Global Genome Comparative Analysis Reveals Insights of Resistome and Life-Style Adaptation of<i>Pseudomonas putida</i>Strain T2-2 in Oral Cavity

Chan, Xin Yue; Chua, Kah Ooi; How, Kah Yan; Yin, Wai‐Fong; Chan, Kok-Gan

doi:10.1155/2014/930727

Cited by 10 publications

(3 citation statements)

References 37 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The raw reads generated by MiSeq were first quality evaluated using FastQC analyzer 52 prior to trimming the bad reads based on their base quality, filtering according to read length and ambiguous nucleotides were excluded using CLC Genomics Workbench 53 version 7.0.4. In this genome data analysis, raw reads with average quality value lower than Q20 were excluded together with ambiguous nucleotide.…”

Section: Methodsmentioning

confidence: 99%

Quorum sensing activity of Citrobacter amalonaticus L8A, a bacterium isolated from dental plaque

Goh

Khan

Tee

et al. 2016

Sci Rep

Self Cite

View full text Add to dashboard Cite

Cell-cell communication is also known as quorum sensing (QS) that happens in the bacterial cells with the aim to regulate their genes expression in response to increased cell density. In this study, a bacterium (L8A) isolated from dental plaque biofilm was identified as Citrobacter amalonaticus by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry (MS). Its N-acylhomoserine-lactone (AHL) production was screened by using two types of AHL biosensors namely Chromobacterium violaceum CV026 and Escherichia coli [pSB401]. Citrobacter amalonaticus strain L8A was identified and confirmed producing numerous types of AHL namely N-butyryl-L-homoserine lactone (C4-HSL), N-hexanoyl-L-homoserine lactone (C6-HSL), N-octanoyl-L-homoserine lactone (C8-HSL) and N-hexadecanoyl-L-homoserine lactone (C16-HSL). We performed the whole genome sequence analysis of this oral isolate where its genome sequence reveals the presence of QS signal synthase gene and our work will pave the ways to study the function of the related QS genes in this bacterium.

show abstract

Section: Methodsmentioning

confidence: 99%

Quorum sensing activity of Citrobacter amalonaticus L8A, a bacterium isolated from dental plaque

Goh

Khan

Tee

et al. 2016

Sci Rep

Self Cite

View full text Add to dashboard Cite

show abstract

“…The limited number of patients with microbial testing from respiratory sites prevented us from drawing clear conclusions on the links between periodontal microbes and secondary lung infections in COVID-19 patients. Nevertheless, the bacteria species identified (Stenotrophomonas maltophilia, and Staphylococcus hominis, Staphylococcus epidermidis, Pseudomonas putida and Klebsiella pneumoniae) are all known to be present in the oral cavity [48][49][50][51][52][53][54]. In this study, Stenotrophomonas maltophilia, an antibiotic resistant opportunistic bacteria found in the oral cavity of immunocompromised patients [53,54], was only identified in patients without periodontitis.…”

Section: Discussionmentioning

confidence: 66%

Association of periodontal therapy, with inflammatory biomarkers and complications in COVID-19 patients: a case control study

et al. 2022

View full text Add to dashboard Cite

Background In previous studies, COVID-19 complications were reported to be associated with periodontitis. Accordingly, this study was designed to test the hypothesis that a history of periodontal therapy could be associated with lower risk of COVID-19 complications. Methods A case–control study was performed using the medical health records of COVID-19 patients in the State of Qatar between March 2020 and February 2021 and dental records between January 2017 and December 2021. Cases were defined as COVID-19 patients who suffered complications (death, ICU admissions and/or mechanical ventilation); controls were COVID-19 patients who recovered without major complications. Associations between a history of periodontal therapy and COVID-19 complications were analysed using logistic regression models adjusted for demographic and medical factors. Blood parameters were compared using Kruskal–Wallis test. Results In total, 1,325 patients were included. Adjusted odds ratio (AOR) analysis revealed that non-treated periodontitis was associated with significant risk of need for mechanical ventilation (AOR = 3.91, 95% CI 1.21–12.57, p = 0.022) compared to periodontally healthy patients, while treated periodontitis was not (AOR = 1.28, 95% CI 0.25–6.58, p = 0.768). Blood analyses revealed that periodontitis patients with a history of periodontal therapy had significantly lower levels of D-dimer and Ferritin than non-treated periodontitis patients. Conclusion Among COVID-19 patients with periodontal bone loss, only those that have not received periodontal therapy had higher risk of need for assisted ventilation. COVID-19 patients with a history of periodontal therapy were associated with significantly lower D-dimer levels than those without recent records of periodontal therapy. Clinical relevance The fact that patients with treated periodontitis were less likely to suffer COVID-19 complications than non-treated ones further strengthen the hypothesis linking periodontitis to COVID-19 complications and suggests that managing periodontitis could help reduce the risk for COVID-19 complications, although future research is needed to verify this.

show abstract

“…Because microbial genomes adapt to environmental conditions (Chan et al, 2014;Gibbons & Rokas, 2013), to better use the RNA-seq data to confirm the candidate gene of saltern-isolated A. glaucus CCHA, we denovo sequenced the A. glaucus 'CCHA' genome using Illumina Solexa sequencing technology (Table 1). We generated approximately 17.5 GB of raw sequencing read data, resulting in a 358× genome coverage.…”

Section: Genome Sequencing Assembly and Annotationmentioning

confidence: 99%

Genome sequencing of Aspergillus glaucus ‘CCHA’ provides insights into salt-stress adaptation

Qiu

et al. 2020

PeerJ

View full text Add to dashboard Cite

Aspergillus, as a genus of filamentous fungi, has members that display a variety of different behavioural strategies, which are affected by various environmental factors. The decoded genomic sequences of many species vary greatly in their evolutionary similarities, encouraging studies on the functions and evolution of the Aspergillus genome in complex natural environments. Here, we present the 26 Mb de novo assembled high-quality reference genome of Aspergillus glaucus ‘China Changchun halophilic Aspergillus’ (CCHA), which was isolated from the surface of plants growing near a salt mine in Jilin, China, based on data from whole-genome shotgun sequencing using Illumina Solexa technology. The sequence, coupled with data from comprehensive transcriptomic survey analyses, indicated that the redox state and transmembrane transport might be critical molecular mechanisms for the adaptation of A. glaucus ‘CCHA’ to the high-salt environment of the saltern. The isolation of salt tolerance-related genes, such as CCHA-2114, and their overexpression in Escherichia coli demonstrated that A. glucus ‘CCHA’ is an excellent organism for the isolation and identification of salt tolerant-related genes. These data expand our understanding of the evolution and functions of fungal and microbial genomes, and offer multiple target genes for crop salt-tolerance improvement through genetic engineering.

show abstract

Global Genome Comparative Analysis Reveals Insights of Resistome and Life-Style Adaptation ofPseudomonas putidaStrain T2-2 in Oral Cavity

Cited by 10 publications

References 37 publications

Quorum sensing activity of Citrobacter amalonaticus L8A, a bacterium isolated from dental plaque

Quorum sensing activity of Citrobacter amalonaticus L8A, a bacterium isolated from dental plaque

Association of periodontal therapy, with inflammatory biomarkers and complications in COVID-19 patients: a case control study

Genome sequencing of Aspergillus glaucus ‘CCHA’ provides insights into salt-stress adaptation

Contact Info

Product

Resources

About