Broad-range PCR, cloning and sequencing of the full 16S rRNA gene for detection of bacterial DNA in synovial fluid samples of Tunisian patients with reactive and undifferentiated arthritis

Siala, Mariam; Gdoura, Radhouane; Fourati, H.; Rihl, Markus; Jaulhac, B.; Younès, M.; Sibilia, Jean; Baklouti, S.; Bargaoui, Naceur; Sellami, Slaheddine; Sghir, Abdelghani; Hammami, Adnane

doi:10.1186/ar2748

Cited by 40 publications

(24 citation statements)

References 28 publications

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“…36,38 Eight genomic targets, seven bacterial species-specific genes, and a species-independent bacterial 16S rDNA were used. [38][39][40][41][42][43][44] Th ese seven species represent 70% of SICU pathogens causing VAP, as reported to the Centers for Disease Control and Prevention. Primer details are given in Table 1 .…”

Section: Sample Processingmentioning

confidence: 97%

A Pilot Study of the Noninvasive Assessment of the Lung Microbiota as a Potential Tool for the Early Diagnosis of Ventilator-Associated Pneumonia

May

Brady

Romano-Keeler

et al. 2015

Chest

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BACKGROUND: Ventilator-associated pneumonia (VAP) remains a common complication in critically ill surgical patients, and its diagnosis remains problematic. Exhaled breath contains aerosolized droplets that refl ect the lung microbiota. We hypothesized that exhaled breath condensate fl uid (EBCF) in hygroscopic condenser humidifi er/heat and moisture exchanger (HCH/HME) fi lters would contain bacterial DNA that qualitatively and quantitatively correlate with pathogens isolated from quantitative BAL samples obtained for clinical suspicion of pneumonia.

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Section: Sample Processingmentioning

confidence: 97%

A Pilot Study of the Noninvasive Assessment of the Lung Microbiota as a Potential Tool for the Early Diagnosis of Ventilator-Associated Pneumonia

May

Brady

Romano-Keeler

et al. 2015

Chest

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“…OP10 species seem unlikely to form strong parasitic or symbiotic relationships with plants or animals, although sequences have been detected in animal intestinal contents and faeces (Ley et al ., 2008; Wu et al ., 2010), and human skin swabs (Grice et al ., 2009), as well as in the plant phylosphere (Delmotte et al ., 2009) and rhizoplane (Chelius and Triplett, 2001). One oddity is the detection of OP10 in the synovial fluid of some arthritis patients, where it is likely to be an opportunistic colonizer (Siala et al ., 2009).…”

Section: Environmental Distributionmentioning

confidence: 99%

Electing a candidate: a speculative history of the bacterial phylum OP10

Dunfield

Tamaš

Lee

et al. 2012

Environmental Microbiology

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Summary In 1998, a cultivation‐independent survey of the microbial community in Obsidian Pool, Yellowstone National Park, detected 12 new phyla within the Domain Bacteria. These were dubbed ‘candidate divisions’ OP1 to OP12. Since that time the OP10 candidate division has been commonly detected in various environments, usually as part of the rare biosphere, but occasionally as a predominant community component. Based on 16S rRNA gene phylogeny, OP10 comprises at least 12 class‐level subdivisions. However, despite this broad ecological and evolutionary diversity, all OP10 bacteria have eluded cultivation until recently. In 2011, two reference species of OP10 were taxonomically validated, removing the phylum from its ‘candidate’ status. Construction of a highly resolved phylogeny based on 29 universally conserved genes verifies its standing as a unique bacterial phylum. In the following paper we summarize what is known and what is suspected about the newest described bacterial phylum, the Armatimonadetes.

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“…The advancements of the PCR method has opened the way for further development of the diagnosis level to human infections. However, the detection rate of the whole bacteria and fungi with multiplex PCR examinations is approximately 60 to 80% and not 100% [11]. A rare microorganism or small sample volume can lead to negative results even by PCR examinations.…”

Section: Discussionmentioning

confidence: 99%

Brachybacterium paraconglomeratum Endophthalmitis Postcataract Operation

Murata

Ozawa

Kawakami

et al. 2020

Case Reports in Ophthalmological Medicine

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Purpose. To present our findings in a case of delayed-onset postoperative endophthalmitis caused by Brachybacterium paraconglomeratum, a rare organism. Observations. A 57-year-old man presented with epiphora and photophobia 17 weeks after a routine cataract extraction with phacoemulsification and intraocular lens implantation. Because endophthalmitis was suspected to be caused by a low-grade pathogen or fungus, an anterior chamber tap was performed. However, both multiplex PCR and culturing were negative. The patient was treated with topical cefmenoxime, oral minocycline, and subconjunctival injection of vancomycin and ceftazidime, but the intraocular inflammation increased. Then, the anterior chamber was tapped again, and the second PCR amplification and direct sequencing which targeted Actinomycetes detected Brachybacterium paraconglomeratum. This pathogen is uncommon for human infections. He was treated with oral amoxicillin, and his intraocular condition slowly improved. Conclusion. This is the first reported case of an ocular disorder caused by B. paraconglomeratum. We recommend that B. paraconglomeratum be considered in cases of delayed-onset postcataract endophthalmitis.

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Broad-range PCR, cloning and sequencing of the full 16S rRNA gene for detection of bacterial DNA in synovial fluid samples of Tunisian patients with reactive and undifferentiated arthritis

Cited by 40 publications

References 28 publications

A Pilot Study of the Noninvasive Assessment of the Lung Microbiota as a Potential Tool for the Early Diagnosis of Ventilator-Associated Pneumonia

A Pilot Study of the Noninvasive Assessment of the Lung Microbiota as a Potential Tool for the Early Diagnosis of Ventilator-Associated Pneumonia

Electing a candidate: a speculative history of the bacterial phylum OP10

Brachybacterium paraconglomeratum Endophthalmitis Postcataract Operation

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