maharshak N.
Publié dans: Immunology Inflammation and Disease, 2021, ISSN 2050-4527
Éditeur: Wiley
DOI: 10.1002/iid3.570

Reporting guidelines for human microbiome research: the STORMS checklist

Auteurs: Mirzayi C, Renson A; Genomic Standards Consortium; Massive Analysis and Quality Control Society, Zohra F, Elsafoury S, Geistlinger L, Kasselman LJ, Eckenrode K, van de Wijgert J, Loughman A, Marques FZ, MacIntyre DA, Arumugam M, Azhar R, Beghini F, Bergstrom K, Bhatt A, Bisanz JE, Braun J, Bravo HC, Buck GA, Bushman F, Casero D, Clarke G, Collado MC, Cotter PD, Cryan JF, Demmer RT, Devkota S, Elin
Publié dans: Nature Medicine, 2021, ISSN 1078-8956
Éditeur: Nature Publishing Group
DOI: 10.1038/s41591-021-01552-x

An atlas of robust microbiome associations with phenotypic traits based on large-scale cohorts from two continents

Auteurs: Rothschild D, Leviatan S, Hanemann A, Cohen Y, Weissbrod O, Segal E.
Publié dans: PLoS One, 2022, ISSN 1932-6203
Éditeur: Public Library of Science
DOI: 10.1371/journal.pone.0265756

A Significant Expansion of Our Understanding of the Composition of the Human Microbiome

Auteurs: Sigal Leviatan, Eran Segal
Publié dans: mSystems, Numéro 4/1, 2019, Page(s) e00010-19, ISSN 2379-5077
Éditeur: American Society of Microbiology
DOI: 10.1128/msystems.00010-19

Recording bacterial responses to changes in the gut environment

Auteurs: Zahavi L, Segal E
Publié dans: Science, 2022, ISSN 0036-8075
Éditeur: American Association for the Advancement of Science
DOI: 10.1126/science.abq1455

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