Abstract
Graphical abstract

Purchase one-time access:
Academic & Personal: 24 hour online accessCorporate R&D Professionals: 24 hour online accessOne-time access price info
- For academic or personal research use, select 'Academic and Personal'
- For corporate R&D use, select 'Corporate R&D Professionals'
Subscribe:
Subscribe to The American Journal of PathologyReferences
- The gut microbiota--masters of host development and physiology.Nature reviews Microbiology. 2013; 11: 227-238
- Signals from the gut microbiota to distant organs in physiology and disease.Nat Med. 2016; 22: 1079-1089
- Gut microbial metabolites as multi-kingdom intermediates.Nature reviews Microbiology. 2021; 19: 77-94
- Gut microbiota in human metabolic health and disease.Nature reviews Microbiology. 2021; 19: 55-71
- The gut microbiota as an environmental factor that regulates fat storage.Proc Natl Acad Sci U S A. 2004; 101: 15718-15723
- Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome.Cell Host Microbe. 2008; 3: 213-223
- An obesity-associated gut microbiome with increased capacity for energy harvest.Nature. 2006; 444: 1027-1031
- Antibiotics as deep modulators of gut microbiota: between good and evil.Gut. 2016; 65: 1906-1915
- Antibiotic-Induced Changes in the Intestinal Microbiota and Disease.Trends in molecular medicine. 2016; 22: 458-478
- The resilience of the intestinal microbiota influences health and disease.Nature reviews Microbiology. 2017; 15: 630-638
- Gut microbiome stability and resilience: elucidating the response to perturbations in order to modulate gut health.Gut. 2021; 70: 595-605
- Antibiotics in early life alter the murine colonic microbiome and adiposity.Nature. 2012; 488: 621-626
- Altering the intestinal microbiota during a critical developmental window has lasting metabolic consequences.Cell. 2014; 158: 705-721
- Childhood overweight after establishment of the gut microbiota: the role of delivery mode, pre-pregnancy weight and early administration of antibiotics.Int J Obes (Lond). 2011; 35: 522-529
- Infant antibiotic exposure and the development of childhood overweight and central adiposity.Int J Obes (Lond). 2014; 38: 1290-1298
- Association of antibiotics in infancy with early childhood obesity.JAMA pediatrics. 2014; 168: 1063-1069
- Do Antibiotics Cause Obesity Through Long-term Alterations in the Gut Microbiome? A Review of Current Evidence.Curr Obes Rep. 2021; 10: 244-262
- Succession of microbial consortia in the developing infant gut microbiome.Proceedings of the National Academy of Sciences. 2011; 108: 4578-4585
- Human gut microbiome viewed across age and geography.Nature. 2012; 486: 222-227
- Environmental and intrinsic factors shaping gut microbiota composition and diversity and its relation to metabolic health in children and early adolescents: A population-based study.Gut microbes. 2020; 11: 900-917
- Gut microbiota develop towards an adult profile in a sex-specific manner during puberty.Scientific Reports. 2021; 1123297
- Gut microbiota associations with metabolic syndrome and relevance of its study in pediatric subjects.Gut Microbes. 2021; 131960135
- Gut Microbiota Markers in Obese Adolescent and Adult Patients: Age-Dependent Differential Patterns.Front Microbiol. 2018; 9: 1210
- Differences in Gut Microbiota Composition and Predicted Metabolic Functions: a Pilot Study of Adolescents with Normal Weight and Obesity.Bulletin of Experimental Biology and Medicine. 2022; 173: 628-632
- Effects of Fecal Microbiome Transfer in Adolescents With Obesity: The Gut Bugs Randomized Controlled Trial.JAMA Network Open. 2020; 3: e2030415-e
- Age Limit of Pediatrics.Pediatrics. 2017; 140
- Epidemiology of acne vulgaris.Br J Dermatol. 2013; 168: 474-485
Zaenglein AL, Pathy AL, Schlosser BJ, Alikhan A, Baldwin HE, Berson DS, Bowe WP, Graber EM, Harper JC, Kang S, Keri JE, Leyden JJ, Reynolds RV, Silverberg NB, Stein Gold LF, Tollefson MM, Weiss JS, Dolan NC, Sagan AA, Stern M, Boyer KM, Bhushan R: Guidelines of care for the management of acne vulgaris. Journal of the American Academy of Dermatology 2016, 74:945-73.e33.
