Review

. 2021 Nov;27(11):1885-1892.

doi: 10.1038/s41591-021-01552-x. Epub 2021 Nov 17.

Reporting guidelines for human microbiome research: the STORMS checklist

Chloe Mirzayi¹, Audrey Renson²; Genomic Standards Consortium; Massive Analysis and Quality Control Society; Fatima Zohra¹, Shaimaa Elsafoury¹, Ludwig Geistlinger¹, Lora J Kasselman¹, Kelly Eckenrode¹, Janneke van de Wijgert³, Amy Loughman⁴, Francine Z Marques⁵, David A MacIntyre⁶, Manimozhiyan Arumugam⁷, Rimsha Azhar¹, Francesco Beghini⁸, Kirk Bergstrom⁹, Ami Bhatt¹⁰, Jordan E Bisanz¹¹, Jonathan Braun¹², Hector Corrada Bravo¹³, Gregory A Buck¹⁴, Frederic Bushman¹⁵, David Casero¹⁶, Gerard Clarke¹⁷, Maria Carmen Collado¹⁸, Paul D Cotter^{19

20

21}, John F Cryan^{20

22}, Ryan T Demmer²³, Suzanne Devkota¹⁶, Eran Elinav^{24

25}, Juan S Escobar²⁶, Jennifer Fettweis¹⁴, Robert D Finn²⁷, Anthony A Fodor²⁸, Sofia Forslund²⁹, Andre Franke³⁰, Cesare Furlanello³¹, Jack Gilbert³², Elizabeth Grice³³, Benjamin Haibe-Kains³⁴, Scott Handley³⁵, Pamela Herd³⁶, Susan Holmes³⁷, Jonathan P Jacobs³⁸, Lisa Karstens³⁹, Rob Knight⁴⁰, Dan Knights^{41

42}, Omry Koren⁴³, Douglas S Kwon⁴⁴, Morgan Langille⁴⁵, Brianna Lindsay⁴⁶, Dermot McGovern¹⁶, Alice C McHardy⁴⁷, Shannon McWeeney⁴⁸, Noel T Mueller⁴⁹, Luigi Nezi⁵⁰, Matthew Olm⁵¹, Noah Palm⁵², Edoardo Pasolli⁵³, Jeroen Raes⁵⁴, Matthew R Redinbo⁵⁵, Malte Rühlemann⁵⁶, R Balfour Sartor⁵⁷, Patrick D Schloss⁵⁸, Lynn Schriml⁵⁹, Eran Segal⁶⁰, Michelle Shardell⁵⁹, Thomas Sharpton⁶¹, Ekaterina Smirnova⁶², Harry Sokol⁶³, Justin L Sonnenburg⁵¹, Sujatha Srinivasan⁶⁴, Louise B Thingholm⁵⁶, Peter J Turnbaugh⁶⁵, Vaibhav Upadhyay⁶⁵, Ramona L Walls⁶⁶, Paul Wilmes^{67

68}, Takuji Yamada⁶⁹, Georg Zeller⁷⁰, Mingyu Zhang⁴⁹, Ni Zhao⁷¹, Liping Zhao⁷², Wenjun Bao⁷³, Aedin Culhane⁷⁴, Viswanath Devanarayan⁷⁵, Joaquin Dopazo⁷⁶, Xiaohui Fan⁷⁷, Matthias Fischer^{78

79}, Wendell Jones⁸⁰, Rebecca Kusko⁸¹, Christopher E Mason⁸², Tim R Mercer⁸³, Susanna-Assunta Sansone⁸⁴, Andreas Scherer⁸⁵, Leming Shi⁸⁶, Shraddha Thakkar⁸⁷, Weida Tong⁸⁸, Russ Wolfinger⁸⁹, Christopher Hunter⁹⁰, Nicola Segata^{8

50}, Curtis Huttenhower^#⁹¹, Jennifer B Dowd^#⁹², Heidi E Jones^#¹, Levi Waldron^#⁹³

