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Not yet recruitingNCT07307716Updated Jan 8, 2026

Clear Aligner Cleaning: Brushing, Chlorhexidine, and BlueM Effects on Oral Microbial Ecology and Periodontal Indices

An interventional study of Mechanical toothbrushing (fluoride toothpaste) and Chlorhexidine mouthwash (0.2%) in Gingivitis and Dental Plaque, sponsored by Riyadh Elm University. Not yet recruiting at 1 site in Saudi Arabia. Open to participants aged 18 Years and older, including healthy volunteers. Per ClinicalTrials.gov, last updated 2026-01-08.

Sponsored by Riyadh Elm University · Not applicable, Interventional, and Prevention

Phase
Not applicable
Study type
Interventional
Enrollment
21
Allocation
Randomized
Ages
18 Years and older
Sex
All
01

Study summary

This randomized crossover study will assess how three aligner-cleaning methods affect early supragingival oral microbial ecology and periodontal health in adults using clear aligners. Each participant will complete three (1-month) periods in a randomized sequence with (1-week) washouts between periods:

  1. Mechanical toothbrushing with fluoride toothpaste (control),
  2. Chlorhexidine (CHX) mouthwash, and
  3. an oxygen-based cleanser (BlueM).

Primary ecological outcomes focus on early dysbiosis indicators Fusobacterium nucleatum and Prevotella intermedia measured on retrieved aligner inner-surface biofilm and on supragingival plaque at the gingival margin. Secondary outcomes include periodontal indices (plaque index, gingival index, bleeding on probing) at index teeth and the host inflammatory marker MMP-8 in matrix-paired extracts (plaque and aligner).

Study visits occur at baseline and at the end of each 1-month period. Supragingival plaque is collected from the upper and lower first molars and central incisors; used aligners are swabbed immediately after removal. Participants are instructed to wear aligners about 22 hours/day, change trays every 10 days, remove aligners for meals and oral hygiene, and drink only water while aligners are in.

Laboratory procedures include blinded culture enumeration under coded labels (performed by a single trained operator, FA), confocal laser scanning microscopy, and RNA isolation with species-specific qRT-PCR; microscopy is conducted unblinded after decoding. The study will determine whether chlorhexidine or an oxygen-based cleanser produces more favorable early ecological changes and periodontal outcomes than mechanical brushing alone in clear aligner therapy.

02

Conditions studied

  • Gingivitis
  • Dental Plaque

Keywords

  • Clear aligners
  • Chlorhexidine
  • BlueM
  • Oxygen-based cleanser
  • Mechanical toothbrushing
  • Supragingival plaque
  • Aligner biofilm
  • Fusobacterium nucleatum
  • Prevotella intermedia
  • MMP-8
  • Plaque index
  • Gingival index
  • Bleeding on probing
  • Randomized crossover
03

In context

Gingivitis

631 studies on the registry are indexed under Gingivitis; 107 are open to participants now.

This study's planned enrollment of 21 is below the median of 66 across 507 interventional studies indexed under Gingivitis.

Browse Gingivitis studies →

Lead sponsor

Riyadh Elm University is the lead sponsor of 26 studies on the registry; 10 are open to participants now.

Counted across the registry records on this site, refreshed daily.

04

Who can participate

Ages eligible
18 Years and older
Sexes eligible
All
Accepts healthy volunteers
Yes

Go through the criteria one by one — yes, no or not sure — and take the list to your doctor or the study team. Kept in this browser only.

Inclusion criteria

  • Adults (≥18 years).
  • Undergoing or scheduled for treatment with clear aligners (CA).
  • Presence of upper and lower first molars and central incisors.
  • Periodontal health at baseline (no sites with PD ≥ 4 mm; no clinical attachment loss at index teeth; BI/PI within normal limits).
  • No periodontal therapy within the previous 6 months.
  • Able and willing to comply with study instructions and follow-up visits; signed .
  • Sufficient remaining CA treatment (clinician-estimated): ≥ 14 weeks to safely cover three 1 month protocol periods plus washouts.

Minimum planned aligners remaining: ≥ 11 aligners (assuming 10 days/aligner) or equivalent continuous CA duration per treating orthodontist.

Exclusion criteria

Exclusion Criteria:

  • Patients requiring orthognathic surgery
  • Uncontrolled systemic diseases (e.g., uncontrolled diabetes mellitus, disease).
  • Pregnancy or lactation.
  • Use of systemic antibiotics and/or anti-inflammatory drugs within the last 3 months.
  • Periodontal therapy within the last 6 months.
  • Current tobacco use (smoking/smokeless) or vaping.
  • Limited/express CA plans (e.g., ≤ 11 aligners or expected completion \< 14 weeks).

