Perttu Arkkila’s research while affiliated with University of Helsinki and other places

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Publications (27)


FC levels by activity index in patients with UC and CD (p < 0.001 and p < 0.001 with cut-off 3). FC, fecal calprotectin; UC, ulcerative colitis; CD, Crohn’s disease
Hb levels by activity index in patients with UC (p < 0.001 with cut-off 3). Hb, hemoglobin; UC, ulcerative colitis; F, females; M, males
Hb levels by activity index in patients with CD (p < 0.001 with cut-off 3). Hb, hemoglobin; CD, Crohn’s disease; F, females; M, males
Ferritin levels by activity index in patients with UC (p = 0.020 with cut-off 3) and CD (p = 0.825 with cut-off 3). UC, ulcerative colitis; CD, Crohn’s disease; F, females; M, males
CRP levels by activity index in patients with UC and CD (p < 0.001 and p < 0.001 with cut-off 3). CRP, C-reactive protein; UC, ulcerative colitis; CD, Crohn’s disease

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Correlation of a clinical activity index in comparison to frequently measured laboratory values in inflammatory bowel disease
  • Article
  • Full-text available

February 2025

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15 Reads

International Journal of Colorectal Disease

Marja Rapo

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Clas-Göran af Björkesten

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Perttu Arkkila

Purpose Several laboratory tests are used to monitor disease activity and possible complications in patients with inflammatory bowel disease (IBD). Due to limited resources, it is important to identify patients who benefit the most from tight laboratory testing and follow-up. We sought to assess the correlation between a symptom-based clinical activity index and commonly monitored laboratory tests in a large patient population. Methods The Finnish IBD registry records a validated IBD symptom index questionnaire (IBD-SI) that measures disease activity and the influence of IBD on daily life in patients with ulcerative colitis (UC) and Crohn’s disease (CD). The activity index was compared with the commonly measured laboratory values of fecal calprotectin (FC), hemoglobin (Hb), ferritin, and C-reactive protein (CRP). Results A total of 5044 IBD patients with 171,967 activity index measurement pairs were included. FC, Hb, and CRP correlated significantly with the activity index in both UC (Spearman’s r 0.383, −0.212, 0.175; p < 0.001) and CD (Spearman’s r 0.156, −0.176, 0.152; p < 0.001). No correlation between the activity index and ferritin (Spearman’s r 0.038 [UC], 0.005 [CD]; p = 0.020, p = 0.825) was found. Conclusion The activity index is a useful tool in the assessment of IBD activity. Active or inactive disease can be identified better, which may be beneficial in planning more personalized follow-up strategies. Tight monitoring of disease can be better targeted to the correct patient population, and the onset of disease flare may be caught at an earlier stage.

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Distribution of CDI episodes. (a) Histogram showing the distribution of CDI episode burden per IBD-CDI patient. (b) Histogram showing the distribution of time intervals between recurrent CDI episodes. Logarithmic scale on the X-axis. The line indicates the median interval (53 days) and the dashed line indicates the 90-day cutoff.
CD, Crohn’s disease; CDI, Clostridioides difficile infection; IBD, inflammatory bowel disease.
Box and dot plot of FC levels 3 months before, within 1 month of, and 2–6 months after CDI in the IBD-CDI cohort. FC levels for controls were recorded according to the infection episode landmark. p Values for comparisons are shown above the plots.
CDI, Clostridioides difficile infection; FC, fecal calprotectin; IBD, inflammatory bowel disease.
Characteristics of the patients.
Medications before CDI episodes.
GI symptoms of inflammatory bowel disease patients during CDI.
Higher disease activity of inflammatory bowel disease predisposes to Clostridioides difficile infection

February 2025

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4 Reads

Background Clostridioides difficile infection (CDI) is a clinical challenge associated with poor outcomes in patients with inflammatory bowel disease (IBD). Objectives To identify clinical risk factors for CDI and its recurrence among patients with IBD. Design Case–control cohort study of IBD patients with and without episodes of CDI. Methods A case–control study of 279 IBD patients with CDI. Medical history and IBD-related symptoms 3 months preceding a toxin-positive CDI were recorded and compared with age- and sex-matched IBD patients without CDI. Outcomes of CDI in IBD patients were recorded 2–6 months after CDI. Results Based on clinical symptoms and fecal calprotectin levels, IBD is active before CDI. Recently diagnosed IBD seemed to increase the risk for CDI. Corticosteroid usage frequently preceded CDI episodes. Advanced therapies were not associated with CDI. Antibiotic intake was not registered before CDI in 30% of the episodes. Recurrent CDI (rCDI) occurred in 30% (84/279) of IBD-CDI patients and 67% (90/135) of those episodes were registered within 90 days from the preceding episode. Most (79%) rCDI patients had ulcerative colitis (UC). CDI could complicate underlying IBD by increasing the need for escalation in IBD-related medical therapy and leading to hospitalization but it did not seem to increase the risk of colectomy. Conclusion The major risk factors associated with CDI in IBD patients were IBD activity before infection, UC and colonic Crohn’s disease, short duration of IBD, corticosteroid usage, and hospitalization. Patients with active IBD and a shorter disease duration may benefit from more frequent follow-ups in the early stages, as they appear to be at higher risk of developing CDI.


