Publications

Scientific papers:

2020

Uzan-Yulzari A, Morr M, Tareef-Nabwani H, Ziv O, Magid-Neriya D, Armoni R, Muller E, Leibovici A, Borenstein E, Louzoun Y, Shai A, and Koren O. The Intestinal Microbiome, Weight, and Metabolic Changes in Women Treated by Adjuvant Chemotherapy for Breast and Gynecological Malignancies. BMC Med. 2020 Dec;18(1):1-0.
 
Goldberg MR, Mor H, Neriya DM, Magzal F, Muller E, Appel MY, Nachshon L, Borenstein E, Tamir S, Louzoun Y, Youngster I, Elizur A, and Koren O. Microbial Signature in IgE-Mediated Food Allergies. Genome Med. 2020 Dec;12(1):1-8.
 
Binyamin D, Werbner N, Nuriel-Ohayon M, Uzan A, Mor H, Abbas A, Ziv O, Teperino R, Gutman R, and Koren O. The Aging Mouse Microbiome Has Obesogenic Characteristics. Genome Med. 2020 Oct 12;12(1):87. doi: 10.1186/s13073-020-00784-9. 
 
Carboni J, Reed S, Kolba N, Eshel A, Koren O, and Tako E, Alterations in the Intestinal Morphology, Gut Microbiota, and Trace Mineral Status Following Intra-Amniotic Administration (Gallus gallus) of Teff (Eragrostis tef) Seed Extracts. Nutrients. 12:3020.
 
Li Y, Toothaker JM, Ben-Simon S, Ozeri L, Schweitzer R, McCourt BT, McCourt CC, Werner L, Snapper SB, Shouval DS, Khatib S, Koren O, Agnihorti S, Tseng G, and Konnikova L. In Utero Human Intestine Harbors Unique Metabolomic Features Including Bacterial Metabolites. JCI Insight. Epub ahead of print.
 

Lapidot L, Amir A, Ben-Simon S, Veitsman E, Ezra OC, Davidov Y, Weiss P, Bradichevski T, Segev S, Koren O, and Safran M. Alterations of the Salivary and Fecal Microbiome in Patients with Primary Sclerosing CholangitisHepatol Int. 1(70):1152A.

Tenenbaum-Gavish K, Sharhabi-Nov A, Binyamin D, Møller HJ, Danon D, Rothman L, Hadar E, Idelson A, Vogel I, Koren O, Nicolaides KH, Gronbaek H, and Meiri H. First Trimester Biomarkers for prediction of Gestational Diabetes Mellitus. Placenta. 101:80-89.

Rinott E, Youngster I, Meir AY, Tsaban G, Zelicha H, Kaplan A, Knights D, Tuohy K, Fava F, Scholz MU, Ziv O, Reuven E, Tirosh A, Rudich A, Blüher M, Stumvoll M, Ceglarek U, Clement K, Koren O, Wang DD, Hu FB, Stampfer MJ, and Shai I. Effects of Diet-Modulated Autologous Fecal Microbiota Transplantation on Weight Regain. Gastroenterology. S0016-5085(20)35111-8.

Shouval R, Eshel A, Dubovski B, Kuperman AA, Danylesko I, Fein JA, Fried S, Geva M, Kouniavski E, Neuman H, Armon-Omer A,  Shahien R, Muller E, Noecker C, Borenstein E, Louzoun Y, Nagler A, and Koren O. Patterns of Salivary Microbiota Injury and Oral Mucositis in Recipients of Allogeneic Hematopoietic Stem Cell Transplantation. Blood Adv. 4(13):2912-2917.

Lapidot Y, Amir A, Nosenko R, Uzan-Yulzari A, Veitsman E, Cohen-Ezra O, Davidov Y, Weiss P, Bradichevski T, Segev S, Koren O, Safran M, Ben-Ari Z. Alterations in the Gut Microbiome in the Progression of Cirrhosis to Hepatocellular CarcinomamSystems. 00153-20.

Frankiensztajn LM, Elliott E, Koren O. The microbiota and the hypothalamus-pituitary-adrenocortical (HPA) axis, implications for anxiety and stress disordersCurr Opin Neurobiol. 62:76-82.