Collaborators, Affiliations

Collaborators

Cesare Furlanello, Susanna-Assunta Sansone

Affiliations

¹ CUNY Graduate School of Public Health and Health Policy, Institute for Implementation Science in Public Health, New York, NY, USA.
² University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
³ Julius Center for Health Sciences and Primary Care, University Medical Center Utrecht, Utrecht University, Utrecht, the Netherlands.
⁴ Food & Mood Centre, The Institute for Mental and Physical Health and Clinical Translation, Deakin University, Geelong, Victoria, Australia.
⁵ Hypertension Research Laboratory, School of Biological Sciences, Faculty of Science, Monash University, Melbourne, Victoria, Australia.
⁶ Department of Metabolism, Digestion and Reproduction, Faculty of Medicine, Imperial College London, London, UK.
⁷ Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
⁸ Department CIBIO, University of Trento, Trento, Italy.
⁹ Department of Biology, University of British Columbia-Okanagan Campus, Kelowna, British Columbia, Canada.
¹⁰ Division of Hematology and Division of Bone Marrow Transplantation, Department of Medicine, and Department of Genetics, Stanford University, Stanford, CA, USA.
¹¹ Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA.
¹² Division of Gastroenterology and Hepatology, Department of Medicine, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
¹³ Genentech, South San Francisco, CA, USA.
¹⁴ Center for Microbiome Engineering and Data Analysis, Department of Microbiology and Immunology, Virginia Commonwealth University, Richmond, VA, USA.
¹⁵ University of Pennsylvania, Philadelphia, PA, USA.
¹⁶ F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
¹⁷ Department of Psychiatry and Neurobehavioural Science, and APC Microbiome Ireland, University College Cork, Cork, Ireland.
¹⁸ Institute of Agrochemistry and Food Technology-National Research Council, Valencia, Spain.
¹⁹ Teagasc Food Research Centre-Moorepark, Cork, Ireland.
²⁰ APC Microbiome Ireland, University College Cork, Cork, Ireland.
²¹ VistaMilk, Cork, Ireland.
²² Department of Anatomy and Neuroscience, University College Cork, Cork, Ireland.
²³ School of Public Health, University of Minnesota, Minneapolis, MN, USA.
²⁴ Immunology Department, Weizmann Institute of Science, Rehovot, Israel.
²⁵ Microbiome and Cancer Division, Deutsches Krebsforschungszentrum, Heidelberg, Germany.
²⁶ Vidarium-Nutrition, Health and Wellness Research Center, Grupo Empresarial Nutresa, Medellin, Colombia.
²⁷ European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK.
²⁸ Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC, USA.
²⁹ Experimental and Clinical Research Center, Max Delbrück Center for Molecular Medicine and Charité University Hospital, Berlin, Germany.
³⁰ Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.
³¹ HK3 Lab, Rovereto, Italy.
³² Department of Pediatrics and Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.
³³ Department of Dermatology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
³⁴ Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario, Canada.
³⁵ Department of Pathology and Immunology, Washington University School of Medicine, St. Louis, MO, USA.
³⁶ McCourt School of Public Policy, Georgetown University, Washington, DC, USA.
³⁷ Department of Statistics, Stanford University, Stanford, CA, USA.
³⁸ Division of Digestive Diseases, David Geffen School of Medicine at UCLA, Los Angeles, CA, USA.
³⁹ Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA.
⁴⁰ Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA.
⁴¹ Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN, USA.
⁴² Biotechnology Institute, University of Minnesota, Saint Paul, MN, USA.
⁴³ Azrieli Faculty of Medicine, Bar Ilan University, Safed, Israel.
⁴⁴ Division of Infectious Diseases, Massachusetts General Hospital, Boston, MA, USA.
⁴⁵ Department of Pharmacology, Dalhousie University, Halifax, Nova Scotia, Canada.
⁴⁶ University of Maryland School of Medicine, Institute of Human Virology, Baltimore, MD, USA.