- A retrospective analysis of the duration of oral antibiotic therapy for the treatment of acne among adolescents: investigating practice gaps and potential cost-savings.Journal of the American Academy of Dermatology. 2014; 71: 70-76
- The use of oral antibiotics before isotretinoin therapy in patients with acne.Journal of the American Academy of Dermatology. 2016; 74: 273-279
- Status Report from the Scientific Panel on Antibiotic Use in Dermatology of the American Acne and Rosacea Society: Part 1: Antibiotic Prescribing Patterns, Sources of Antibiotic Exposure, Antibiotic Consumption and Emergence of Antibiotic Resistance, Impact of Alterations in Antibiotic Prescribing, and Clinical Sequelae of Antibiotic Use.J Clin Aesthet Dermatol. 2016; 9: 18-24
- Trends in Oral Antibiotic Prescription in Dermatology, 2008 to 2016.JAMA Dermatol. 2019; 155: 290-297
- Tetracyclines and bone: Unclear actions with potentially lasting effects.Bone. 2022; 159116377
- Management of Acne Vulgaris: A Review.Jama. 2021; 326: 2055-2067
Graber EM: Acne vulgaris: Overview of management. UpToDate. Waltham, MA: UpToDate Inc, 2022.
- Oral Antibiotics for Acne.Am J Clin Dermatol. 2021; 22: 193-204
- Pleiotropic roles of bile acids in metabolism.Cell Metab. 2013; 17: 657-669
- Bile acid metabolism and signaling.Compr Physiol. 2013; 3: 1191-1212
- Bile Acid-Activated Receptors, Intestinal Microbiota, and the Treatment of Metabolic Disorders.Trends in molecular medicine. 2015; 21: 702-714
- Intestinal Crosstalk between Bile Acids and Microbiota and Its Impact on Host Metabolism.Cell Metab. 2016; 24: 41-50
- Metabolic Messengers: fibroblast growth factor 15/19.Nature Metabolism. 2019; 1: 588-594
- Fibroblast growth factor 15/19 expression, regulation, and function: An overview.Mol Cell Endocrinol. 2022; 548111617
- Fibroblast Growth Factor 15/19: From Basic Functions to Therapeutic Perspectives.Endocr Rev. 2018; 39: 960-989
- Bile Acids as Metabolic Regulators and Nutrient Sensors.Annu Rev Nutr. 2019; 39: 175-200
- FGF19 and FGF21 serum concentrations in human obesity and type 2 diabetes behave differently after diet- or surgically-induced weight loss.Clin Nutr. 2017; 36: 861-868
- Opposite alterations in FGF21 and FGF19 levels and disturbed expression of the receptor machinery for endocrine FGFs in obese patients.International Journal of Obesity. 2015; 39: 121-129
- Farnesoid X receptor induces Takeda G-protein receptor 5 cross-talk to regulate bile acid synthesis and hepatic metabolism.J Biol Chem. 2017; 292: 11055-11069
- Intestinal FXR agonism promotes adipose tissue browning and reduces obesity and insulin resistance.Nat Med. 2015; 21: 159-165
- FGF15/19 is required for adipose tissue plasticity in response to thermogenic adaptations.Mol Metab. 2021; 43101113
- Intestinal-derived FGF15 protects against deleterious effects of vertical sleeve gastrectomy in mice.Nature Communications. 2021; 12: 4768
Council NR: Guide for the Care and Use of Laboratory Animals: Eighth Edition. Washington, DC: The National Academies Press, 2011.
