A multi-omic characterization of the physiological responses to salt stress in Scenedesmus obliquus UTEX393.
Fuente:
PubMed
Gespeichert in:
| Hauptverfasser: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Artículo científico |
| Sprache: | en |
| Veröffentlicht: |
Communications biology
2025
|
| Schlagworte: | |
| Online-Zugang: | |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| _version_ | 1868266125074104320 |
|---|---|
| author | Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R |
| author_facet | Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R |
| collection | PubMed - marine biology |
| contents | A multi-omic characterization of the physiological responses to salt stress in Scenedesmus obliquus UTEX393. Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R Scenedesmus Salt Stress Proteomics Transcriptome Gene Expression Profiling Metabolomics Lipidomics Multiomics Scenedesmus obliquus UTEX393 is a promising microalgal candidate for sustainable biomanufacturing but its limited halotolerance hinders large-scale cultivation in saline environments. To investigate the molecular basis of salt stress responses, we conducted a comprehensive multi-omic analysis integrating genomics, transcriptomics, proteomics, lipidomics, metabolomics, and DNA affinity purification sequencing (DAP-seq). An improved nuclear genome assembly and annotation yielded 19,017 gene models and a 97% BUSCO completeness score, enabling construction of a genome-scale metabolic model. Comparing 15 ppt salinity stress to 5 ppt control, growth and productivity were significantly reduced, accompanied by widespread transcriptomic and proteomic changes. Transcriptomic analysis revealed downregulation of photosynthetic machinery and energy conservation genes, and upregulation of stress-responsive elements such as expansins, flavodoxins, and osmoprotectants. Lipidomic profiling showed accumulation of triacylglycerols (TAGs) and degradation of galactosyl lipids, consistent with a shift toward lipid biosynthesis to mitigate redox imbalance. Depletion of key polar metabolites and branched-chain amino acids suggested a rerouting of central carbon metabolism under stress. DAP-seq identified key transcription factors, including LHY1 and SPL12, that target central metabolic enzymes involved in redox balancing, such as glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and malate dehydrogenase (MDH). These findings establish a regulatory-metabolic framework linking redox stress to lipid accumulation and reveal potential engineering targets to enhance salt tolerance. Overall, the multi-omic analysis supports the "overflow" hypothesis, where impaired photosynthesis results in excess reducing equivalents being diverted into TAG synthesis and highlights transcriptional regulators as candidates for improving algal robustness in brackish environments. |
| format | Artículo científico |
| id | pubmed_41272269 |
| institution | PubMed |
| language | en |
| publishDate | 2025 |
| publisher | Communications biology |
| record_format | pubmed |
| spellingShingle | A multi-omic characterization of the physiological responses to salt stress in Scenedesmus obliquus UTEX393. Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R Scenedesmus Salt Stress Proteomics Transcriptome Gene Expression Profiling Metabolomics Lipidomics Multiomics A multi-omic characterization of the physiological responses to salt stress in Scenedesmus obliquus UTEX393. Kruse, Colin P S Calhoun, Sara Kamel, Bishoy Edmundson, Scott J Holguin, Omar Mach, Phillip M McKie-Krisberg, Zaid Baumgart, Leo Blaby, Ian K Bowen, Benjamin Chen, Cindy Kunde, Yuliya Grimwood, Jane Lipzen, Anna Louie, Katherine Mewalal, Ritesh Gleasner, Cheryl D Northen, Trent Talag, Jayson Treen, Daniel Zhang, Yu Gutknecht, Andrew O'Malley, Ronan C Glaros, Trevor G Polle, Juergen Umen, James Huesemann, Michael Grigoriev, Igor V Starkenburg, Shawn R Scenedesmus Salt Stress Proteomics Transcriptome Gene Expression Profiling Metabolomics Lipidomics Multiomics Scenedesmus obliquus UTEX393 is a promising microalgal candidate for sustainable biomanufacturing but its limited halotolerance hinders large-scale cultivation in saline environments. To investigate the molecular basis of salt stress responses, we conducted a comprehensive multi-omic analysis integrating genomics, transcriptomics, proteomics, lipidomics, metabolomics, and DNA affinity purification sequencing (DAP-seq). An improved nuclear genome assembly and annotation yielded 19,017 gene models and a 97% BUSCO completeness score, enabling construction of a genome-scale metabolic model. Comparing 15 ppt salinity stress to 5 ppt control, growth and productivity were significantly reduced, accompanied by widespread transcriptomic and proteomic changes. Transcriptomic analysis revealed downregulation of photosynthetic machinery and energy conservation genes, and upregulation of stress-responsive elements such as expansins, flavodoxins, and osmoprotectants. Lipidomic profiling showed accumulation of triacylglycerols (TAGs) and degradation of galactosyl lipids, consistent with a shift toward lipid biosynthesis to mitigate redox imbalance. Depletion of key polar metabolites and branched-chain amino acids suggested a rerouting of central carbon metabolism under stress. DAP-seq identified key transcription factors, including LHY1 and SPL12, that target central metabolic enzymes involved in redox balancing, such as glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and malate dehydrogenase (MDH). These findings establish a regulatory-metabolic framework linking redox stress to lipid accumulation and reveal potential engineering targets to enhance salt tolerance. Overall, the multi-omic analysis supports the "overflow" hypothesis, where impaired photosynthesis results in excess reducing equivalents being diverted into TAG synthesis and highlights transcriptional regulators as candidates for improving algal robustness in brackish environments. |
| title | A multi-omic characterization of the physiological responses to salt stress in Scenedesmus obliquus UTEX393. |
| topic | Scenedesmus Salt Stress Proteomics Transcriptome Gene Expression Profiling Metabolomics Lipidomics Multiomics |
| url | https://pubmed.ncbi.nlm.nih.gov/41272269/ |