⁴⁷ Department of Computational Biology of Infection Research, Helmholtz Centre for Infection Research, Brunswick, Germany.
⁴⁸ OHSU Knight Cancer Institute, Portland, OR, USA.
⁴⁹ Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
⁵⁰ Department of Experimental Oncology, Istituto di Ricovero e Cura a Carattere Scientifico-Istituto Europeo di Oncologia, Milan, Italy.
⁵¹ Department of Microbiology and Immunology, Stanford University, Stanford, CA, USA.
⁵² Department of Immunobiology, Yale University School of Medicine, New Haven, CT, USA.
⁵³ Department of Agricultural Sciences, University of Naples Federico II, Portici, Italy.
⁵⁴ Department of Microbiology and Immunology, Rega institute, KU Leuven and VIB Center for Microbiology, Leuven, Belgium.
⁵⁵ Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
⁵⁶ Institute of Clinical Molecular Biology, Christian Albrechts University of Kiel, Kiel, Germany.
⁵⁷ Center for Gastrointestinal Biology and Disease, Division of Gastroenterology and Hepatology, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
⁵⁸ Department of Microbiology & Immunology, University of Michigan, Ann Arbor, MI, USA.
⁵⁹ University of Maryland School of Medicine, Institute for Genome Sciences, Baltimore, MD, USA.
⁶⁰ Department of Computer Science, Weizmann Institute of Science, Rehovot, Israel.
⁶¹ Department of Microbiology and Department of Statistics, Oregon State University, Corvallis, OR, USA.
⁶² Department of Biostatistics, Virginia Commonwealth University, Richmond, VA, USA.
⁶³ Gastroenterology Department, Centre de Recherche Saint-Antoine, INSERM, Assistance Publique-Hôpitaux de Paris, Saint Antoine Hospital, Sorbonne Université, Paris, France.
⁶⁴ Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
⁶⁵ Department of Microbiology and Immunology, University of California San Francisco, San Francisco, CA, USA.
⁶⁶ Critical Path Institute, Tucson, AZ, USA.
⁶⁷ Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
⁶⁸ Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
⁶⁹ Department of Life Science and Technology, Tokyo Institute of Technology, Tokyo, Japan.
⁷⁰ Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.
⁷¹ Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
⁷² Department of Biochemistry and Microbiology, School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ, USA.
⁷³ JMP Life Sciences, SAS Institute, Cary, NC, USA.
⁷⁴ Department of Data Sciences, Dana-Farber Cancer Institute, Boston, MA, USA.
⁷⁵ Eisai, Woodcliff Lake, NJ, USA.
⁷⁶ Clinical Bioinformatics Area, Hospital Virgen del Rocio, Sevilla, Spain.
⁷⁷ College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China.
⁷⁸ Experimental Pediatric Oncology, University Children's Hospital, Cologne, Germany.
⁷⁹ Center for Molecular Medicine Cologne, Medical Faculty, University of Cologne, Cologne, Germany.
⁸⁰ Q2 Solutions-EA Genomics, Durham, NC, USA.
⁸¹ Immuneering, Cambridge, MA, USA.
⁸² Weill Cornell Medicine, New York, NY, USA.
⁸³ Australian Institute for Bioengineering and Nanotechnology, University of Queensland, Brisbane, Queensland, Australia.
⁸⁴ Oxford e-Research Centre, Department of Engineering Science, University of Oxford, Oxford, UK.
⁸⁵ Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland.
⁸⁶ State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China.
⁸⁷ Office of Computational Science, Office of Translational Sciences, Center for Drug Evaluation and Research, Washington, DC, USA.
⁸⁸ Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, Food & Drug Administration, Jefferson, AR, USA.
⁸⁹ Scientific Discovery and Genomics, SAS Institute, Cary, NC, USA.
⁹⁰ GigaScience Database, BGI Hong Kong, Hong Kong, China.
⁹¹ Harvard T. H. Chan School of Public Health, Boston, MA, USA.
⁹² Department of Sociology, Leverhulme Centre for Demographic Science, University of Oxford, Oxford, UK.
⁹³ CUNY Graduate School of Public Health and Health Policy, Institute for Implementation Science in Public Health, New York, NY, USA. levi.waldron@sph.cuny.edu.

