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rhodococcus opacus pd630  (DSMZ)


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    DSMZ rhodococcus opacus pd630
    The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts
    Rhodococcus Opacus Pd630, supplied by DSMZ, used in various techniques. Bioz Stars score: 94/100, based on 90 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/rhodococcus opacus pd630/product/DSMZ
    Average 94 stars, based on 90 article reviews
    rhodococcus opacus pd630 - by Bioz Stars, 2026-01
    94/100 stars

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    1) Product Images from "Increased triacylglycerol production in Rhodococcus opacus by overexpressing transcriptional regulators"

    Article Title: Increased triacylglycerol production in Rhodococcus opacus by overexpressing transcriptional regulators

    Journal: Biotechnology for Biofuels and Bioproducts

    doi: 10.1186/s13068-024-02523-3

    The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts
    Figure Legend Snippet: The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts

    Techniques Used: Quantitative Proteomics, Mutagenesis, Functional Assay, Transformation Assay, Expressing



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    The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts
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    The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts

    Journal: Biotechnology for Biofuels and Bioproducts

    Article Title: Increased triacylglycerol production in Rhodococcus opacus by overexpressing transcriptional regulators

    doi: 10.1186/s13068-024-02523-3

    Figure Lengend Snippet: The PaaX-like TR 13 induces carbon-specific alternate transcriptional programs and represses phenylacetic acid degradation. a Heatmap visualizing the differential expression of KEGG pathways. Each mutant was compared to the WT strain grown using the same carbon source for differential expression in all the R. opacus ’ annotated KEGG pathways (rows). The color of each cell of the heatmap denotes the fold change versus WT, and white cells represent non-significant changes. Each column represents the DE of one condition, averaged from replicates and tested using GAGE in R. Annotation bars on top of the heatmap denote the strain and carbon source in each column, and the row annotation bar on the side denotes the BRITE functional hierarchy classification for each pathway. Rows are clustered using the “complete” distance method. b Heatmap visualizing the DE of the phenylacetic acid degradation pathway in Strain 13 versus WT grown on phenol. Here, all loci annotated to the phenylacetic acid pathway were shown as rows, and each column represents one of the replicates for each condition. Column annotation bars on top of the metric indicate the strain and carbon source designation of each replicate. Rows and columns are clustered using Euclidean distance and the “complete” clustering metric. Heatmap values are regularized-log transformed expression counts

    Article Snippet: The ancestral, or wild-type (WT), strain for all transformant cells was Rhodococcus opacus PD630 (DSMZ 44193).

    Techniques: Quantitative Proteomics, Mutagenesis, Functional Assay, Transformation Assay, Expressing