Kaplan–Meier survival curve for treatment persistence after the switch from intravenous to subcutaneous maintenance therapy with infliximab. CD, Crohn’s disease; UC, ulcerative colitis
Reasons for the discontinuation of subcutaneous infliximab therapy after switching from intravenous maintenance therapy
a and b Clinical activity and fecal calprotectin levels at baseline and after switching from intravenous to subcutaneous infliximab maintenance therapy. HBI, Harvey–Bradshaw index; PMS, partial Mayo score
Switching to Subcutaneous Infliximab Maintenance Therapy Is Effective in Patients with Inflammatory Bowel Disease

February 2025

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44 Reads

Digestive Diseases and Sciences

Background Recent studies suggest that subcutaneous infliximab is effective and safe for treating patients with inflammatory bowel disease. Real-world studies with larger cohorts are needed to confirm the efficacy of subcutaneous treatment. Aims The aim was to assess real-world treatment persistence, clinical outcomes, infliximab concentrations, and treatment safety after switching from intravenous to subcutaneous infliximab treatment with patients with inflammatory bowel disease. Methods This retrospective register-based study included patients with inflammatory bowel disease who were in clinical remission and switched from intravenous infliximab maintenance therapy to subcutaneous infliximab in two tertiary centers. Results A total of 274 patients (104 Crohn's disease and 170 ulcerative colitis) were included. After the switch, the treatment persistence at 12 months was 94.8% in patients with Crohn’s disease and 88.8% in patients with ulcerative colitis. Only 11.3% (n = 31) of the patients discontinued the treatment during 79-week median follow-up. Compared to the baseline, no change occurred in clinical disease activity at the time points of 3, 6, and 12 months, based on the Harvey–Bradshaw Index or partial Mayo Score (p = 0.792 and p = 0.426, respectively). Infliximab median concentrations were higher (p < 0.0001) during subcutaneous treatment (16.75 µg/ml) compared to the intravenous treatment median trough levels before the switch (6.71 µg/ml). In total, 15.0% (n = 41) of the patients reported adverse events. Conclusion Switching to subcutaneous infliximab maintenance therapy was associated with high treatment persistence, a stable disease course, increased infliximab concentrations, and an acceptable safety profile.




The patient inclusion process
Large esophageal duplication cyst (9.1 cm) on the left originating from the upper esophageal region protruding into the left upper lobe of the lung. a Contrast-enhanced computed tomography image shows a high-attenuation mass with a density of 82 Hounsfield Units (HU). b Axial T2-weighted fat-saturated (Blade) magnetic resonance image reveals a lesion of increased signal intensity owing to liquid content. c Axial non-contrast-enhanced T1-weighted fat-saturated (Vibe) magnetic resonance image shows a lesion of increased signal intensity due to the high proteinous content of the liquid inside the duplication cyst
Comparison of Endoscopic Ultrasound and CT Scan in the Diagnosis of Esophageal Duplication Cysts

October 2024

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33 Reads

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1 Citation

Digestive Diseases and Sciences

Background and Aim Esophageal duplication cysts (EDCs) are rare congenital malformations, often discovered incidentally during endoscopy or on computed tomography (CT) scans. The role of endoscopic ultrasound (EUS) and CT scan in the diagnosis of these lesions and indications for surgical treatment are underreported. The aim of this study was to investigate these topics in a cohort of patients. Materials and Methods Between January 2001 and October 2020, 82 patients had a suspicion of esophageal duplication cyst on endoscopic ultrasound. Thirty four of these patients were referred for surgical enucleation of the lesion, but three patients were lost to follow-up. At the end, 31 patients, who underwent surgical treatment for their suspected EDC were included in this study. Clinical features, EUS findings, CT images, surgical treatment, and outcome were collected from hospital health records. CT images were re-evaluated by a chest radiologist. Type of surgery, surgical complications, and final histological diagnosis were reported. Results and Conclusion The patients referred for surgery were younger (p = 0.0001) and had larger lesions (> 2 cm; p = 0.005) than the patients who had non-operative follow-up. From thirty-one operated patients, eighteen (58%) had post-operative histological diagnosis of duplication cyst. On EUS the final histological diagnosis was correct in 58% (18/31) of all the operated cases and on CT scan 57% (17/30). CT scan misdiagnosed three of the EDCs but found two leiomyomas correctly. None of these patients developed malignancy. According to this study, neither EUS without fine-needle biopsy nor CT scan alone can differentiate EDCs from other mediastinal masses.