Anticipated early completion of CA or major treatment changes (e.g., switch to fixed appliances) within the next \~4 months.

- Extensive caries, defective restorations, or prostheses affecting index teeth/sites.

Terms in these criteria, in plain language(2)

Underlined terms in the criteria open these too. Explained by clinicaltrials.gg, not part of the registry record. The study team decides who can take part.

Informed consent

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You can keep asking questions during the study, you are told of new information that matters, and you can choose to leave at any time.

Autoimmune disease

A condition in which the immune system attacks the body’s own tissues, such as rheumatoid arthritis, lupus, psoriasis, type 1 diabetes or inflammatory bowel disease.

Immunotherapy studies often leave out active autoimmune disease, and some name exceptions, such as thyroid disease on replacement hormone. Check the exceptions this study lists.

05

Study design

Phase
Not applicable
Primary purpose
Prevention
Allocation
Randomized
Intervention model
Crossover assignment
Masking
Single (Outcomes assessor)
Enrollment
21 participants (estimated)

Study arms

  • Experimental
    Sequence ABC: Brushing then CHX Mouthwash then BlueM

    Participant completes three 1-month periods in order (A to B to C), each separated by a 1-week washout. A = Mechanical toothbrushing with fluoride toothpaste (control); B = Chlorhexidine (CHX) mouthwash; C = Oxygen-based cleanser (BlueM). Trays are changed every 10 days; aligners are worn 22 h/day; water-only while aligners are in.

    Behavioral: Mechanical toothbrushing (fluoride toothpaste) · Drug: Chlorhexidine mouthwash (0.2%) · Other: Oxygen-based cleanser

  • Experimental
    Sequence BCA: CHX Mouthwash then BlueM then Brushing

    Participant completes three 1-month periods in order (B to C to A), each separated by a 1-week washout. A = Mechanical toothbrushing with fluoride toothpaste (control); B = CHX mouthwash; C = Oxygen-based cleanser (BlueM). Trays are changed every 10 days; aligners are worn 22 h/day; water-only while aligners are in.

    Behavioral: Mechanical toothbrushing (fluoride toothpaste) · Drug: Chlorhexidine mouthwash (0.2%) · Other: Oxygen-based cleanser

  • Experimental
    Sequence CAB: BlueM then Brushing then CHX Mouthwash

    Participant completes three 1-month periods in order (C to A to B), each separated by a 1-week washout. A = Mechanical toothbrushing with fluoride toothpaste (control); B = CHX mouthwash; C = Oxygen-based cleanser (BlueM). Trays are changed every 10 days; aligners are worn 22 h/day; water-only while aligners are in.

    Behavioral: Mechanical toothbrushing (fluoride toothpaste) · Drug: Chlorhexidine mouthwash (0.2%) · Other: Oxygen-based cleanser

Interventions

  • BehavioralMechanical toothbrushing (fluoride toothpaste)

    Control oral-hygiene period using mechanical toothbrushing with a fluoride-containing toothpaste, per standardized study instructions, for the assigned 1-month period. No chlorhexidine or oxygen-based cleanser is used during this period; aligners are removed for oral-hygiene procedures per protocol.

    Also known as: Colgate Total

  • Chlorhexidine mouthwash used per standardized study instructions for the assigned 1-month period. No oxygen-based cleanser is used during this period; aligners are removed for mouthrinse use and oral-hygiene procedures per protocol. A 1-week washout without cleaning products separates periods.

    Also known as: CHX

  • OtherOxygen-based cleanser

    Oxygen-based cleanser (BlueM) used per standardized study instructions for the assigned 1-month period. No chlorhexidine is used during this period; aligners are removed for product use and oral-hygiene procedures per protocol. A 1-week washout without cleaning products separates periods.

    Also known as: BlueM

06

What researchers measure

Primary outcomes

  1. Fusobacterium nucleatum CFU in supragingival plaque at the gingival margin (index teeth)

    Anaerobic culture enumeration (CFU) of Fusobacterium nucleatum from supragingival plaque collected along the gingival margin of upper/lower first molars and central incisors using the standardized swab/microbrush protocol. Species confirmation per SOP. Culture processing blinded under coded labels (P1-P3) by FA. Metric: CFU per specimen (report also as log10 CFU if analyzed).

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3); 1-week washouts between periods.