Kayyal M, Javkar T,  Firoz Mian M, Binyamin D, Koren O, McVey Neufeld KA, and Forsythe P. Sex Dependent Effects of Post-Natal Penicillin on Brain, Behavior and Immune Regulation Are Prevented by Concurrent Probiotic Treatment. Sci Rep. 10(1):10318.

Beasley JT, Johnson AAT, Kolba N, Bonneau JP, Glahn RP, Ozeri L, Koren O, and Tako,E. Nicotianamine-chelated Iron Positively Affects Iron Status, Intestinal Morphology and Microbial Populations in Vivo (Gallus gallus). Sci Rep. 10(1):2297.

Shahar RT, Koren O, Matarasso S, Shochat T, Magzal F, and Agmon M. Attributes of Physical Activity and Gut Microbiome in Adults: A Systematic Review. Int J Sports Med. 10.1055/a-1157-9257.

Champagne-Jorgensen K, Firoz Mian M, Kay S, Hanani H, Ziv O, McVey Neufeld KA, Koren O, and Bienenstock J. Prenatal Low-Dose Penicillin Results in Long-Term Sex-Specific Changes to Murine Behaviour, Immune Regulation, and Gut Microbiota. Brain Behav Immun. 84:154-163.

2019

Janzon A, Goodrich JK, Koren O, TEDDY Study Group, Waters JL, and Ley RE. Interactions Between the Gut Microbiome and Mucosal Immunoglobulins A, M, and G in the Developing Infant Gut. mSystems. 26;4(6).

van der Giessen J*, Binyamin D*, Belogolovski A, Frishman S, Tenenbaum-Gavish K, Hadar E, Louzoun Y, Peppelenbosch MP, van der Woude CJ, Koren O*, and Fuhler GM*. Modulation of Cytokine Patterns and Microbiome During Pregnancy in IBD. Gut. 69(3):473-486. *These authors contributed equally.

Calatayud M, Koren O, and Collado MC. Maternal Microbiome and Metabolic Health Program Microbiome Development and Health of the Offspring. Trends Endocrinol Metab. 30(10):735-744.

Lukić I, Getselter D, Koren O, and Elliott E. Role of Tryptophan in Microbiota-Induced Depressive-Like Behavior: Evidence From Tryptophan Depletion Study. Front Behav Neurosci.13:123.

Shapiro J, Cohen NA, Shalev V, Uzan A, Koren O, and Maharshak N. Psoriatic Patients have a Distinct Structural and Functional Fecal Microbiota Compared with Controls. J Dermatol. 46(7):595-603.

Bretler T, Weisberg H, Koren O, and Neuman H. The Effects of Antipsychotic Medications on Microbiome and Weight gain in Children and Adolescents.  BMC Med. 17(1):112.

Werbner M, Barsheshet Y, Werbner N, Zigdon M, Averbuch I, Ziv O, Brant B, Elliott E, Gelberg S, Titelbaum M, Koren O, and Avni O. Social-Stress-Responsive Microbiota Induces Stimulation of Self-Reactive Effector T Helper Cells. mSystems. 4(4). pii: e00292-18.

Nuriel-Ohayon M, Neuman H, Ziv O, Belogolovski A, Barsheshet Y, Bloch N, Uzan A, Lahav R, Peretz A, Frishman S, Hod M, Hadar E, Louzoun Y, Avni O, and Koren O. Progesterone Increases Bifidobacterium Relative Abundance during Late PregnancyCell Rep. 27(3):730-736.e3.

Stehlikova Z, Kostovcik M, Kostovcikova K, Kverka M, Juzlova K, Rob F, Hercogova J, Bohac P, Pinto Y, Uzan A, Koren O, Tlaskalova-Hogenova H, and Jiraskova Zakostelska Z. Dysbiosis of Skin Microbiota in Psoriatic Patients: Co-occurrence of Fungal and Bacterial Communities. Front Microbiol10:438.

Lukić I, Getselter D, Ziv O, Oron O, Reuveni E, Koren O, and Elliott E. Antidepressants Affect Gut Microbiota and Ruminococcus flavefaciens is Able to Abolish Their Effects on Depressive-Like Behavior. Transl Psychiatry. 9(1):133.

