Multi-omics metabolism analysis on irradiation-induced oxidative stress to Rhodotorula glutinis
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Oxidative stress is induced in many organisms by various natural abiotic factors including irradiation. It has been demonstrated that it significantly improves growth rate and lipid production of Rhodotorula glutinis. However, the specific mechanism of how irradiation influences the metabolism of R. glutinis remains still unavailable. To investigate and better understand the mechanisms involved in irradiation-induced stress resistance in R. glutinis, a multi-omics metabolism analysis was implemented. The results confirmed that irradiation indeed not only improved cell biomass but also accelerated the production of carotenoids and lipids, especially neutral lipid. Compared with the control, metabolome profiling in the group exposed to irradiation exhibited an obvious difference in the activation of the tricarboxylic acid cycle and triglyceride (TAG) production. The results of proteome analysis (data are available via ProteomeXchange with identifier PXD009678) showed that 423 proteins were changed significantly, and proteins associated with protein folding and transport, the Hsp40 and Sec12, were obviously upregulated, indicating that cells responded to irradiation by accelerating the protein folding and transport of correctly folded proteins as well as enhanced the degradation of misfolded proteins. A significant upregulation of the carotenoid biosynthetic pathway was observed which revealed that increased carotenoid content is a cellular defense mechanism against oxidative stress generated by irradiation. Therefore, the results of comprehensive omics analysis provide intensive insights on the response mechanism of R. glutinis to irradiation-induced oxidative stress which could be helpful for using irradiation as an effective strategy to enhance the joint production of the neutral lipid and carotene.
KeywordsRhodotorula glutinis Irradiation Stress response Multi-omics analysis
This study was funded by the National Key Research and Development Program of China (grant number 2017YFB0306803) and the 111 project (grant number B13005).
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
This article does not contain any studies with human participants or animals performed by any of the authors.
- Bin-Umer MA, McLaughlin JE, Butterly MS, McCormick S, Tumer NE (2014) Elimination of damaged mitochondria through mitophagy reduces mitochondrial oxidative stress and increases tolerance to trichothecenes. Proc Natl Acad Sci U S A 111(32):11798–11803. https://doi.org/10.1073/pnas.1403145111 CrossRefPubMedPubMedCentralGoogle Scholar
- Chapman KA, Ostrovsky J, Rao M, Dingley SD, Polyak E, Yudkoff M, Xiao R, Bennett MJ, Falk MJ (2018) Propionyl-CoA carboxylase pcca-1 and pccb-1 gene deletions in Caenorhabditis elegans globally impair mitochondrial energy metabolism. J Inherit Metab Dis 41:157–168. https://doi.org/10.1007/s10545-017-0111-x CrossRefPubMedGoogle Scholar
- Chen CY, Rao SS, Ren L, Hu XK, Tan YJ, Hu Y, Luo J, Liu YW, Yin T, Huang J, Cao J, Wang ZX, Liu ZZ, Liu HM, Tang SY, Xu R, Xie H (2018) Exosomal DMBT1 from human urine-derived stem cells facilitates diabetic wound repair by promoting angiogenesis. Theranostics 8(6):1607–1623. https://doi.org/10.7150/thno.22958 CrossRefPubMedPubMedCentralGoogle Scholar
- He Q, Yang H, Xu L, Xia L, Hu C (2015) Sufficient utilization of natural fluctuating light intensity is an effective approach of promoting lipid productivity in oleaginous microalgal cultivation outdoors. Bioresour Technol 180:79–87. https://doi.org/10.1016/j.biortech.2014.12.088 CrossRefPubMedGoogle Scholar
- Huang S, Chen L, Te R, Qiao J, Wang J, Zhang W (2013) Complementary iTRAQ proteomics and RNA-seq transcriptomics reveal multiple levels of regulation in response to nitrogen starvation in Synechocystis sp. PCC 6803. Mol BioSyst 9(10):2565–2574. https://doi.org/10.1039/c3mb70188c CrossRefPubMedGoogle Scholar
- Leung KY, Pai YJ, Chen Q, Santos C, Calvani E, Sudiwala S, Savery D, Ralser M, Gross SS, Copp AJ, Greene NDE (2017) Partitioning of one-carbon units in folate and methionine metabolism is essential for neural tube closure. Cell Rep 21:1795–1808. https://doi.org/10.1016/j.celrep.2017.10.072 CrossRefPubMedPubMedCentralGoogle Scholar
- Lu X, Luan S, Dai P, Meng X, Cao B, Luo K, Kong J (2018) iTRAQ-based comparative proteome analysis for molecular mechanism of defense against acute ammonia toxicity in Pacific white shrimp Litopenaeus vannamei. Fish Shellfish Immunol 74:52–61. https://doi.org/10.1016/j.fsi.2017.12.030 CrossRefPubMedGoogle Scholar
- Mandotra S, Kumar P, Suseela M, Nayaka S, Ramteke P (2016) Evaluation of fatty acid profile and biodiesel properties of microalga Scenedesmus abundans under the influence of phosphorus, pH and light intensities. Bioresour Technol 201:222–229. https://doi.org/10.1016/j.biortech.2015.11.042 CrossRefPubMedGoogle Scholar
- Shi K, Gao Z, Shi TQ, Song P, Ren LJ, Huang H, Ji XJ (2017) Reactive oxygen species-mediated cellular stress response and lipid accumulation in oleaginous microorganisms: the state of the art and future perspectives. Front Microbiol 8:793. https://doi.org/10.3389/fmicb.2017.00793 CrossRefPubMedPubMedCentralGoogle Scholar
- Vizcaino JA, Csordas A, Del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H (2016) 2016 update of the PRIDE database and its related tools. Nucleic Acids Res 44(22):11033. https://doi.org/10.1093/nar/gkw880 CrossRefPubMedPubMedCentralGoogle Scholar
- Zhu Z, Ding Y, Gong Z, Yang L, Zhang S, Zhang C, Lin X, Shen H, Zou H, Xie Z, Yang F, Zhao X, Liu P, Zhao ZK (2015) Dynamics of the lipid droplet proteome of the oleaginous yeast Rhodosporidium toruloides. Eukaryot Cell 14:252–264. https://doi.org/10.1128/EC.00141-14 CrossRefPubMedPubMedCentralGoogle Scholar