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Evolution of intraspecific transcriptomic landscapes in yeasts.

Brion C, Pflieger D, Friedrich A, Schacherer J - Nucleic Acids Res. (2015)

Bottom Line: Moreover, L. kluyveri harbors a chromosome-scale compositional heterogeneity due to a 1-Mb ancestral introgressed region as well as a large set of unique unannotated genes.Moreover, utilizing this approach in L. kluyveri also highlighted specific regulatory network signatures in aerobic respiration, amino-acid biosynthesis and glycosylation, presumably due to its different lifestyle.Our data set sheds an important light on the evolution of intraspecific transcriptomic variation across distant species.

View Article: PubMed Central - PubMed

Affiliation: Department of Genetics, Genomics and Microbiology, University of Strasbourg, CNRS, UMR7156, Strasbourg, France.

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Comparison of transcription level (left) and variation (right) between L. kluyveri and S. cerevisiae orthologs. The transcription levels correspond to the mean of the transcript abundance across all isolates of each species. Colors on the variation plot correspond to the sets of genes we used for enrichment in order to identify the difference in transcription between L. kluyveri and S. cerevisiae. The standard deviation axes are in a log scale.
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Figure 2: Comparison of transcription level (left) and variation (right) between L. kluyveri and S. cerevisiae orthologs. The transcription levels correspond to the mean of the transcript abundance across all isolates of each species. Colors on the variation plot correspond to the sets of genes we used for enrichment in order to identify the difference in transcription between L. kluyveri and S. cerevisiae. The standard deviation axes are in a log scale.

Mentions: To obtain a better view of the characteristics regarding variation in expression of preduplicated yeast, we compared the plasticity of transcription for each L. kluyveri–S. cerevisiae ortholog pair. For all comparisons, we used previously published expression data from 22 S. cerevisiae strains (12). We first compared the average expression levels of each ortholog pair and observed a noisy (linear model R2 = 0.39) but significant (P < 2 × 10−16) correlation, despite the considerable genetic distance between the two species and the differences in conditions tested (Figure 2). This indicates that the transcript abundance was generally maintained for a fraction of genes, which is probably linked to the conservation of the molecular function of the genes that dictated the protein abundance.


Evolution of intraspecific transcriptomic landscapes in yeasts.

Brion C, Pflieger D, Friedrich A, Schacherer J - Nucleic Acids Res. (2015)

Comparison of transcription level (left) and variation (right) between L. kluyveri and S. cerevisiae orthologs. The transcription levels correspond to the mean of the transcript abundance across all isolates of each species. Colors on the variation plot correspond to the sets of genes we used for enrichment in order to identify the difference in transcription between L. kluyveri and S. cerevisiae. The standard deviation axes are in a log scale.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4482089&req=5

Figure 2: Comparison of transcription level (left) and variation (right) between L. kluyveri and S. cerevisiae orthologs. The transcription levels correspond to the mean of the transcript abundance across all isolates of each species. Colors on the variation plot correspond to the sets of genes we used for enrichment in order to identify the difference in transcription between L. kluyveri and S. cerevisiae. The standard deviation axes are in a log scale.
Mentions: To obtain a better view of the characteristics regarding variation in expression of preduplicated yeast, we compared the plasticity of transcription for each L. kluyveri–S. cerevisiae ortholog pair. For all comparisons, we used previously published expression data from 22 S. cerevisiae strains (12). We first compared the average expression levels of each ortholog pair and observed a noisy (linear model R2 = 0.39) but significant (P < 2 × 10−16) correlation, despite the considerable genetic distance between the two species and the differences in conditions tested (Figure 2). This indicates that the transcript abundance was generally maintained for a fraction of genes, which is probably linked to the conservation of the molecular function of the genes that dictated the protein abundance.

Bottom Line: Moreover, L. kluyveri harbors a chromosome-scale compositional heterogeneity due to a 1-Mb ancestral introgressed region as well as a large set of unique unannotated genes.Moreover, utilizing this approach in L. kluyveri also highlighted specific regulatory network signatures in aerobic respiration, amino-acid biosynthesis and glycosylation, presumably due to its different lifestyle.Our data set sheds an important light on the evolution of intraspecific transcriptomic variation across distant species.

View Article: PubMed Central - PubMed

Affiliation: Department of Genetics, Genomics and Microbiology, University of Strasbourg, CNRS, UMR7156, Strasbourg, France.

Show MeSH