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Comparative Transcriptome Analysis of the Cosmopolitan Marine Fungus Corollospora maritima Under Two Physiological Conditions.

Velez P, Alejandri-Ramírez ND, González MC, Estrada KJ, Sanchez-Flores A, Dinkova TD - G3 (Bethesda) (2015)

Bottom Line: The de novo reconstruction of C. maritima transcriptome Illumina sequencing provided a total of 14,530 transcripts (16 megabases).Using fungal isolates collected from different beaches, the specific environmental regulation of particular transcript differential expression was confirmed by RT-qPCR.To our knowledge, this is the first analysis that explores the marine fungus C. maritima molecular responses to overcome freshwater stress, and these data could shed light to understand the fungal adaptation and plasticity mechanisms to the marine habitat.

View Article: PubMed Central - PubMed

Affiliation: Departamento de Botánica, Instituto de Biología, Universidad Nacional Autónoma de México, Distrito Federal, México 04510 pvelezaguilar@gmail.com cesy@unam.mx.

No MeSH data available.


Related in: MedlinePlus

GO term distribution of marine or freshwater preferentially expressed C. maritima genes. The distribution is represented separately for freshwater (gray bars) and marine (black bars) upregulated genes with GO assignation in biological processes (A), cellular components (B), and molecular functions (C). “Percent” refers to the proportion (percentage) of transcripts belonging to each GO from the total of condition-enriched transcripts with GO assignation. SMM, small molecule metabolic process; PM, plasma membrane; ECR, extracellular region; TF, transcription factor; Hydrolasea, acting on carbon-nitrogen, but not peptide, bonds; Hydrolaseb, acting on glycosyl bonds; Transferasec, transferring acyl groups.
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fig3: GO term distribution of marine or freshwater preferentially expressed C. maritima genes. The distribution is represented separately for freshwater (gray bars) and marine (black bars) upregulated genes with GO assignation in biological processes (A), cellular components (B), and molecular functions (C). “Percent” refers to the proportion (percentage) of transcripts belonging to each GO from the total of condition-enriched transcripts with GO assignation. SMM, small molecule metabolic process; PM, plasma membrane; ECR, extracellular region; TF, transcription factor; Hydrolasea, acting on carbon-nitrogen, but not peptide, bonds; Hydrolaseb, acting on glycosyl bonds; Transferasec, transferring acyl groups.

Mentions: We analyzed the growth condition-specific responses based on enrichment of Gene Ontology (GO) categories in the transcripts to discover physiological differences according to the environment. In Figure 3, slim GO categories are represented for Biological process (Figure 3A), Cellular component (Figure 3B), and Molecular function (Figure 3C). The original GO designations are available in File S3, File S4, and File S5. Approximately 69% of the differentially expressed genes were not assigned a GO because they represented hypothetical or predicted protein or showed no identity to other proteins in the database. Freshwater growth was characterized by greater expression of pathogenesis- and stress-related transcripts (Figure 3A, gray bars). Notably small molecule metabolism (SMM) was particularly enriched under this condition, whereas it was under-represented in marine growth (black bars). In addition, transcripts corresponding to the polyketide metabolism such as phenolic phthiocerol and phthiocerol biosynthesis were expressed preferentially in freshwater (File S3). Phtalide derivatives are important compounds resulting from the polyketide metabolism and have been previously described for C. maritima (Liberra et al. 1998). Hence, production of phtalides may be favored when salinity decreases in the environment of the fungus.


Comparative Transcriptome Analysis of the Cosmopolitan Marine Fungus Corollospora maritima Under Two Physiological Conditions.

Velez P, Alejandri-Ramírez ND, González MC, Estrada KJ, Sanchez-Flores A, Dinkova TD - G3 (Bethesda) (2015)

GO term distribution of marine or freshwater preferentially expressed C. maritima genes. The distribution is represented separately for freshwater (gray bars) and marine (black bars) upregulated genes with GO assignation in biological processes (A), cellular components (B), and molecular functions (C). “Percent” refers to the proportion (percentage) of transcripts belonging to each GO from the total of condition-enriched transcripts with GO assignation. SMM, small molecule metabolic process; PM, plasma membrane; ECR, extracellular region; TF, transcription factor; Hydrolasea, acting on carbon-nitrogen, but not peptide, bonds; Hydrolaseb, acting on glycosyl bonds; Transferasec, transferring acyl groups.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4555217&req=5

fig3: GO term distribution of marine or freshwater preferentially expressed C. maritima genes. The distribution is represented separately for freshwater (gray bars) and marine (black bars) upregulated genes with GO assignation in biological processes (A), cellular components (B), and molecular functions (C). “Percent” refers to the proportion (percentage) of transcripts belonging to each GO from the total of condition-enriched transcripts with GO assignation. SMM, small molecule metabolic process; PM, plasma membrane; ECR, extracellular region; TF, transcription factor; Hydrolasea, acting on carbon-nitrogen, but not peptide, bonds; Hydrolaseb, acting on glycosyl bonds; Transferasec, transferring acyl groups.
Mentions: We analyzed the growth condition-specific responses based on enrichment of Gene Ontology (GO) categories in the transcripts to discover physiological differences according to the environment. In Figure 3, slim GO categories are represented for Biological process (Figure 3A), Cellular component (Figure 3B), and Molecular function (Figure 3C). The original GO designations are available in File S3, File S4, and File S5. Approximately 69% of the differentially expressed genes were not assigned a GO because they represented hypothetical or predicted protein or showed no identity to other proteins in the database. Freshwater growth was characterized by greater expression of pathogenesis- and stress-related transcripts (Figure 3A, gray bars). Notably small molecule metabolism (SMM) was particularly enriched under this condition, whereas it was under-represented in marine growth (black bars). In addition, transcripts corresponding to the polyketide metabolism such as phenolic phthiocerol and phthiocerol biosynthesis were expressed preferentially in freshwater (File S3). Phtalide derivatives are important compounds resulting from the polyketide metabolism and have been previously described for C. maritima (Liberra et al. 1998). Hence, production of phtalides may be favored when salinity decreases in the environment of the fungus.

Bottom Line: The de novo reconstruction of C. maritima transcriptome Illumina sequencing provided a total of 14,530 transcripts (16 megabases).Using fungal isolates collected from different beaches, the specific environmental regulation of particular transcript differential expression was confirmed by RT-qPCR.To our knowledge, this is the first analysis that explores the marine fungus C. maritima molecular responses to overcome freshwater stress, and these data could shed light to understand the fungal adaptation and plasticity mechanisms to the marine habitat.

View Article: PubMed Central - PubMed

Affiliation: Departamento de Botánica, Instituto de Biología, Universidad Nacional Autónoma de México, Distrito Federal, México 04510 pvelezaguilar@gmail.com cesy@unam.mx.

No MeSH data available.


Related in: MedlinePlus