Evidence map›Paper›PMID 38926242›Full record

ArticleEuropean archives of paediatric dentistry : official journal of the European Academy of Paediatric Dentistry2024

qPCR assay optimisation for a clinical study comparing oral health risk in Rett syndrome.

Y Y L Lai, J Downs, S Leishman, H M Leonard, L J Walsh, S Zafar

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in European archives of paediatric dentistry : official journal of the European Academy of Paediatric Dentistry, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Y Y L LaiUQ Oral Health Centre, The University of Queensland School of Dentistry, 288 Herston Rd, Herston, QLD, 4006, Australia. Yvonne.lai@telethonkids.org.au.ORCID http://orcid.org/0000-0001-9737-1294
J DownsChild Disability, Telethon Kids Institute, PO Box 855, West Perth, WA, 6872, Australia.
S LeishmanUQ Oral Health Centre, The University of Queensland School of Dentistry, 288 Herston Rd, Herston, QLD, 4006, Australia.
H M LeonardChild Disability, Telethon Kids Institute, PO Box 855, West Perth, WA, 6872, Australia.
L J WalshUQ Oral Health Centre, The University of Queensland School of Dentistry, 288 Herston Rd, Herston, QLD, 4006, Australia.
S ZafarUQ Oral Health Centre, The University of Queensland School of Dentistry, 288 Herston Rd, Herston, QLD, 4006, Australia.

Funding

Australian Dental Research Foundation 0107-2021National Health and Medical Research Council APP1117105
6 · The paper itself

Abstract

purposeThis study aimed to validate qPCR assays for specific microbiota, for use on dental plaque samples stored on Whatman FTA cards to compare relative oral health risk in Rett syndrome.

methodsSupragingival dental plaque samples were collected, using a sterile swab, (COPAN FLOQswab™) swabbed onto Whatman FTA™ cards. DNA extraction was performed using a modified Powersoil™ protocol. Where published assays were unsuitable, species-specific qPCR assays for caries-associated, gingivitis-associated and oral-health-associated bacteria were designed using multiple sequence alignment, Primer3Plus and PrimerQuest. Assays were run using absolute quantification. Limit of detection (LOD) and limit of quantification (LOQ) were calculated, and PCR products verified by Sanger sequencing.

resultsMost assays allowed detection using real-time qPCR with high specificity on samples collected on FTA cards. Several assays showed low or even single gene copy numbers on the test samples.

conclusionAssays were optimised for detection and evaluation of oral health risk in dental plaque samples stored on FTA cards when cold storage is not feasible, except for F. nucleatum. Several assays showed gene copy numbers less than the LOQ or outside the range of the standard curve, so there is merit in optimising these assays using digital droplet PCR.

Indexed as

Dental PlaqueOral HealthReal-Time Polymerase Chain ReactionRett SyndromeChildDental CariesDNA, BacterialFemaleGingivitisHumansMicrobiotaDNA, BacterialCorynebacterium durum and Rothia dentocariosa/aeriaFusobacterium nucleatum subsp. fusiformePorphorymonas gingivalisScardovia wiggsiaeStreptococcus mutans

Identifiers

PMID38926242
PMCPMC11341660

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.