- Food intake, water intake, and drinking spout side preference of 28 mouse strains.Behav Genet. 2002; 32: 435-443
- A simple practice guide for dose conversion between animals and human.J Basic Clin Pharm. 2016; 7: 27-31
- Comparison of different modes of antibiotic delivery on gut microbiota depletion efficiency and body composition in mouse.BMC microbiology. 2020; 20: 340
- Antibiotic Therapy and the Gut Microbiome: Investigating the Effect of Delivery Route on Gut Pathogens.ACS infectious diseases. 2021; 7: 1283-1296
- Reporting animal research: Explanation and elaboration for the ARRIVE guidelines 2.0.PLOS Biology. 2020; 18e3000411
- REPRODUCIBLE RESEARCH WORKFLOW IN R FOR THE ANALYSIS OF PERSONALIZED HUMAN MICROBIOME DATA.Pac Symp Biocomput. 2016; 21: 183-194
- DADA2: High-resolution sample inference from Illumina amplicon data.Nature Methods. 2016; 13: 581-583
- A Simple Sequentially Rejective Multiple Test Procedure.Scandinavian Journal of Statistics. 1979; 6: 65-70
- A new method for non-parametric multivariate analysis of variance.Austral Ecology. 2001; 26: 32-46
Kulkarni MM: Digital multiplexed gene expression analysis using the NanoString nCounter system. Curr Protoc Mol Biol 2011, Chapter 25:Unit25B.10.
- Direct multiplexed measurement of gene expression with color-coded probe pairs.Nature Biotechnology. 2008; 26: 317-325
- Commensal oral microbiota induces osteoimmunomodulatory effects separate from systemic microbiome in mice.JCI Insight. 2022; 7
- Antibiotic Perturbation of Gut Microbiota Dysregulates Osteoimmune Cross Talk in Postpubertal Skeletal Development.Am J Pathol. 2019; 189: 370-390
- Specific Commensal Bacterium Critically Regulates Gut Microbiota Osteoimmunomodulatory Actions During Normal Postpubertal Skeletal Growth and Maturation.JBMR plus. 2020; 4e10338
- Commensal Gut Microbiota Immunomodulatory Actions in Bone Marrow and Liver have Catabolic Effects on Skeletal Homeostasis in Health.Sci Rep. 2017; 7: 5747
- Analyzing real-time PCR data by the comparative C(T) method.Nat Protoc. 2008; 3: 1101-1108
- Use of osmium tetroxide staining with microcomputerized tomography to visualize and quantify bone marrow adipose tissue in vivo.Methods Enzymol. 2014; 537: 123-139
- Quantitative analysis of bone and soft tissue by micro-computed tomography: applications to ex vivo and in vivo studies.Bonekey Rep. 2014; 3: 564
- Quantification of adiposity in small rodents using micro-CT.Methods. 2010; 50: 14-19
- In vivo quantification of subcutaneous and visceral adiposity by micro-computed tomography in a small animal model.Med Eng Phys. 2009; 31: 34-41
- Tetracycline antibiotics and resistance mechanisms.Biol Chem. 2014; 395: 559-575
- Tetracycline Antibiotics and Resistance.Cold Spring Harb Perspect Med. 2016; 6: a025387
- The history of the tetracyclines.Ann N Y Acad Sci. 2011; 1241: 17-32
- Tetracycline antibiotics: mode of action, applications, molecular biology, and epidemiology of bacterial resistance.Microbiol Mol Biol Rev. 2001; 65 (second page, table of contents): 232-260
- rRNA Binding Sites and the Molecular Mechanism of Action of the Tetracyclines.Antimicrob Agents Chemother. 2016; 60: 4433-4441
- Pharmacokinetics and pharmacodynamics of the tetracyclines including glycylcyclines.J Antimicrob Chemother. 2006; 58: 256-265
- Clinical pharmacokinetics of doxycycline and minocycline.Clin Pharmacokinet. 1988; 15: 355-366
- Men and mice: Relating their ages.Life Sci. 2016; 152: 244-248
Flurkey K, M. Currer J, Harrison DE: Chapter 20 - Mouse Models in Aging Research. The Mouse in Biomedical Research (Second Edition). Edited by Fox JG, Davisson MT, Quimby FW, Barthold SW, Newcomer CE, Smith AL. Burlington: Academic Press, 2007. pp. 637-672.