Neuman H, Mor H, Bashi T, Givol O, Watad A, Shemer A, Volkov A, Barshack I, Fridkin M, Blank M, Shoenfeld Y, and Koren O. Helminth-Based Product and the Microbiome of Mice with LupusmSystems. 4(1).

2018

Dias DM, Kolba N, Binyamin D, Ziv O, Regini Nutti M, Martino HSD, Glahn RP, Koren O, and Tako E. Iron Biofortified Carioca Bean (Phaseolus vulgaris L.)-Based Brazilian Diet Delivers More Absorbable Iron and Affects the Gut Microbiota in Vivo (Gallus gallus).  Nutrients. 10(12) pii: E1970.

Ferretti P, Pasolli E, Tett A, Asnicar F, Gorfer V, Fedi S, Armanini F, Truong DT, Manara S, Zolfo M, Beghini F, Bertorelli R, De Sanctis V, Bariletti I, Canto R, Clementi R, Cologna M, Crifò T, Cusumano G, Gottardi S, Innamorati C, Masè C, Postai D, Savoi D, Duranti S, Lugli GA, Mancabelli L, Turroni F, Ferrario C, Milani C, Mangifesta M, Anzalone R, Viappiani A, Yassour M, Vlamakis H, Xavier R, Collado CM, Koren O, Tateo S, Soffiati M, Pedrotti A, Ventura M, Huttenhower C, Bork P, and Segata N. Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome. Cell Host Microbe. 24(1):133-145.

Neuman H, Forsythe P, Uzan A, Avni O* and Koren O*. Antibiotics in Early Life: Dysbiosis and the Damage Done. FEMS Microbiol Rev. 42(4): 489-499. *These authors contributed equally.

Reed S, Knez M, Uzan A, Stangoulis JCR, Glahn RP, Koren O, and Tako E. Alterations in the Gut (Gallus gallus) Microbiota Following the Consumption of Zinc Biofortified Wheat (Triticum aestivum)-Based Diet. J Agric Food Chem. 66(25): 6291-6299.

Walters WA, Jin Z, Youngblut N, Wallace JG, Sutter J, Zhang W, González-Peña A, Peiffer J, Koren O, Shi Q, Knight R, del Rio TG, Tringe SG, Buckler ES, Dangl JL, and Ley RE. Large-Scale Replicated Field Study of Maize Rhizosphere Identifies Heritable Microbes. PNAS. 115(28): 7368-7373.

Binyamin D, Nitzan O, Azrad M, Hamo Z, Koren O*, and Peretz A*. In vitro Activity of Tedizolid, Dalbavancin, and Ceftobiprole Against Clostridium difficile. Front Microbiol. 9:1256. *These authors contributed equally.

Tabouy L, Getselter D, Ziv O, Karpuj M, Tabouy T, Lukic I, Maayouf R, Werbner N, Ben-Amram H, Nuriel-Ohayon Meital, Koren O, and Evan E. Dysbiosis of Microbiome and Probiotic Treatment in a Genetic Model of Autism Spectrum DisordersBrain Behav Immun. 2018;73:310-319.

Nunberg M*, Werbner N*, Neuman H, Bersudsky M, Braiman A, Ben-Shoshan M, Ben Izhak M, Louzoun Y, Apte RN, Voronov E, and Koren O. IL-1α Deficient Mice Have an Altered Gut Microbiota Leading to Protection from DSS-Induced Colitis. mSystems3:e00213-17. *These authors contributed equally. Editor’s Choice and Cover Image.

Avni O* and Koren O*. Molecular (Me)micryCell Host Microbe. 23(5):576-578. *These authors contributed equally.

Gerassy-Vainberg S, Blatt A, Danin-Poleg Y, Gershovich K, Sabo E, Nevelsky A, Daniel S, Dahan A, Ziv O, Dheer R, Abreu MT, Koren O, Kashi Y, and Chowers Y. Radiation Induces Proinflammatory Dysbiosis: Transmission of Inflammatory Susceptibility by Host Cytokine Induction. Gut. 67(1):97-107.

