From: Current advances for omics-guided process optimization of microbial manufacturing
Omics technology | Strain | Guiding role | Meaning | References |
---|---|---|---|---|
Metabolomics | Corynebacterium glutamicum | It found the bottleneck of carbon source utilization | Which laid a theoretical foundation for the subsequent use of pentose as a carbon source for fermentation | Kawaguchi et al. (2018) |
Yarrowia Lipolytica | To elucidate the effect of the C/N ratio medium on lipid production | It found that high C/N ratio medium promoted long-chain fatty acids synthesis better | Yun et al. (2018) | |
Chromochloris zofingiensis | To elucidate the effect of the addition of gibberellic acid-3, sodium chloride and high C/N ratio on astaxanthin production | It provided the help for optimization of the medium composition for increase astaxanthin content | Chen et al. (2023) | |
Streptomyces | To elucidate the molecular mechanism of pH on the synthesis of candicidin | The step-by-step control strategy of pH in fermentation processes was put forward | Liu et al. (2018b) | |
Transcriptomics | Monascus | It found that carbon starvation could cause stress response in cells, and direct acetyl-CoA pigments synthesis | To provide a direction for subsequent fermentation optimization to improve pigment yield | Yang et al. (2015) |
Thraustochytrids | To elucidate the regulatory mechanism of corn steep liquor for improving lipid and docosahexaenoic acid productivity | To provide a basis for using low-cost corn steep liquor as nitrogen source for fermentation | Wang et al. (2019) | |
P. purpureum | To elucidate the metabolic mechanism of polysaccharides and PUFAs were significantly improved under nitrogen stress | which was helpful for the design of medium and process control during under nitrogen stress fermentation | Ji et al. (2021) | |
Saccharomyces cerevisiae | To investigate the reasons for the significant difference on the carotenoid production in two different media (YPM, YPD) | It provided the key factors (Zn2+, Cu2+) in the optimization of medium for carotenoid production | Su et al. (2021) | |
Zymomonas mobilis | The Mg2+ deficiency in the medium were majorly related to stress response and energy conservation | The concentration of Mg2+ in the nitrogen source was critical for cell growth and ethanol fermentation | Li et al. (2020) | |
Streptomyces | pH shock increased yield by increasing ε-poly-L-lysine synthase activity and improving cellular respiration | It provided a reasonable explanation for the effect of pH on the synthesis of ε-poly-L-lysine | Pan et al. (2019) | |
Lipidomics | Mortierella alpina | To reveal the effects of types of nitrogen sources on the lipid metabolism | To provide an optimal direction for regulating the ratio of different components in lipid | Lu et al. (2019) |
GSMN | Nostoc sp. | To elucidate PBPs biosynthesis's potential association in the cell | To provide a direction for subsequent fermentation optimization to improve PBPs yield | Saini et al. (2021) |
P. thermoglucosidasius | To resolve a previously unclear bottleneck in anaerobic fermentation | To identifying the minimal required supplemented nutrients needed to sustain anaerobic growth | Mol et al. (2021) | |
Comparative transcriptomics and lipidomics | Aurantiochytrium sp. | To elucidate the effects of different temperatures (5 °C, 15 °C) treatments on the biosynthesis of long-chain polyunsaturated fatty acids | The accumulation of DHA was increased under 5 °C, the yield of eicosadienoic acid (20:2) increased at 15 °C | Song et al. (2022) |
Genomics, comparative transcriptomics and proteomics | Rhodosporidium toruloides | To elucidate the molecular mechanism of nitrogen-limited starvation on the accumulation of oil | which was helpful for the design of medium and process control during nitrogen-limited fermentation | Zhu et al. (2012) |
Transcriptomics, proteomics, metabolomics | Rhodosporidium toruloides | To elucidate the molecular mechanism of phosphate-limited starvation on the accumulation of lipids | To provide new substances for nutritionally limited production | Wang et al. (2018) |
Proteomics, metabolomics | Phaffia rhodozyma | It found that succinate increased carotenoid production mainly due to increased acetyl-CoA utilization and cellular respiration rate | As a reference for the production of carotenoids from non-fermentative carbon sources | Martinez-Moya et al. (2015) |
Transcriptomics, metabolomics | C. zofingiensis | To elucidate the molecular mechanism of 0.2Â M NaCl maximize both TAG and astaxanthin contents | It provided an accumulation of biodiesel in algae under salt stress theoretical basis | Mao et al. (2020) |
Methanotrophs | The changes of intracellular metabolism of cells to specific nutrient sources were determined | It provided a carbon source and nitrogen source optimization theoretical basis | Sugden et al. (2021) | |
R. glutinis ZHK | To elucidate the effects of different temperatures (16 °C, 32 °C) treatments on the biosynthesis of carotenoids, lipids and EPSs | To provide theoretical basis for optimizing temperature of fermentation to control the type of products | Zhao and Li (2022) | |
Zymomonas mobilis | To elucidate the effects of aerobic and anaerobic fermentation on type of products | which was beneficial to control oxygen content to improve accumulation of ethanol | Yang et al. (2009) | |
Rhodotorula sp. | To elucidate the molecular mechanism that low levels of cytoplasmic glycerol limited lipid production | The addition of glycerol to the fed-batch increased cell mass and lipid production | Zhao et al. (2021) | |
Transcriptomics, proteomics | Streptococcus thermophilus | To elucidate most remarkable growth phase changes were related to heterofermentation, glycolysis and peptidoglycan biosynthesis | which was helpful for the design of medium and provided the theoretical basis for high density fermentation | Qiao et al. (2019) |
CHO cell | To elucidate the effects of different fermentation scales on cell productivity | The hypoxia was an important reason for limiting the scale-up of fermentation | Gao et al. (2016) |