- Genetic influences on the timing of puberty in mice.Biology of reproduction. 1990; 42: 649-655
- Reduction in hepatic secondary bile acids caused by short-term antibiotic-induced dysbiosis decreases mouse serum glucose and triglyceride levels.Scientific Reports. 2018; 8: 1253
- Depletion of Gram-Positive Bacteria Impacts Hepatic Biological Functions During the Light Phase.Int J Mol Sci. 2019; 20
- Minocycline ameliorates lung and liver dysfunction in a rodent model of hemorrhagic shock/resuscitation plus abdominal compartment syndrome.J Surg Res. 2013; 180: 301-309
- Minocycline protects against hepatic ischemia/reperfusion injury in a rat model.Biomed Rep. 2015; 3: 19-24
- Beyond the lesion site: minocycline augments inflammation and anxiety-like behavior following SCI in rats through action on the gut microbiota.J Neuroinflammation. 2021; 18: 144
- Immunomodulatory tetracyclines shape the intestinal inflammatory response inducing mucosal healing and resolution.Br J Pharmacol. 2018; 175: 4353-4370
- Minocycline: far beyond an antibiotic.Br J Pharmacol. 2013; 169: 337-352
- Perilipins: a diversity of intracellular lipid droplet proteins.Lipids in Health and Disease. 2017; 16: 83
- Thematic review series: adipocyte biology. The perilipin family of structural lipid droplet proteins: stabilization of lipid droplets and control of lipolysis.J Lipid Res. 2007; 48: 2547-2559
- Enterobacteria-mediated deconjugation of taurocholic acid enhances ileal farnesoid X receptor signaling.Eur J Pharmacol. 2012; 697: 132-138
- Gut microbiota regulates bile acid metabolism by reducing the levels of tauro-beta-muricholic acid, a naturally occurring FXR antagonist.Cell Metab. 2013; 17: 225-235
- Administration of ampicillin elevates hepatic primary bile acid synthesis through suppression of ileal fibroblast growth factor 15 expression.J Pharmacol Exp Ther. 2009; 331: 1079-1085
Carson MD, Warner AJ, Hathaway-Schrader JD, Geiser VL, Kim JD, Gerasco JE, Hill WD, Lemasters JJ, Alekseyenko AV, Wu Y, Yao H, Aguirre JI, Westwater C, Novince CM: Minocycline-induced disruption of the intestinal FXR-FGF15 axis impairs osteogenesis in mice. JCI Insight 2022.