2017

Dahan S, Segal Y, Watad A, Azrielant S, Shemer A, Maymon D, Stroev YI, Sobolevskaya PA, Korneva EA, Blank M, Gilburd B, Shovman O, Amital H, Ehrenfeld M, Tanay A, Kivity S, Pras E, Chapman J, Damoiseaux J, Cervera R, Putterman C, Shapiro I, Mouthon L, Periconne R, Bizzaro N, Koren O, Riemekasten G, Chereshnev VA, Mazurov VI, Goloviznin M, Gurevich V, Churilov LP, and  Shoenfeld Y. Novelties in the Field of Autoimmunity – 1st Saint Petersburg Congress of Autoimmunity, the Bridge Between East and West. Autoimmun Rev. 16(12):1175-1184.

Reed S, Neuman H, Glahn RP, Koren O, and Tako E. Characterizing the Gut (Gallus gallus) Microbiota Following the Consumption of an Iron Biofortified Rwandan Cream Seeded Carioca (Phaseolus Vulgaris L.) Bean-Based Diet. PLoS One. 12(8): e0182431.

Ben-Amram H, Bashi T, Werbner N, Neuman H, Fridkin M, Blank M, Shoenfeld Y, and Koren O. Tuftsin-Phosphorylcholine Maintains Normal Gut Microbiota in Collagen Induced Arthritic Mice.  Front Microbiol. 8:1222.

Pitlik S and Koren O. How holobionts get sick: towards a unifying scheme of disease. Microbiome, 5:64.

Neuman H & O Koren. The Gut Microbiota: A Possible Factor Influencing Systemic Lupus ErythematosusCurr Opin Rheumatol. 29(4): 374-377.

Leclercq S, Mian FM, Stanisz AM, Bindels LB, Cambier E, Ben-Amram H, Koren O, Forsythe P, and Bienenstock J. Low-Dose Penicillin in Early Life Induces Long-Term Changes in Murine Gut Microbiota, Brain Cytokines and Behavior. Nat Commun. 8:15062.

Neuman H & Koren O. The Pregnancy Microbiome. Nestle Nutrition Institute Workshop Series. 88:1-9.

2016

Nuriel-Ohayon M, Neuman H & O Koren. Microbial Changes During Pregnancy, Birth and Infancy. Front Microbiol. 7:1031.

Shamriz O, Mizrahi H, Werbner M, Shoenfeld Y, Avni O*, and Koren O*. The Microbiota at the Crossroads of AutoimmunityAutoimmun Rev. 15(9):859-869. *These authors contributed equally.

Kuperman A and O Koren. Antibiotics During Pregnancy: How Bad is It? BMC Med. 14(1): 91.

2015

Reed S, Neuman H, Moscovich S, Glahn RP, Koren O, and Tako E. Chronic Zinc Deficiency Alters Chick Gut Microbiota Composition and Function. Nutrients. 7(12): 9768-84.

Neuman H,  Debelius JW, Knight R and Koren O. Microbial Endocrinology: The Interplay Between Microbiota and the Endocrine SystemFEMS Microbiol Rev. 39(4): 509-521.

Kuperman A and Koren O. Editorial: The Era of Fecal Microbiota Transplantation. Isr Med Assoc J. 17:2-3.

Chassing B, Koren O, Goodrich JK, Poole AC, Srinivasan S, Ley RE, and Gewirtz AT. Dietary Emulsifiers Alter Gut Microbiota-Intestinal Interactions Promoting Colitis and Metabolic Syndrome. Nature. 5(519): 92-96.

Tracy A, Koren O, Douglas N, Weil E, and Harvell D. Persistent Shifts in Caribbean Coral Microbiota are Linked to the 2010 Warm Thermal Anomaly. Environ Microbiol Rep. 7(3): 471-9.

2014

Goodrich JK, Waters JL, Poole AC, Sutter JL, Koren O, Blekhman R, Beaumont M, Van Treuren W, Knight R, Bell JT, Spector TD, Clark AG, and Ley RE. Human Genetics Shape the Gut Microbiome. Cell. 150(4): 789-799. Recommended by Faculty of 1000.

Goodrich JK, Di Rienzi SC, Poole AC, Koren O, Walters WA, Caporaso JG, Knight R, and Ley RE. Conducting a Microbiome Study. Cell. 158(2): 250-262.

