Variation in bacterial DGGE patterns from human saliva: over time, between individuals and in corresponding dental plaque microcosms

Rasiah, Indira A.; Wong, L.; Anderson, Sally A.; Sissons, C.H.

doi:10.1016/j.archoralbio.2005.02.001

Cited by 108 publications

(100 citation statements)

References 32 publications

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“…An example of the diverse human microbiome is the oral biofilms and several studies have shown the existence of over 700 species of biofilm producing pathogen over a wide variety of niche which includes soft tissues and the surface of the teeth. Research studies have signified the role of oral biofilms and its association with various acute and chronic diseases [139]. According to NIH, microbial biofilms contributes to around 60% infections encountered by humans and they are known to confer hospitalized infections also referred to as nosocomial infections.…”

Section: Discussionmentioning

confidence: 99%

Biofilms: Microbial Cities of Scientific Significance

Ramachandran¹

2014

JMEN

112

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Section: Discussionmentioning

confidence: 99%

Biofilms: Microbial Cities of Scientific Significance

Ramachandran¹

2014

JMEN

112

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“…Clones are analyzed by number of methods to reveal the identity of the species. These include denaturing gradient gel electrophoresis (DGGE) (Fujimoto et al, 2003;Rasiah et al, 2005;Ledder et al, 2007), restriction digestion and terminal restriction fragment length polymorphism (T-RFLP) (Sakamoto et al, 2004) and, sequencing in combination with the above methods or in isolation. Of these methods, sequencing is considered the most sensitive and specific in analyzing the bacterial diversity in a given niche.…”

Section: Porphyromonas Uenonis [S]mentioning

confidence: 99%

“…However, relatively established bacterial biofilm communities are found in the mucosal surfaces of the tongue, buccal mucosa, tooth surfaces, gingival crevices and any artificial surfaces like prostheses and appliances (Samaranayake, 2006c). However, even the population dynamics of these relatively Ôstable' bacterial flora is subjected to change by factors such as age, diet and underlying systemic health (Rasiah et al, 2005). Preferential bacterial colonization is governed by environmental factors (e.g.…”

Section: Introductionmentioning

confidence: 99%

Exploring the oral bacterial flora: current status and future directions

et al. 2010

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Oral Diseases (2010) 16, 136–145 Objective: The oral cavity forms an indispensable part of the human microbiome, for its unique and diverse microflora distributed within various niches. While majority of these organisms exhibit commensalism, shifts in bacterial community dynamics cause pathological changes within oral cavity and distant sites. The aim of this review was to appraise the current and emerging methods of detecting bacteria of the oral cavity paying particular attention to the cultivation independent methods. Design: Literature pertaining to cultivation based and cultivation independent methods of oral bacterial identification was reviewed. Methods: The specific advantages and disadvantages of cultivation based, microscopic, immunological and metagenomic identification methods were appraised. Results: Because of their fastidious and exacting growth requirements, cultivation based studies grossly underestimate the extent of bacterial diversity in these polymicrobial infections. Culture independent methods deemed more sensitive in identifying difficult to culture and novel bacterial species. Conclusion: Apart from characterizing potentially novel bacterial species, the nucleic acid sequence data analyzed using various bioinformatics protocols have revealed that there are in excess of 700 bacterial species inhabiting the mouth. Moreover, the latest pyrosequencing based methods have further broadened the extent of bacterial diversity in oral niches.

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“…The use of PCR together with denaturing gradient gel electrophoresis (DGGE) as described here enables detection of the presence of such species and frequently their presumptive identification, even if they are present as minor populations. DGGE based on 16S and 26-28S rRNA gene sequences has been used to characterize complex microbial communities, including those in saliva, dental plaque and plaque microcosms (Ledder et al, 2006;Li et al, 2006;Rasiah et al, 2005;Zijnge et al, 2003). It has also been applied to monitor fungal communities in complex ecosystems such as soil, and in wine and food fermentations (Cocolin et al, 2000;Meroth et al, 2003;Muccilli et al, 2011;Oros-Sichler et al, 2006;Vilela et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

Use of denaturing gradient gel electrophoresis for the identification of mixed oral yeasts in human saliva

Weerasekera

Sissons

Wong

et al. 2013

Journal of Medical Microbiology

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A PCR-denaturing gradient gel electrophoresis (DGGE) method was established for the simultaneous presumptive identification of multiple yeast species commonly present in the oral cavity. Published primer sets targeting different regions of the Saccharomyces cerevisiae 26-28S rRNA gene (denoted primer sets N and U) and the 18S rRNA gene (primer set E) were evaluated with ten Candida and four non-Candida yeast species, and twenty Candida albicans isolates. Optimized PCR-DGGE conditions using primer set N were applied to presumptively identify, by band matching, yeasts in the saliva of 25 individuals. Identities were confirmed by DNA sequencing and compared with those using CHROMagar Candida culture. All primer sets yielded detectable DGGE bands for all species tested. Primer set N yielded mainly single bands and could distinguish all species examined, including differentiating Candida dubliniensis from C. albicans. Primer set U was less discriminatory among species but yielded multiple bands that distinguished subspecies groups within C. albicans. Primer set E gave poor yeast discrimination. DGGE analysis identified yeasts in 17 of the 25 saliva samples. Six saliva samples contained two yeast species: three contained C. albicans and three C. dubliniensis. C. dubliniensis was present alone in one saliva sample (total prevalence 16 %). CHROMagar culture detected yeasts in 16 of the yeast-containing saliva samples and did not enable identification of 7 yeast species identified by DGGE. In conclusion, DGGE identification of oral yeast species with primer set N is a relatively fast and reliable method for the simultaneous presumptive identification of mixed yeasts in oral saliva samples.

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Variation in bacterial DGGE patterns from human saliva: over time, between individuals and in corresponding dental plaque microcosms

Cited by 108 publications

References 32 publications

Biofilms: Microbial Cities of Scientific Significance

Biofilms: Microbial Cities of Scientific Significance

Exploring the oral bacterial flora: current status and future directions

Use of denaturing gradient gel electrophoresis for the identification of mixed oral yeasts in human saliva

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