- Diurnal variations in tissue glycogen and liver weight of meal-fed rats.J Nutr. 1967; 93: 546-554
- Relation between the glycogen content of the liver and liver weight, and its meaning for enzymology.Experientia. 1971; 27: 1271-1272
- Inside out: Bone marrow adipose tissue as a source of circulating adiponectin.Adipocyte. 2016; 5: 251-269
- Bone marrow adipose tissue is an endocrine organ that contributes to increased circulating adiponectin during caloric restriction.Cell Metab. 2014; 20: 368-375
- The bone-fat interface: basic and clinical implications of marrow adiposity.Lancet Diabetes Endocrinol. 2015; 3: 141-147
- The Role of Bone Marrow Fat in Skeletal Health: Usefulness and Perspectives for Clinicians.J Clin Endocrinol Metab. 2015; 100: 3613-3621
- Abdominal Obesity and the Metabolic Syndrome: Contribution to Global Cardiometabolic Risk.Arteriosclerosis, Thrombosis, and Vascular Biology. 2008; 28: 1039-1049
- Effect of long-term antibiotic use on weight in adolescents with acne.J Antimicrob Chemother. 2016; 71: 1098-1105
- Diversity, stability and resilience of the human gut microbiota.Nature. 2012; 489: 220-230
- Intestinal Microbiome-Macrophage Crosstalk Contributes to Cholestatic Liver Disease by Promoting Intestinal Permeability in Mice.Hepatology. 2020; 72: 2090-2108
- The Controversial Role of Human Gut Lachnospiraceae.Microorganisms. 2020; 8
- Cirrhosis, bile acids and gut microbiota: unraveling a complex relationship.Gut microbes. 2013; 4: 382-387
- The gut microbiota drives the impact of bile acids and fat source in diet on mouse metabolism.Microbiome. 2018; 6: 134
- Probiotics and prebiotics in intestinal health and disease: from biology to the clinic.Nature Reviews Gastroenterology & Hepatology. 2019; 16: 605-616
- Self-reinoculation with fecal flora changes microbiota density and composition leading to an altered bile-acid profile in the mouse small intestine.Microbiome. 2020; 8: 19
- Studies on coprophagy in experimental animals.Jikken Dobutsu. 1993; 42: 1-9
- The gut microbiome of laboratory mice: considerations and best practices for translational research.Mammalian Genome. 2021; 32: 239-250
- Reingestion of feces in rodents and its daily rhythmicity.Oecologia. 1979; 44: 403-409
- Coprophagy in animals: a review.Cornell Vet. 1991; 81: 357-364
- Bile Salt Hydrolases: At the Crossroads of Microbiota and Human Health.Microorganisms. 2021; 9
- Taxonomic profiling and populational patterns of bacterial bile salt hydrolase (BSH) genes based on worldwide human gut microbiome.Microbiome. 2019; 7: 9
- Bile salt biotransformations by human intestinal bacteria.J Lipid Res. 2006; 47: 241-259
- Isolation and characterization of a bile acid inducible 7alpha-dehydroxylating operon in Clostridium hylemonae TN271.Anaerobe. 2010; 16: 137-146
- Molecular tuning of farnesoid X receptor partial agonism.Nature communications. 2019; 10: 2915
- Deciphering the nuclear bile acid receptor FXR paradigm.Nuclear receptor signaling. 2010; 8e005
- Bile acids: chemistry, physiology, and pathophysiology.World J Gastroenterol. 2009; 15: 804-816
- Bile acid-induced tissue factor activity in hepatocytes correlates with activation of farnesoid X receptor.Lab Invest. 2021; 101: 1394-1402
- Gut microbiota and intestinal FXR mediate the clinical benefits of metformin.Nat Med. 2018; 24: 1919-1929
- Microbiome remodelling leads to inhibition of intestinal farnesoid X receptor signalling and decreased obesity.Nature communications. 2013; 4: 2384
- Transgenic mice expressing human fibroblast growth factor-19 display increased metabolic rate and decreased adiposity.Endocrinology. 2002; 143: 1741-1747
- FGFR4 prevents hyperlipidemia and insulin resistance but underlies high-fat diet induced fatty liver.Diabetes. 2007; 56: 2501-2510