Fig. 1 | Baseline fecal and mucosal microbiota composition of the IBS patients, the donor, and the non-IBS controls. A Family-level average relative abundance of fecal microbiota as assessed by 16S rRNA gene amplicon sequencing showing families with >1% abundance and >20% prevalence in the IBS patients (n = 49) at baseline (BL) and in the donor (n = 1). B Family-level average relative abundance of mucosal microbiota as assessed by 16S rRNA gene amplicon sequencing showing families with >1% abundance and >20% prevalence in the IBS patients (IBS, n = 49) and the non-IBS controls (n = 7). C PCoA plot of genus-level mucosal microbiota composition as assessed by 16S rRNA gene amplicon sequencing. Measured with BrayCurtis dissimilarity index. IBS patients grouped separately from the controls, however also dispersions of the groups differed significantly (p = 0.003, PERMANOVA with 999 permutations, p = 0.0003, betadisper).
Fig. 3 | The most dominant species in each patient and the donor and Prevotella copri strain clustering. A Species-level PCoA plot as assessed by metagenomics with Bray-Curtis dissimilarity index showing separation of the FMT and placebo groups after the treatment (p = 0.01, PERMANOVA with 999 permutations, p = 0.02, betadisper). B The most dominant species after the treatment. Prevotella copri dominated the microbiota of patients in the FMT group. C Phylogenetic tree of the Prevotella copri clade A as assessed by metagenomics and StrainPhlAn. All samples grouping (marked with light blue color) with the donor samples (marked with light yellow color) were from patients in the FMT group post-FMT. Four patients from the FMT group (marked with four different shades of green) clustering with intraindividual samples had a high initial relative abundance of P. copri. Clade markers were found from one placebo patient (marked with gray color) and Prevotella copri DSM 18205 was used as a reference genome (marked with brown color).
Fecal microbiota transplantation influences microbiota without connection to symptom relief in irritable bowel syndrome patients

August 2024

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154 Reads

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3 Citations

npj Biofilms and Microbiomes

Imbalanced microbiota may contribute to the pathophysiology of irritable bowel syndrome (IBS), thus fecal microbiota transplantation (FMT) has been suggested as a potential treatment. Previous studies on the relationship between clinical improvement and microbiota after FMT have been inconclusive. In this study, we used 16S rRNA gene amplicon and shotgun metagenomics data from a randomized, placebo controlled FMT trial on 49 IBS patients to analyze changes after FMT in microbiota composition and its functional potential, and to identify connections between microbiota and patients’ clinical outcome. As a result, we found that the successful modulation of microbiota composition and functional profiles by FMT from a healthy donor was not associated with the resolution of symptoms in IBS patients. Notably, a donor derived strain of Prevotella copri dominated the microbiota in those patients in the FMT group who had a low relative abundance of P. copri pre-FMT. The results highlight the multifactorial nature of IBS and the role of recipient’s microbiota in the colonization of donor’s strains.





Citations (12)


... For example, Salonen et al. (2023) [46] reported no significant improvements in fatigue or quality of life in CFS patients, underscoring the variability in individual microbiota profiles and host-specific factors. As noted by Hartikainen et al. (2024), this variability may reflect the influence of individual microbiota profiles or host-specific factors on neurotransmitter biosynthesis and signaling [66]. ...

Reference:

Effectiveness of Fecal Microbiota Transplantation in Nociplastic Pain Management: A Systematic Review
Fecal microbiota transplantation influences microbiota without connection to symptom relief in irritable bowel syndrome patients

npj Biofilms and Microbiomes

... this likely contributes to the variable outcomes observed across studies, methodologies, and even within the same study over time. Researchers use various methods to standardize donor samples, such as homogenized stool from one or more donors, random donor-recipient pairings, or lyophilized stool pills for repeated administration [168][169][170][171]. Second, with an incomplete understanding of how microbes influence disease, defining a "healthy" microbiome (and therefore ideal donor) remains elusive. ...