  2. Fusobacterium nucleatum CFU on retrieved aligner inner-surface biofilm

    Anaerobic culture enumeration (CFU) of Fusobacterium nucleatum from a standardized inner-surface swab of the used aligner (zones corresponding to gingival margins of index teeth). Species confirmation per laboratory SOP. Culture processing blinded under coded labels (P1-P3) by a single trained operator (FA). Metric: CFU per specimen (report also as log10 CFU if analyzed).

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3); 1-week washouts between periods.

Secondary outcomes

  1. Prevotella intermedia CFU on retrieved aligner inner-surface biofilm

    Anaerobic culture enumeration (CFU) of Prevotella intermedia from a standardized inner-surface swab of the used aligner (zones corresponding to the gingival margins of the index teeth).

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3); 1-week washouts between periods.

  2. Prevotella intermedia CFU in supragingival plaque at the gingival margin (index teeth)

    Anaerobic culture enumeration (CFU) of Prevotella intermedia from supragingival plaque collected along the gingival margin of upper/lower first molars and central incisors using the study's standardized swab/microbrush protocol.

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3); 1-week washouts between periods.

  3. MMP-8 concentration/activity in matrix-paired plaque and aligner extracts

    MMP-8 measured from paired extracts obtained from supragingival plaque and retrieved aligner inner-surface biofilm collected from the same participant at each time point.

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3); 1-week washouts between periods.

  4. Plaque Index (PI) at index teeth

    Plaque Index recorded at the upper and lower first molars and central incisors; six sites per tooth.

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3).

  5. Gingival Index (GI) at index teeth

    Gingival Index recorded at the upper and lower first molars and central incisors; six sites per tooth.

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3).

  6. Bleeding on Probing (BoP) at index teeth

    BoP recorded at the upper and lower first molars and central incisors; six sites per tooth.

    Time frame: Baseline and end of each 1-month period (end of Period 1, Period 2, Period 3).

07

Study locations

1 site
08

References and documents

Publications

  • Heller D, Helmerhorst EJ, Gower AC, Siqueira WL, Paster BJ, Oppenheim FG. Microbial Diversity in the Early In Vivo-Formed Dental Biofilm. Appl Environ Microbiol. 2016 Jan 8;82(6):1881-8. doi: 10.1128/AEM.03984-15. PubMed 26746720 ↗
  • Zhao R, Huang R, Long H, Li Y, Gao M, Lai W. The dynamics of the oral microbiome and oral health among patients receiving clear aligner orthodontic treatment. Oral Dis. 2020 Mar;26(2):473-483. doi: 10.1111/odi.13175. Epub 2020 Jan 8. PubMed 31418980 ↗
  • Miguel YD, Alcântara PR, Toyofuku ACMM, Shimizu RH. Periodontal monitoring in orthodontic treatment with orthodontic aligners: proof of concept. Rev Odontol UNESP. 2024;53:e20240016. doi:10.1590/1807-2577.01624

Individual participant data

Plan to share: Undecided — Individual participant data (IPD) sharing will follow Riyadh Elm University IRB and SFDA requirements. A de-identified dataset (microbiological counts/abundances, MMP-8 values, periodontal indices, randomization order, and minimal demographics) may be shared after primary publication, subject to IRB approval and a data-use agreement

09

Updates

Tracking since Sep 25, 2026
No changes since tracking began. The registry record was last updated on Jan 8, 2026, before this site started recording changes on Sep 25, 2026. Its history is on ClinicalTrials.gov ↗
10

Registry details

Key details

Study ID
NCT07307716
Lead sponsor
Riyadh Elm University
Responsible party
Faisal Ali Althobaiti (Principal Investigator, Riyadh Elm University) — Principal investigator
First posted
Dec 29, 2025
Start date
Feb 2026 (estimated)
Primary completion
Oct 2026 (estimated)
Completion
Oct 2026 (estimated)
Last update
Jan 8, 2026

Study contacts

Faisal A Althobaiti, BDS
Contact
faisal.althobaiti2024@student.riyadh.edu.sa
+966594496974
Nancy M Ajwa, MSc
Contact
nancy.ajwa@riyadh.edu.sa
+966554804564
Dr. Faisal A Althobaiti, BDS
principal investigator · Riyadh Elm University
Dr. Nancy M Ajwa, MSc
study director · Riyadh Elm University

Oversight

Data monitoring committee
No
FDA-regulated drug
No
FDA-regulated device
No
View the source record on ClinicalTrials.gov ↗

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Studies of the drug tested here: Chlorhexidine

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