Introduction
In the last decennary treatment goals in ulcerative colitis (UC) have progressed beyond simple symptom relief toward achieving deeper, multidimensional forms of remission. This evolution has led to a critical re-evaluation of traditional single endpoints in accurately reflecting disease activity and therapeutic response. A recent Delphi consensus introduced the concept of comprehensive disease control (CDC) in UC, by integrating clinical, endoscopic, and patient-reported outcomes to characterize a state of true disease quiescence. We proposed that this stringent combination of endpoints might correspond to a distinct molecular signature indicating minimal residual inflammation. To test this, we analyzed mRNA and mucosa-associated microbiota signatures in a cohort of UC patients across different remission states.
Aims & Methods
A total of 211 colonic biopsies were obtained from 173 UC patients at Kiel University Hospital between 2010 and 2020. Bulk mRNA sequencing and mucosal 16S rRNA profiling were conducted. Patients were classified according to established remission domains: Biomarker Remission: CRP < 5mg/dL and leukocytes 2.5-9/nL; Clinical Remission: Partial Mayo Score 0-1; Histological Remission: Nancy Index 0-1; Endoscopic Remission: Endoscopic Mayo Score 0. Individuals meeting all 4 criteria were designated as achieving CDC. To identify molecular features predictive of CDC, we applied an iterative random forest model using an 80% training and 20% testing split.
Results
Microbial and transcriptomic profiles mirrored inflammation gradients. Analyses revealed overlapping but distinct signatures across remission domains, exemplified by enrichment of Dorea formicigenerans in endoscopic, histological, and clinical -but not biomarker- remission. None of the 31 CDC patients CDC required IBD-related hospitalization or surgery over 2 years, highlighting CDC as a clinically meaningful state of profound disease inactivity. Linear mixed modeling showed differential abundance of IBD-associated taxa Lachnoclostridium and Lachnospiraceae FC020 in CDC. Transcriptomic profiling revealed a molecular gradient between CDC and non-CDC patients, with enrichment of fatty acid metabolism and suppression of immune programs. A random forest classifier identified 19 transcriptomic markers predictive of CDC (AUC 0.856), including known IBD-associated genes (CXCL1, KRT7, SLC6A14, ESRRA, FGFR3, ITPKA) and novel markers (ATP5PBP8, CHPT1, CPVL-AS2, CTDSPL, GRIK2, MAZ, MCM9, MED7, RIMKLA, RND1, TIGD5, TMEM115, ZDHHC23).
Conclusion
CDC reflects a biologically profound state of disease quiescence in UC, extending to both the molecular and microbial landscape of the intestinal mucosa. The observed molecular gradient suggests a continuum of mucosal healing and highlights the potential for objective biomarkers capable of quantifying minimal residual disease activity. Importantly, such molecular signatures might help identify patients with low disease activity who are in a molecularly inactive state of disease, even if they do not fulfill all Comprehensive Disease Control criteria. External validation of this molecular signature will determine its prognostic value for long-term clinical outcomes.
Disclosure
Hinrichsen, Finn: Received travel support from Pfizer.
P. Bernardes, Joana: I have no conflict of interest to declare
Lopez Agudelo, Victor Alonso: No conflicts
Mishra, Neha: none
Welz, Lina: Received support from Celltrion for independent reporting from scientific congresses.
Tran, Florian: Grant: Sanofi/Regeneron Personal Fees: Speaker’s fees: Abbvie, Bristol-Myers-Squibb, Celltrion Healthcare, Dr Falk Pharma, Eli Lilly, Ferring Pharmaceuticals, J & J, Sanofi, Takeda Consulting honoraria: AbbVie, J & J, Takeda Non-financial Support: Sanofi for statistical analysis
Aden, Konrad: Personal Fees: Lecture fee: Takeda, Janssen, Lilly, Abbvie
Consulting fee: Takeda, Jannsen, Lilly, Guidepoint
Schreiber, Stefan Wolfgang: Personal Fees: AbbVie, Alfasigma, Amgen, Arena, Biogen, Boehringer Ingelheim, Bristol Meyers Squibb, Celgene, Celltrion, Falk, Ferring, Fresenius Kabi, Galapagos, Gilead, IMAB, Janssen, Lilly, MSD, Mylan, Novartis, Pfizer, Protagonist, Provention Bio, Roche, Sandoz/Hexal, Shire, Takeda, Theravance
Rosenstiel, Philip: stock ownership Gerion