Fecal Microbiota Transplantation for Treatment of Parkinson Disease: A Randomized Clinical Trial

... In other studies, discontinuation of TAF in favor of non-Tenofovir regimens has showed no reduction in patients' weight [9]. These findings suggest TAF's long-term weight-neutrality [19,20]. ...

Effect of Two Forms of Tenofovir on Duodenal Enterocytes – a Hypothesis for Different Effect of TDF and TAF on Body Weight and Plasma Lipids
  • Citing Article
  • July 2024

Clinical Infectious Diseases

... Nevertheless, our findings are supported by several network meta-analyses of randomized trials, which did not demonstrate differences in efficacy between first-line VDZ and IFX in UC [26,30]. In addition, Peyrin-Biroulet et al. underlined the similar efficacy of subcutaneous infliximab and vedolizumab as first-line treatments in moderate-to-severe UC [31]. As our clinical practice has been aligned with the current evidence, our cohort includes only 12 UC patients on adalimumab, who had achieved deep remission on 5-ASA, before initiating anti-TNF to treat extraintestinal manifestations. ...

Comparative efficacy and safety of subcutaneous infliximab and vedolizumab in patients with Crohn’s disease and ulcerative colitis included in randomised controlled trials

BMC Gastroenterology

... However, this meta-analysis examined switching only and included observational studies [27]. A recent network meta-analysis showed that subcutaneous administration of Infliximab and Vedolizumab was potentially better than either oral or intravenous routes, although the evidence is based on indirect comparisons with very few studies for each outcome [28]. The previous meta-analyses have been limited to either studying the efficacy of switching [27] or comparisons with placebo or indirect comparisons between subcutaneous and intravenous routes [28]. ...

Comparative Efficacy of Subcutaneous and Intravenous Infliximab and Vedolizumab for Maintenance Treatment of TNF-naive Adult Patients with Inflammatory Bowel Disease: A Systematic Literature Review and Network Meta-analysis

Digestive Diseases and Sciences

... The research group has extensive experience studying the composition of the intestinal microbiome, therapeutic use of intestinal bacteria (faecal transplants) and host-microbe interactions. [26][27][28][29] Sample size For power calculation purposes, a sample of 95 consecutive patients who underwent anterior resection with loop colostomy for rectal cancer at Helsinki University Hospital for the previous trial 30 were assessed. The mean and SD of stoma-related CCI values in this group were 2.5 and 6.2 points, respectively. ...

Microbiota and mucosal gene expression of fecal microbiota transplantation or placebo treated patients with chronic pouchitis

... During the conduction of this study, Qadri et al. performed an IPD meta-analysis providing MRI-PDFF values that correspond to histological steatosis grades (S1-S3) [22]. PDFF values were ≥ 5.75%, ≥ 15.50%, and ≥ 21.35% for steatosis grades ≥ S1, ≥ S2 and ≥ S3 respectively. ...

Marked difference in liver fat measured by histology vs. magnetic resonance-proton density fat fraction: A meta-analysis
  • Citing Article
  • October 2023

JHEP Reports

... Massive parallel sequencing of 16s rRNA genes is a state-of-the-art method for analyzing the human microbiome. However, its use in determining the composition of the human microbiome can lead to ambiguous or incorrect results [69][70][71][72][73][74][75][76][77][78]. ...

Development of a Protocol for Anaerobic Preparation and Banking of Fecal Microbiota Transplantation Material: Evaluation of Bacterial Richness in the Cultivated Fraction

... The studies included 600 patients (55.8% male) with a median age of 40.7 (range, 33.8-48) years. Two studies [9,10] included patients in clinical remission, one [11] allowed patients with Mayo scores ranging from 4-12, two studies [12,13] simply included active disease, and all other studies included only patients with Mayo scores 3-10. The median duration of UC across all studies was 6 years. ...

Fecal microbiota transplantation for the maintenance of remission in patients with ulcerative colitis: A randomized controlled trial

World Journal of Gastroenterology

... Fu et al. examined the gut microbiota of MSM patients and compared acutely diagnosed ART-naïve PLWH (n = 30) to those on NNRTI-, INSTI-, or PI-based treatments (n = 30), as well as to seronegative non-MSM controls (n = 30) [104]. Among ART-treated PLWH, those on NNRTI regimes displayed the lowest alpha diversity, with notable reductions in richness indices, while evenness remained largely unchanged [104]. ...

Gut microbiota alterations after switching from a protease inhibitor or efavirenz to raltegravir in a randomized, controlled study
  • Citing Article
  • November 2022

AIDS (London, England)