^# Contributed equally.

PMID: 34789871
PMCID: PMC9105086
DOI: 10.1038/s41591-021-01552-x

Review

Reporting guidelines for human microbiome research: the STORMS checklist

Chloe Mirzayi et al. Nat Med. 2021 Nov.

. 2021 Nov;27(11):1885-1892.

doi: 10.1038/s41591-021-01552-x. Epub 2021 Nov 17.

Authors

Collaborators

Cesare Furlanello, Susanna-Assunta Sansone

Affiliations

¹ CUNY Graduate School of Public Health and Health Policy, Institute for Implementation Science in Public Health, New York, NY, USA.
² University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
³ Julius Center for Health Sciences and Primary Care, University Medical Center Utrecht, Utrecht University, Utrecht, the Netherlands.
⁴ Food & Mood Centre, The Institute for Mental and Physical Health and Clinical Translation, Deakin University, Geelong, Victoria, Australia.
⁵ Hypertension Research Laboratory, School of Biological Sciences, Faculty of Science, Monash University, Melbourne, Victoria, Australia.
⁶ Department of Metabolism, Digestion and Reproduction, Faculty of Medicine, Imperial College London, London, UK.
⁷ Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
⁸ Department CIBIO, University of Trento, Trento, Italy.
⁹ Department of Biology, University of British Columbia-Okanagan Campus, Kelowna, British Columbia, Canada.
¹⁰ Division of Hematology and Division of Bone Marrow Transplantation, Department of Medicine, and Department of Genetics, Stanford University, Stanford, CA, USA.
¹¹ Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA.
¹² Division of Gastroenterology and Hepatology, Department of Medicine, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
¹³ Genentech, South San Francisco, CA, USA.
¹⁴ Center for Microbiome Engineering and Data Analysis, Department of Microbiology and Immunology, Virginia Commonwealth University, Richmond, VA, USA.
¹⁵ University of Pennsylvania, Philadelphia, PA, USA.
¹⁶ F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
¹⁷ Department of Psychiatry and Neurobehavioural Science, and APC Microbiome Ireland, University College Cork, Cork, Ireland.
¹⁸ Institute of Agrochemistry and Food Technology-National Research Council, Valencia, Spain.
¹⁹ Teagasc Food Research Centre-Moorepark, Cork, Ireland.
²⁰ APC Microbiome Ireland, University College Cork, Cork, Ireland.
²¹ VistaMilk, Cork, Ireland.
²² Department of Anatomy and Neuroscience, University College Cork, Cork, Ireland.
²³ School of Public Health, University of Minnesota, Minneapolis, MN, USA.
²⁴ Immunology Department, Weizmann Institute of Science, Rehovot, Israel.
²⁵ Microbiome and Cancer Division, Deutsches Krebsforschungszentrum, Heidelberg, Germany.
²⁶ Vidarium-Nutrition, Health and Wellness Research Center, Grupo Empresarial Nutresa, Medellin, Colombia.
²⁷ European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK.
²⁸ Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC, USA.
²⁹ Experimental and Clinical Research Center, Max Delbrück Center for Molecular Medicine and Charité University Hospital, Berlin, Germany.
³⁰ Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.
³¹ HK3 Lab, Rovereto, Italy.
³² Department of Pediatrics and Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.
³³ Department of Dermatology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
³⁴ Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario, Canada.
³⁵ Department of Pathology and Immunology, Washington University School of Medicine, St. Louis, MO, USA.
³⁶ McCourt School of Public Policy, Georgetown University, Washington, DC, USA.
³⁷ Department of Statistics, Stanford University, Stanford, CA, USA.
³⁸ Division of Digestive Diseases, David Geffen School of Medicine at UCLA, Los Angeles, CA, USA.
³⁹ Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA.
⁴⁰ Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA.
⁴¹ Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN, USA.
⁴² Biotechnology Institute, University of Minnesota, Saint Paul, MN, USA.
⁴³ Azrieli Faculty of Medicine, Bar Ilan University, Safed, Israel.
⁴⁴ Division of Infectious Diseases, Massachusetts General Hospital, Boston, MA, USA.