- Serum concentrations of fibroblast growth factor 19 in patients with obesity and type 2 diabetes mellitus: the influence of acute hyperinsulinemia, very-low calorie diet and PPAR-α agonist treatment.Physiol Res. 2011; 60: 627-636
- Opposite alterations in FGF21 and FGF19 levels and disturbed expression of the receptor machinery for endocrine FGFs in obese patients.Int J Obes (Lond). 2015; 39: 121-129
- Upregulation of hepatic bile acid synthesis via fibroblast growth factor 19 is defective in gallstone disease but functional in overweight individuals.United European Gastroenterol J. 2014; 2: 216-225
- Association of serum fibroblast growth factor 19 levels with visceral fat accumulation is independent of glucose tolerance status.Nutr Metab Cardiovasc Dis. 2018; 28: 119-125
- A decrease in fasting FGF19 levels is associated with the development of non-alcoholic fatty liver disease in obese adolescents.J Pediatr Endocrinol Metab. 2012; 25: 1089-1093
- Intestine farnesoid X receptor agonist and the gut microbiota activate G-protein bile acid receptor-1 signaling to improve metabolism.Hepatology. 2018; 68: 1574-1588
- FXR activation reverses insulin resistance and lipid abnormalities and protects against liver steatosis in Zucker (fa/fa) obese rats.J Lipid Res. 2010; 51: 771-784
- Farnesoid X receptor targeting to treat nonalcoholic steatohepatitis.Drug Discov Today. 2012; 17: 988-997
Mudaliar S, Henry RR, Sanyal AJ, Morrow L, Marschall HU, Kipnes M, Adorini L, Sciacca CI, Clopton P, Castelloe E, Dillon P, Pruzanski M, Shapiro D: Efficacy and safety of the farnesoid X receptor agonist obeticholic acid in patients with type 2 diabetes and nonalcoholic fatty liver disease. Gastroenterology 2013, 145:574-82.e1.
- Targeting FXR and FGF19 to Treat Metabolic Diseases-Lessons Learned From Bariatric Surgery.Diabetes. 2018; 67: 1720-1728
- The anti-obesity effect of FGF19 does not require UCP1-dependent thermogenesis.Mol Metab. 2019; 30: 131-139
- Fibroblast growth factor 19 increases metabolic rate and reverses dietary and leptin-deficient diabetes.Endocrinology. 2004; 145: 2594-2603
- Fibroblast growth factor-19, a novel factor that inhibits hepatic fatty acid synthesis.J Biol Chem. 2009; 284: 10023-10033
- NGM282 for treatment of non-alcoholic steatohepatitis: a multicentre, randomised, double-blind, placebo-controlled, phase 2 trial.Lancet. 2018; 391: 1174-1185
- NGM282 Improves Liver Fibrosis and Histology in 12 Weeks in Patients With Nonalcoholic Steatohepatitis.Hepatology. 2020; 71: 1198-1212
- Metabolomics and lipidomics in NAFLD: biomarkers and non-invasive diagnostic tests.Nat Rev Gastroenterol Hepatol. 2021; 18: 835-856
- The role of the gut microbiota in NAFLD.Nat Rev Gastroenterol Hepatol. 2016; 13: 412-425
- Nonalcoholic Fatty Liver Disease as a Nexus of Metabolic and Hepatic Diseases.Cell Metab. 2018; 27: 22-41
- Potential Role of the Microbiome in Acne: A Comprehensive Review.J Clin Med. 2019; 8
- Effects of oral antibiotics and isotretinoin on the murine gut microbiota.Int J Antimicrob Agents. 2017; 50: 342-351
- Sarecycline Demonstrated Reduced Activity Compared to Minocycline against Microbial Species Representing Human Gastrointestinal Microbiota.Antibiotics (Basel). 2022; : 11
- Profiling the Effects of Systemic Antibiotics for Acne, Including the Narrow-Spectrum Antibiotic Sarecycline, on the Human Gut Microbiota.Front Microbiol. 2022; 13901911
- Antibiotic-induced changes in the human gut microbiota for the most commonly prescribed antibiotics in primary care in the UK: a systematic review.BMJ Open. 2020; 10e035677
Article info
Publication history
Publication stage
In Press Journal Pre-ProofFootnotes
Funding Souces: American Society for Bone and Mineral Research (Rising Star Award) and the NIH (K08DE025337, T32DE017551, P20GM130457, P30DK123704, R01DE029637, R01AG067510)
Disclosure Statement: The authors have nothing to disclose.