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Different transcriptional profiles of RAW264.7 infected with Mycobacterium tuberculosis H37Rv and BCG identified via deep sequencing.

Pan F, Zhao Y, Zhu S, Sun C, Lei L, Feng X, Han WY - PLoS ONE (2012)

Bottom Line: In addition, approximately 5% of the transcripts appeared to be predicted genes that have never been described before.KEGG Orthology (KO) annotations showed more than 71% of these transcripts are possibly involved in approximately 210 known metabolic or signaling pathways.Some genes were randomly selected to confirm their altered expression levels by quantitative real-time PCR (qRT-PCR).

View Article: PubMed Central - PubMed

Affiliation: Laboratory of Food Safety and Hygienic Inspection, Jilin University, Changchun, Jilin, People's Republic of China.

ABSTRACT

Background: The Mycobacterium tuberculosis H37Rv and BCG effects on the host cell transcriptional profile consider a main research point. In the present study the transcriptome profiling analysis of RAW264.7 either infected with Mycobacterium tuberculosis H37Rv or BCG have been reported using Solexa/Illumina digital gene expression (DGE).

Results: The DGE analysis showed 1,917 different expressed genes between the BCG and H37Rv group. In addition, approximately 5% of the transcripts appeared to be predicted genes that have never been described before. KEGG Orthology (KO) annotations showed more than 71% of these transcripts are possibly involved in approximately 210 known metabolic or signaling pathways. The gene of the 28 pathways about pathogen recognition receptors and Mycobacterium tuberculosis interaction with macrophages were analyzed using the CLUSTER 3.0 available, the Tree View tool and Gene Orthology (GO). Some genes were randomly selected to confirm their altered expression levels by quantitative real-time PCR (qRT-PCR).

Conclusion: The present study used DGE from pathogen recognition receptors and Mycobacterium tuberculosis interaction with macrophages to understand the interplay between Mycobacterium tuberculosis and RAW264.7. Meanwhile find some important host protein which was affected by Mycobacterium tuberculosis to provide evidence for the further improvement of the present efficacy of existing Mycobacterium tuberculosis therapy and vaccine.

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Hierarchical clustering and Tree View analysis.Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis.  The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.
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pone-0051988-g006: Hierarchical clustering and Tree View analysis.Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis. The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.

Mentions: Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis. The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.


Different transcriptional profiles of RAW264.7 infected with Mycobacterium tuberculosis H37Rv and BCG identified via deep sequencing.

Pan F, Zhao Y, Zhu S, Sun C, Lei L, Feng X, Han WY - PLoS ONE (2012)

Hierarchical clustering and Tree View analysis.Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis.  The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.
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Related In: Results  -  Collection

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getmorefigures.php?uid=PMC3526534&req=5

pone-0051988-g006: Hierarchical clustering and Tree View analysis.Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis. The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.
Mentions: Figure 6A. The metabolism pathways analysis. Figure 6B. The genetic information processing pathways analysis data. Figure 6C. The Environmental information processing analysis. Figure 6D. The cellular processes analysis Figure 6E. The Organismal systems analysis. The up regulated genes showed value over zero, while the down regulated genes showed value range from 0 to −2. Results showed that the most up regulated genes belongs to the following pathways: cellular process pathways, such as cell cycle and apoptosis; environmental information processing pathways, such as MAPK signaling pathway, TGF-beta signaling pathway; genetic information processing pathways such as ribosom; global pathways such as microbial metabolism in diverse environment; organismal systems pathways, such as T cell receptor signaling pathway, antigen processing and presentation molecules, while the most down regulated genes belongs to the following pathways: cellular process pathways, such as phagosome, endocytosis and autophagy; environmental information processing pathways, such as calcium signaling pathway; global pathway such as metabolic pathways; organismal systems pathways, such as Fc epsilon RI signaling pathway (as shown in Figure 6, Table S3, and Table S5). Results suggested that if we want to improve present tuberculosis therapy, we may pay more attention to the function of these DGEs to effectively control Mycobacterium tuberculosis infection.

Bottom Line: In addition, approximately 5% of the transcripts appeared to be predicted genes that have never been described before.KEGG Orthology (KO) annotations showed more than 71% of these transcripts are possibly involved in approximately 210 known metabolic or signaling pathways.Some genes were randomly selected to confirm their altered expression levels by quantitative real-time PCR (qRT-PCR).

View Article: PubMed Central - PubMed

Affiliation: Laboratory of Food Safety and Hygienic Inspection, Jilin University, Changchun, Jilin, People's Republic of China.

ABSTRACT

Background: The Mycobacterium tuberculosis H37Rv and BCG effects on the host cell transcriptional profile consider a main research point. In the present study the transcriptome profiling analysis of RAW264.7 either infected with Mycobacterium tuberculosis H37Rv or BCG have been reported using Solexa/Illumina digital gene expression (DGE).

Results: The DGE analysis showed 1,917 different expressed genes between the BCG and H37Rv group. In addition, approximately 5% of the transcripts appeared to be predicted genes that have never been described before. KEGG Orthology (KO) annotations showed more than 71% of these transcripts are possibly involved in approximately 210 known metabolic or signaling pathways. The gene of the 28 pathways about pathogen recognition receptors and Mycobacterium tuberculosis interaction with macrophages were analyzed using the CLUSTER 3.0 available, the Tree View tool and Gene Orthology (GO). Some genes were randomly selected to confirm their altered expression levels by quantitative real-time PCR (qRT-PCR).

Conclusion: The present study used DGE from pathogen recognition receptors and Mycobacterium tuberculosis interaction with macrophages to understand the interplay between Mycobacterium tuberculosis and RAW264.7. Meanwhile find some important host protein which was affected by Mycobacterium tuberculosis to provide evidence for the further improvement of the present efficacy of existing Mycobacterium tuberculosis therapy and vaccine.

Show MeSH
Related in: MedlinePlus