The fungal microbiome in chronic rhinosinusitis: richness, diversity, postoperative changes and patient outcomes

Cleland, Edward John; Bassiouni, Ahmed; Boase, Sam; Dowd, Scot E.; Vreugde, Sarah; Wormald, Peter‐John

doi:10.1002/alr.21297

Cited by 66 publications

(79 citation statements)

References 34 publications

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“…It is noteworthy that both fungi and viruses can affect the nasal bacterial microbiome and trigger the immune system [22]. Recent studies that used organismspecific primers for PCR analyses of fungi were able to give a more complete picture of the fungal microbiome (mycobiome) in the nose [14,15]. Future studies are needed to study the nasal mycobiome and virome in relation to allergic diseases, with a focus on the potential functional pathways of these microorganisms.…”

Section: Concerns and Areas Of Unmet Research Needs In The Nasal Micrmentioning

confidence: 99%

“…Use of culture-independent methods, especially analyzing the 16S ribosomal RNA of bacteria, showed evidence for a rich and diverse community of bacteria in the nose that is shifted significantly in the presence of allergic diseases [1][2][3][5][6][7][13][14][15]. With the use of current complex methods, we can not only predict the abundance of each taxa and their community structures but also predict and compare their functions.…”

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confidence: 99%

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The nasal microbiome: opening new clinical research avenues for allergic disease

Mahdavinia

2018

Expert Review of Clinical Immunology

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Section: Concerns and Areas Of Unmet Research Needs In The Nasal Micrmentioning

confidence: 99%

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confidence: 99%

The nasal microbiome: opening new clinical research avenues for allergic disease

Mahdavinia

2018

Expert Review of Clinical Immunology

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“…Thus far, most microbiome studies have focused on bacteria (Turnbaugh et al 2009;Arumugam et al 2011;Gajer et al 2012;Human Microbiome Project Consortium 2012), although some include fungi (Paulino et al 2006;Findley et al 2013;Cleland et al 2014;Willger et al 2014) and viruses (Reyes et al 2010;Minot et al 2011;Wylie et al 2012Wylie et al , 2014De Vlaminck et al 2013). Viruses are particularly understudied, in part due to the challenges of assessing their presence in clinical samples.…”

mentioning

confidence: 99%

Enhanced virome sequencing using targeted sequence capture

et al. 2015

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Metagenomic shotgun sequencing (MSS) is an important tool for characterizing viral populations. It is culture independent, requires no a priori knowledge of the viruses in the sample, and may provide useful genomic information. However, MSS can lack sensitivity and may yield insufficient data for detailed analysis. We have created a targeted sequence capture panel, ViroCap, designed to enrich nucleic acid from DNA and RNA viruses from 34 families that infect vertebrate hosts. A computational approach condensed ∼1 billion bp of viral reference sequence into <200 million bp of unique, representative sequence suitable for targeted sequence capture. We compared the effectiveness of detecting viruses in standard MSS versus MSS following targeted sequence capture. First, we analyzed two sets of samples, one derived from samples submitted to a diagnostic virology laboratory and one derived from samples collected in a study of fever in children. We detected 14 and 18 viruses in the two sets, comprising 19 genera from 10 families, with dramatic enhancement of genome representation following capture enrichment. The median fold-increases in percentage viral reads post-capture were 674 and 296. Median breadth of coverage increased from 2.1% to 83.2% post-capture in the first set and from 2.0% to 75.6% in the second set. Next, we analyzed samples containing a set of diverse anellovirus sequences and demonstrated that ViroCap could be used to detect viral sequences with up to 58% variation from the references used to select capture probes. ViroCap substantially enhances MSS for a comprehensive set of viruses and has utility for research and clinical applications.

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“…Species, including Candida, Aspergillus and Mucor, differ in studies and may even be found in asymptomatic control subjects. [12] Employing multiplex polymerase chain reaction for respiratory viruses, viral nucleic acid sequences have been found in 64% of sinus scrapings and 50% of nasal lavage samples in a chronic rhinosinusitis group of patients. [13] These were significantly higher than in controls (30% and 14% in scraping and lavage, respectively) and rhinovirus was the most frequently detected virus.…”

Section: The Fungal and Viral Microbiome In Chronic Rhinosinusitismentioning

confidence: 99%

The microbiome in chronic inflammatory airway disease: A threatened species

et al. 2016

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Corresponding author: R J Green (robin.green@up.ac.za)The human body is exposed to a multitude of microbes and infectious organisms throughout life. Many of these organisms colonise the skin, gastrointestinal tract (GIT) and airway. We now recognise that this colonisation includes the lower airway, previously thought to be sterile. These colonising organisms play an important role in disease prevention, including an array of chronic inflammatory conditions that are unrelated to infectious diseases. However, new evidence of immune dysregulation suggests that early colonisation, especially of the GIT and airway, by pathogenic micro-organisms, has deleterious effects that may contribute to the potential to induce chronic inflammation in young children, which may only express itself in adult life.

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The fungal microbiome in chronic rhinosinusitis: richness, diversity, postoperative changes and patient outcomes

Cited by 66 publications

References 34 publications

The nasal microbiome: opening new clinical research avenues for allergic disease

The nasal microbiome: opening new clinical research avenues for allergic disease

Enhanced virome sequencing using targeted sequence capture

The microbiome in chronic inflammatory airway disease: A threatened species

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