⁴⁵ Department of Pharmacology, Dalhousie University, Halifax, Nova Scotia, Canada.
⁴⁶ University of Maryland School of Medicine, Institute of Human Virology, Baltimore, MD, USA.
⁴⁷ Department of Computational Biology of Infection Research, Helmholtz Centre for Infection Research, Brunswick, Germany.
⁴⁸ OHSU Knight Cancer Institute, Portland, OR, USA.
⁴⁹ Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
⁵⁰ Department of Experimental Oncology, Istituto di Ricovero e Cura a Carattere Scientifico-Istituto Europeo di Oncologia, Milan, Italy.
⁵¹ Department of Microbiology and Immunology, Stanford University, Stanford, CA, USA.
⁵² Department of Immunobiology, Yale University School of Medicine, New Haven, CT, USA.
⁵³ Department of Agricultural Sciences, University of Naples Federico II, Portici, Italy.
⁵⁴ Department of Microbiology and Immunology, Rega institute, KU Leuven and VIB Center for Microbiology, Leuven, Belgium.
⁵⁵ Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
⁵⁶ Institute of Clinical Molecular Biology, Christian Albrechts University of Kiel, Kiel, Germany.
⁵⁷ Center for Gastrointestinal Biology and Disease, Division of Gastroenterology and Hepatology, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
⁵⁸ Department of Microbiology & Immunology, University of Michigan, Ann Arbor, MI, USA.
⁵⁹ University of Maryland School of Medicine, Institute for Genome Sciences, Baltimore, MD, USA.
⁶⁰ Department of Computer Science, Weizmann Institute of Science, Rehovot, Israel.
⁶¹ Department of Microbiology and Department of Statistics, Oregon State University, Corvallis, OR, USA.
⁶² Department of Biostatistics, Virginia Commonwealth University, Richmond, VA, USA.
⁶³ Gastroenterology Department, Centre de Recherche Saint-Antoine, INSERM, Assistance Publique-Hôpitaux de Paris, Saint Antoine Hospital, Sorbonne Université, Paris, France.
⁶⁴ Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
⁶⁵ Department of Microbiology and Immunology, University of California San Francisco, San Francisco, CA, USA.
⁶⁶ Critical Path Institute, Tucson, AZ, USA.
⁶⁷ Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
⁶⁸ Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
⁶⁹ Department of Life Science and Technology, Tokyo Institute of Technology, Tokyo, Japan.
⁷⁰ Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.
⁷¹ Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
⁷² Department of Biochemistry and Microbiology, School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ, USA.
⁷³ JMP Life Sciences, SAS Institute, Cary, NC, USA.
⁷⁴ Department of Data Sciences, Dana-Farber Cancer Institute, Boston, MA, USA.
⁷⁵ Eisai, Woodcliff Lake, NJ, USA.
⁷⁶ Clinical Bioinformatics Area, Hospital Virgen del Rocio, Sevilla, Spain.
⁷⁷ College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China.
⁷⁸ Experimental Pediatric Oncology, University Children's Hospital, Cologne, Germany.
⁷⁹ Center for Molecular Medicine Cologne, Medical Faculty, University of Cologne, Cologne, Germany.
⁸⁰ Q2 Solutions-EA Genomics, Durham, NC, USA.
⁸¹ Immuneering, Cambridge, MA, USA.
⁸² Weill Cornell Medicine, New York, NY, USA.
⁸³ Australian Institute for Bioengineering and Nanotechnology, University of Queensland, Brisbane, Queensland, Australia.
⁸⁴ Oxford e-Research Centre, Department of Engineering Science, University of Oxford, Oxford, UK.
⁸⁵ Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland.
⁸⁶ State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China.
⁸⁷ Office of Computational Science, Office of Translational Sciences, Center for Drug Evaluation and Research, Washington, DC, USA.
⁸⁸ Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, Food & Drug Administration, Jefferson, AR, USA.
⁸⁹ Scientific Discovery and Genomics, SAS Institute, Cary, NC, USA.
⁹⁰ GigaScience Database, BGI Hong Kong, Hong Kong, China.
⁹¹ Harvard T. H. Chan School of Public Health, Boston, MA, USA.
⁹² Department of Sociology, Leverhulme Centre for Demographic Science, University of Oxford, Oxford, UK.
⁹³ CUNY Graduate School of Public Health and Health Policy, Institute for Implementation Science in Public Health, New York, NY, USA. levi.waldron@sph.cuny.edu.