Bel S, Elkis Y, Elifantz H, Koren O, Ben-Hamo R, Lerer-Goldshtein T, Rahimi R, Ben Horin S, Nyska A, Shpungin S, and Nir U. Reprogrammed and Transmissible Intestinal Microbiota Confer Diminished Susceptibility to Induced Colitis in TMF-/- Mice. PNAS. 111(13): 4964-9.

Chassing B, Koren O, Carvalho FA, Ley RE, and Gewirtz AT. AIEC Pathobiont Instigates Chronic Colitis in Susceptible Hosts by Altering Microbiota Composition. Gut. 63(7): 1069-80.

2013

Di Rienzi SC*, Sharon I*, Wrighton KC, Koren O, Hug LA, Thomas BC, Goodrich JK, Bell JT, Spector TD, Banfield J*, and Ley RE*. The Human Gut and Groundwater Harbor Non-Photosynthetic Bacteria Belonging to a New Candidate Phylum Sibling to Cyanobacteria. eLIFE. 2:e01102. *These authors contributed equally. Recommended by Faculty of 1000.

Peiffer JA*, Spor A*, Jin Z, Koren O, Tringe SG, Dangl JL, Buckler ES, and Ley RE. Diversity and Heritability of the Maize Rhizosphere Microbiome Under Field Conditions. PNAS. 110(16): 6548-53. *These authors contributed equally.

Koren O*, Knights D*, Pena AG*, Waldron L, Segata N, Knight R, Huttenhower C, and Ley RE. A Guide to Enterotypes Across the Human Body: Meta-Analysis of Microbial Community Structures in Human Microbiome Datasets. PLoS Comput Biol. 9(1), e1002863. *These authors contributed equally.

2012

Koren O, Goodrich JK, Cullender TC, Spor A, Laitinen K, Backhed H, Gonzalez A, Werner JJ, Angenent LT, Knight R, Backhed F, Isolauri E, Salminen S, and Ley RE. Host Remodeling of the Gut Microbiome and Metabolic Changes During Pregnancy. Cell. 150(3), 470-480. Recommended by Faculty of 1000.

Carvalho FA, Koren O, Johansson M, Nalbantogl I, Aitken JD, SuY, Chassing B, Walters WA, Pena AG, Clemente JC, Barnich N, Darfeuille-Michaud A, Vijay-Kumar M, Knight R, Ley RE, and Gewirtz AT. Transient Inability to Manage Proteobacteria Promotes Chronic Gut Inflammation in TLR5-Deficient Mice. Cell Host Microbe. 12(2), 139-152.

The Human Microbiome Consortium. Structure, Function and Diversity of the Healthy Human Microbiome.   Nature. 486, 207-214. Recommended by Faculty of 1000.

The Human Microbiome Consortium. A Framework for Human Microbiome Research. Nature. 486, 215-221.
Recommended by Faculty of 1000.

Carvalho FA, Nalbantoglu I, Ortega-Fernandez S, Aitken JD, Su Y, Koren O, Walters WA, Knight R, Ley RE, Vijay-Kumar M, and Gewirtz AT. Interleukin-1β (IL-1β) Promotes Susceptibility of Toll-Like Receptor 5 (TLR5) Deficient Mice to Colitis. Gut. 61, 373-384.

Ravussin Y*, Koren O*, Spor A, LeDuc C, Gutman R, Stombaugh J, Knight R, Ley RE, and Leibel R. Response of Gut Microbiotas to Diet Composition and Weight Loss in Lean and Obese Mice. Obesity. 20(4), 738-47. *These authors contributed equally.

Larsson E, Tremaroli V, Shiuan Lee Y, Koren O, Nookaew I, Fricker A, Nielsen J, Ley RE, and Backhed F. Analysis of Gut Microbial Regulation of Host Gene Expression Along the Length of the Gut and Regulation of Gut Microbial Ecology through MyD88. Gut. 61:1124-31. Recommended by Faculty of 1000.

2011

Ran-Ressler R, Khailova L, Arganbright KM, Adkins-Rieck CK, Jouni ZE, Koren O, Ley RE, Brenna JT, and Dvorak B. Branched Chain Fatty Acids Alter Gastrointestinal Microbial Ecology and Reduce the Incidence of Necrotizing Enterocolitis in a Neonatal Rat Model. PLoS One. 6(12), e29032.

