Defining mycobacteria: Shared and specific genome features for different lifestyles

Vissa, Varalakshmi; Sakamuri, Rama Murthy; Li, Wei; Brennan, Patrick J.

doi:10.1007/s12088-009-0006-0

Cited by 6 publications

(6 citation statements)

References 170 publications

(85 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…As a model system of Mycobacterium, M. smegmatis shares many characteristics with its pathogenic relatives, including basic cellular processes and carbon metabolism features, which are complemented with additional pathways adapted to pathogenicity ( Rastogi et al, 2001 ; Vissa et al, 2009 ; Chopra et al, 2014 ). We have found GlnR could directly bind with the regulatory region of Mtbacs (Rv3667) and Mtbpat (Rv0998) in Mtb ( Supplementary Figures S2A,B ).…”

Section: Discussionmentioning

confidence: 99%

GlnR-Mediated Regulation of Short-Chain Fatty Acid Assimilation in Mycobacterium smegmatis

et al. 2018

View full text Add to dashboard Cite

Assimilation of short-chain fatty acids (SCFAs) plays an important role in the survival and lipid biosynthesis of Mycobacteria. However, regulation of this process has not been thoroughly described. In the present work, we demonstrate that GlnR as a well-known nitrogen-sensing regulator transcriptionally modulates the AMP-forming propionyl-CoA synthetase (MsPrpE), and acetyl-CoA synthetases (MsAcs) is associated with SCFAs assimilation in Mycobacterium smegmatis, a model Mycobacterium. GlnR can directly activate the expression of MsprpE and Msacs by binding to their promoter regions based upon sensed nitrogen starvation in the host. Moreover, GlnR can activate the expression of lysine acetyltransferase encoding Mspat, which significantly decreases the activity of MsPrpE and MsAcs through increased acylation. Next, growth curves and resazurin assay show that GlnR can further regulate the growth of M. smegmatis on different SCFAs to control the viability. These results demonstrate that GlnR-mediated regulation of SCFA assimilation in response to the change of nitrogen signal serves to control the survival of M. smegmatis. These findings provide insights into the survival and nutrient utilization mechanisms of Mycobacteria in their host, which may enable new strategies in drug discovery for the control of tuberculosis.

show abstract

Section: Discussionmentioning

confidence: 99%

GlnR-Mediated Regulation of Short-Chain Fatty Acid Assimilation in Mycobacterium smegmatis

et al. 2018

View full text Add to dashboard Cite

show abstract

“…avium (Slana et al, 2010), IS 2404 and IS 2606 for M. ulcerans, M. liflandii , M. pseudoshottsii , and M. shottsii (mycolactone-producing mycobacteria) (Fyfe et al, 2007), and common shared bacterial genes, for example 16S rRNA , hsp65 , rpoB genes and the internal transcribed spacer (ITS) of broad-range sequencing approaches. Multi-genes analysis (Homolka et al, 2012; Perez-Lago et al, 2014; Gupta et al, 2018) and whole genome sequencing (Vissa et al, 2009; Fedrizzi et al, 2017; Trofimov et al, 2018) have also been used in Mycobacterium and because of their high resolution, they can identify mycobacteria to the species level. Methods based on sequencing and homology comparison, especially on sequences of hundreds of core genes or whole genome are more available for research purposes, and they are promising tools in the identification of new mycobacteria species, new molecules for bacterial typing and new candidate genes for multidrug resistance.…”

Section: Discussionmentioning

confidence: 99%

A New Single Gene Differential Biomarker for Mycobacterium tuberculosis Complex and Non-tuberculosis Mycobacteria

Zhou

Xiao

et al. 2019

Front. Microbiol.

View full text Add to dashboard Cite

Background Tuberculosis (TB) and non-tuberculous mycobacteriosis are serious threats to health worldwide. A simple non-sequencing method is needed for rapid diagnosis, especially in less experienced hospitals, but there is no specific biomarker commonly used for all mycobacteria. The ku gene of the prokaryotic error-prone non-homologous end joining system (NHEJ) has the potential to be a highly specific detection biomarker for mycobacteria. Methods A total of 7294 mycobacterial genomes and 14 complete genomes of other families belonging to Corynebacteriales with Mycobacteriaceae were downloaded and analyzed for the existence and variation of the ku gene. Mycobacterium tuberculosis complex (MTBC) and non-tuberculosis mycobacteria (NTM)- specific primers were designed and the actual amplification and identification efficiencies were tested with 150 strains of 40 Mycobacterium species and 10 kinds of common respiratory pathogenic bacteria. Results The ku gene of the NHEJ system was ubiquitous in all genome sequenced Mycobacterium species and absent in other families of Corynebacteriales . On the one hand, as a single gene non-sequencing biomarker, its specific primers could effectively distinguish mycobacteria from other bacteria, MTBC from NTM, which would make the clinical detection of mycobacteria easy and have great clinical practical value. On the other hand, the sequence of ku gene can effectively distinguish NTM to species level with high resolution. Conclusion The Ku protein existed before the differentiation of Mycobacterium species, which was an important protein involved in maintaining of the genome’s integrity and related to the special growth stage of mycobacteria. It was rare in prokaryotes. These features made it a highly special differential biomarker for Mycobacterium .

show abstract

“…ESX mutants of M . tuberculosis have been previously demonstrated to be avirulent, failing to lyse infected macrophages, thereby implicating the involvement of secreted ESAT-6 in the mediation of virulence through host cell cytolysis 17 . A third set of genes implicated in M .…”

Section: Discussionmentioning

confidence: 99%

Landscape of the genome and host cell response of Mycobacterium shigaense reveals pathogenic features

Jiang

Sun

Chen

et al. 2018

Emerging Microbes & Infections

View full text Add to dashboard Cite

A systems approach was used to explore the genome and transcriptome of Mycobacterium shigaense, a new opportunistic pathogen isolated from a patient with a skin infection, and the host response transcriptome was assessed using a macrophage infection model. The M. shigaense genome comprises 5,207,883 bp, with 67.2% G+C content and 5098 predicted coding genes. Evolutionarily, the bacterium belongs to a cluster in the phylogenetic tree along with three target opportunistic pathogenic strains, namely, M. avium, M. triplex and M. simiae. Potential virulence genes are indeed expressed by M. shigaense under culture conditions. Phenotypically, M. shigaense had similar infection and replication capacities in a macrophage model as the opportunistic species compared to M. tuberculosis. M. shigaense activated NF-κB, TNF, cytokines and chemokines in the host innate immune-related signaling pathways and elicited an early response shared with pathogenic bacilli except M. tuberculosis. M. shigaense upregulated specific host response genes such as TLR7, CCL4 and CXCL5. We performed an integrated and comparative analysis of M. shigaense. Multigroup comparison indicated certain differences with typical pathogenic bacilli in terms of gene features and the macrophage response.

show abstract

Defining mycobacteria: Shared and specific genome features for different lifestyles

Cited by 6 publications

References 170 publications

GlnR-Mediated Regulation of Short-Chain Fatty Acid Assimilation in Mycobacterium smegmatis

GlnR-Mediated Regulation of Short-Chain Fatty Acid Assimilation in Mycobacterium smegmatis

A New Single Gene Differential Biomarker for Mycobacterium tuberculosis Complex and Non-tuberculosis Mycobacteria

Landscape of the genome and host cell response of Mycobacterium shigaense reveals pathogenic features

Contact Info

Product

Resources

About