Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i>
Cyclic AMP acts as a secondary messenger involving different cellular functions in eukaryotes. Here, proteomic and transcriptomic profiling has been combined to identify novel early developmentally regulated proteins in eukaryote cells. These proteomic and transcriptomic experiments were performed i...
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| Format: | Article |
| Language: | English |
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MDPI AG
2019-10-01
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| Series: | Cells |
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| Online Access: | https://www.mdpi.com/2073-4409/8/10/1187 |
| _version_ | 1797711481703235584 |
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| author | Óscar González-Velasco Javier De Las Rivas Jesus Lacal |
| author_facet | Óscar González-Velasco Javier De Las Rivas Jesus Lacal |
| author_sort | Óscar González-Velasco |
| collection | DOAJ |
| description | Cyclic AMP acts as a secondary messenger involving different cellular functions in eukaryotes. Here, proteomic and transcriptomic profiling has been combined to identify novel early developmentally regulated proteins in eukaryote cells. These proteomic and transcriptomic experiments were performed in Dictyostelium discoideum given the unique advantages that this organism offers as a eukaryotic model for cell motility and as a nonmammalian model of human disease. By comparing whole-cell proteome analysis of developed (cAMP-pulsed) wild-type AX2 cells and an independent transcriptomic analysis of developed wild-type AX4 cells, our results show that up to 70% of the identified proteins overlap in the two independent studies. Among them, we have found 26 proteins previously related to cAMP signaling and identified 110 novel proteins involved in calcium signaling, adhesion, actin cytoskeleton, the ubiquitin-proteasome pathway, metabolism, and proteins that previously lacked any annotation. Our study validates previous findings, mostly for the canonical cAMP-pathway, and also generates further insight into the complexity of the transcriptomic changes during early development. This article also compares proteomic data between parental and cells lacking glkA, a GSK-3 kinase implicated in substrate adhesion and chemotaxis in Dictyostelium. This analysis reveals a set of proteins that show differences in expression in the two strains as well as overlapping protein level changes independent of GlkA. |
| first_indexed | 2024-03-12T07:07:44Z |
| format | Article |
| id | doaj.art-0362898c9e194de1bf09704d63c3c523 |
| institution | Directory Open Access Journal |
| issn | 2073-4409 |
| language | English |
| last_indexed | 2024-03-12T07:07:44Z |
| publishDate | 2019-10-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Cells |
| spelling | doaj.art-0362898c9e194de1bf09704d63c3c5232023-09-02T23:17:50ZengMDPI AGCells2073-44092019-10-01810118710.3390/cells8101187cells8101187Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i>Óscar González-Velasco0Javier De Las Rivas1Jesus Lacal2Bioinformatics and Functional Genomics Research Group. Cancer Research Center (CIC-IBMCC, CSIC/USAL/IBSAL), 37007 Salamanca, SpainBioinformatics and Functional Genomics Research Group. Cancer Research Center (CIC-IBMCC, CSIC/USAL/IBSAL), 37007 Salamanca, SpainDepartment of Microbiology and Genetics, Faculty of Biology, University of Salamanca, 37007 Salamanca, SpainCyclic AMP acts as a secondary messenger involving different cellular functions in eukaryotes. Here, proteomic and transcriptomic profiling has been combined to identify novel early developmentally regulated proteins in eukaryote cells. These proteomic and transcriptomic experiments were performed in Dictyostelium discoideum given the unique advantages that this organism offers as a eukaryotic model for cell motility and as a nonmammalian model of human disease. By comparing whole-cell proteome analysis of developed (cAMP-pulsed) wild-type AX2 cells and an independent transcriptomic analysis of developed wild-type AX4 cells, our results show that up to 70% of the identified proteins overlap in the two independent studies. Among them, we have found 26 proteins previously related to cAMP signaling and identified 110 novel proteins involved in calcium signaling, adhesion, actin cytoskeleton, the ubiquitin-proteasome pathway, metabolism, and proteins that previously lacked any annotation. Our study validates previous findings, mostly for the canonical cAMP-pathway, and also generates further insight into the complexity of the transcriptomic changes during early development. This article also compares proteomic data between parental and cells lacking glkA, a GSK-3 kinase implicated in substrate adhesion and chemotaxis in Dictyostelium. This analysis reveals a set of proteins that show differences in expression in the two strains as well as overlapping protein level changes independent of GlkA.https://www.mdpi.com/2073-4409/8/10/1187bioinformaticschemotaxisearly differentiationcamp<i>dictyostelium</i> |
| spellingShingle | Óscar González-Velasco Javier De Las Rivas Jesus Lacal Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> Cells bioinformatics chemotaxis early differentiation camp <i>dictyostelium</i> |
| title | Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> |
| title_full | Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> |
| title_fullStr | Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> |
| title_full_unstemmed | Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> |
| title_short | Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in <i>Dictyostelium Discoideum</i> |
| title_sort | proteomic and transcriptomic profiling identifies early developmentally regulated proteins in i dictyostelium discoideum i |
| topic | bioinformatics chemotaxis early differentiation camp <i>dictyostelium</i> |
| url | https://www.mdpi.com/2073-4409/8/10/1187 |
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