Vaishnava S, Yamamoto M, Severson KM, Ruhn KA, Yu X, Koren O, Ley RE, Wakeland EK, and Hooper LV. The Antibacterial Lectin RegIIIg Promotes the Spatial Segregation of Microbiota and Host in the Intestine. Science, 334, 255-58. Recommended by Faculty of 1000.

Werner JJ *, Koren O*, Hugenholtz P, DeSantis TZ, Walters WA, Caporaso JG, Angenent LT, Knight R, and Ley RE. Impact of Training Sets on Classification of High-Throughput Bacterial 16S rRNA Gene Surveys. ISME J. 6(1), 94-103. *These authors contributed equally.

Yilmaz, P, The MIMARKS Consortium. Minimum Information About a Aarker Gene Sequence (MIMARKS) and Minimum Information About Any (x) Sequence (MIxS) Specifications. Nat Biotechnol. 29, 415-20.

Spor A*, Koren O*, and Ley RE. Unraveling the Effects of the Environment and Host Genotype on the Gut Microbiome. Nat Rev Microbiol. 9, 279-90. *These authors contributed equally.

Koren O*, Spor A*, Felin J*, Fåk F, Stombaugh J, Tremaroli V, Behre CJ, Knight R, Fagerberg B, Ley RE, and Bäckhed F. Human Oral, Gut and Plaque Microbiota in Patients with Atherosclerosis. PNAS. 15:108 Suppl 1:4592-8. *These authors contributed equally. Recommended by Faculty of 1000.

Knights D, Kuczynski J, Koren O, Ley RE, Field D, Knight R, DeSantis TZ, and Kelley ST. Supervised Classification of Microbiota Mitigates Mislabeling ErrorsISME J. 5, 570-573.

2003-2010

2010
Kuczynski J, Costello EK, Nemergut DR, Zaneveld J, Lauber CL, Knights D, Koren O, Fierer N, Kelley ST, Ley RE, Gordon JI, and Knight R. Direct Sequencing of the Human Microbiome Readily Reveals Community Differences. Genome Biol. 5, 210-219.

2008
Koren O and Rosenberg E. Bacteria Associated with the Bleached and Cave Coral Oculina patagonica. Microb Ecol. 55, 523-529.

2007
Rosenberg E, Koren O, Reshef L, Efrony R, and Zilber-Rosenberg I. The Role of Microorganisms in Coral Health, Disease and Evolution. Nat Rev Microbiol. 5, 355-362. Recommended by Faculty of 1000.

2006
Reshef L, Koren O, Loya Y, Zilber-Rosenberg I, and  Rosenberg E. The Coral Probiotic Hypothesis.   Env Microbiol. 8, 2068-2073.

Koren O and Rosenberg E. Bacteria Associated with Mucus and Tissues of the Coral Oculina patagonica in Summer and Winter. Appl Environ Microbiol. 72, 5254- 5259. Recommended by Faculty of 1000.

Knezevich V, Koren O, Ron EZ, and Rosenberg E. Petroleum Bioremediation in Seawater Using Guano as the Fertilizer. Bioremediat J. 10, 83-91.

2003
Koren O, Knezevich V, Ron EZ, and Rosenberg E. Petroleum Pollution Bioremediation Using Water-Insoluble Uric Acid as the Nitrogen Source. Appl Environ Microbiol. 69, 6337-6339.

Book Chapters

Collado MC and Koren O. (2019) Microbiome and Pregnancy Complications in New Technologies in Perinatal Medicine. Hod M, Berghella V, D’Alton M, Di Renzo GC, Gratacós E, and Fanos V (eds). CRC Press.

Neuman H and Koren O. (2015) The Gut Microbiome in Encyclopedia of Cell Biology. Bradshaw RA and Stahl PD (eds). Elsevier.

Koren O and Ley RE. (2015) The Human Intestinal Microbiota and Microbiome in Yamada’s Textbook of Gastroenterology, 6th Edition. Podolsky DK, Camilleri M, Fitz JG, Kalloo AN, Shanahan F, and Wang TC (eds). Wiley-Blackwell.

Rosenberg E and Koren O. (2006) Vibrios in Coral Health and Disease in The Biology of Vibrios. Thompson FL, Austin B, and Swings J (eds). ASM Press.