^# Contributed equally.

PMID: 34789871
PMCID: PMC9105086
DOI: 10.1038/s41591-021-01552-x

Abstract

The particularly interdisciplinary nature of human microbiome research makes the organization and reporting of results spanning epidemiology, biology, bioinformatics, translational medicine and statistics a challenge. Commonly used reporting guidelines for observational or genetic epidemiology studies lack key features specific to microbiome studies. Therefore, a multidisciplinary group of microbiome epidemiology researchers adapted guidelines for observational and genetic studies to culture-independent human microbiome studies, and also developed new reporting elements for laboratory, bioinformatics and statistical analyses tailored to microbiome studies. The resulting tool, called 'Strengthening The Organization and Reporting of Microbiome Studies' (STORMS), is composed of a 17-item checklist organized into six sections that correspond to the typical sections of a scientific publication, presented as an editable table for inclusion in supplementary materials. The STORMS checklist provides guidance for concise and complete reporting of microbiome studies that will facilitate manuscript preparation, peer review, and reader comprehension of publications and comparative analysis of published results.

PubMed Disclaimer

Figures

**Figure 1.**
STORMS checklist items by major manuscript heading. For detailed descriptions of each item and additional guidance, see the STORMS checklist (Table S1).

**Figure 2.. Examples of flowcharts for item 3.6.**
Though not required by STORMS, flowcharts can help visualize how the final analytic sample was calculated.

See this image and copyright information in PMC

Cited by

Western diets and chronic diseases.
Adolph TE, Tilg H. Adolph TE, et al. Nat Med. 2024 Aug;30(8):2133-2147. doi: 10.1038/s41591-024-03165-6. Epub 2024 Jul 31. Nat Med. 2024. PMID: 39085420 Review.
Healthy microbiome - a mere idea or a sound concept?
Najmanová L, Vídeňská P, Cahová M. Najmanová L, et al. Physiol Res. 2022 Dec 16;71(6):719-738. doi: 10.33549/physiolres.934967. Epub 2022 Nov 25. Physiol Res. 2022. PMID: 36426891 Free PMC article. Review.
Microbiome and Metabolome Insights into the Role of the Gastrointestinal-Brain Axis in Parkinson's and Alzheimer's Disease: Unveiling Potential Therapeutic Targets.
Zacharias HU, Kaleta C, Cossais F, Schaeffer E, Berndt H, Best L, Dost T, Glüsing S, Groussin M, Poyet M, Heinzel S, Bang C, Siebert L, Demetrowitsch T, Leypoldt F, Adelung R, Bartsch T, Bosy-Westphal A, Schwarz K, Berg D. Zacharias HU, et al. Metabolites. 2022 Dec 5;12(12):1222. doi: 10.3390/metabo12121222. Metabolites. 2022. PMID: 36557259 Free PMC article. Review.
Analysis of correlations between gut microbiota, stool short chain fatty acids, calprotectin and cardiometabolic risk factors in postmenopausal women with obesity: a cross-sectional study.
Łoniewski I, Szulińska M, Kaczmarczyk M, Podsiadło K, Styburski D, Skonieczna-Żydecka K, Bogdański P. Łoniewski I, et al. J Transl Med. 2022 Dec 12;20(1):585. doi: 10.1186/s12967-022-03801-0. J Transl Med. 2022. PMID: 36503483 Free PMC article.
Characterizing alterations in the gut microbiota following postpartum weight change.
Chalifour BN, Trifonova DI, Holzhausen EA, Bailey MJ, Schmidt KA, Babaei M, Mokhtari P, Goran MI, Alderete TL. Chalifour BN, et al. mSystems. 2023 Dec 21;8(6):e0080823. doi: 10.1128/msystems.00808-23. Epub 2023 Oct 31. mSystems. 2023. PMID: 37905810 Free PMC article.

See all "Cited by" articles

References

1. Wirbel J et al. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nat. Med 25, 679–689 (2019). - PMC - PubMed
1. Simoneau J, Dumontier S, Gosselin R & Scott MS Current RNA-seq methodology reporting limits reproducibility. Brief. Bioinform doi: 10.1093/bib/bbz124. - DOI - PMC - PubMed
1. Ten Hoopen P et al. The metagenomic data life-cycle: standards and best practices. GigaScience 6, 1–11 (2017). - PMC - PubMed
1. Yilmaz P et al. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat. Biotechnol 29, 415–420 (2011). - PMC - PubMed
1. Moher D, Jones A, Lepage L & Group, for the C. Use of the CONSORT Statement and Quality of Reports of Randomized Trials: A Comparative Before-and-After Evaluation. JAMA 285, 1992–1995 (2001). - PubMed

Publication types

Actions
Actions
Actions

MeSH terms

Actions
Actions
Actions
Actions
Actions
Actions
Actions

Grants and funding

LinkOut - more resources

Full Text Sources

Save citation to file

Email citation

Add to Collections

Add to My Bibliography

Your saved search

Create a file for external citation management software

Your RSS Feed

Reporting guidelines for human microbiome research: the STORMS checklist

Collaborators

Affiliations

Reporting guidelines for human microbiome research: the STORMS checklist

Authors

Collaborators

Affiliations

Abstract

Figures

Similar articles

Cited by

References

Publication types

MeSH terms

Grants and funding

LinkOut - more resources

Full Text Sources