A single desaturase gene from red yeast Sporidiobolus pararoseus is responsible for both four- and five-step dehydrogenation of phytoene

Li, Chunji; Zhang, Ning; Song, Jia; Wei, Na; Li, Bingxue; Zou, Hongtao; Han, Xianpei

doi:10.1016/j.gene.2016.06.042

Cited by 19 publications

(15 citation statements)

References 36 publications

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“…Interestingly, the comparative genomics results showed that these genes encoding GGPP synthase, phytoene desaturase and lycopene cyclase/phytoene synthase, has underwent the strong purifying natural selection within the five Rhodotorula species. Subsequently, we would like to further verify the function of these genes through a group of heterologous complementary experiments as described in our previous studies [48,49]; hope to finally fill in the gaps in the synthetic pathway of torulene and torularhodin. Besides, the R. glutinis strains are regarded as the resources of various kinds of industrial enzymes, especially the phenylalanine ammonia lyase (PAL) [25].…”

Section: Discussionmentioning

confidence: 98%

Genomics and lipidomics analysis of the biotechnologically important oleaginous red yeast Rhodotorula glutinis ZHK provides new insights into its lipid and carotenoid metabolism

Zhao

Cheng

et al. 2020

BMC Genomics

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Background Rhodotorula glutinis is recognized as a biotechnologically important oleaginous red yeast, which synthesizes numerous meritorious compounds with wide industrial usages. One of the most notable properties of R. glutinis is the formation of intracellular lipid droplets full of carotenoids. However, the basic genomic features that underlie the biosynthesis of these valuable compounds in R. glutinis have not been fully documented. To reveal the biotechnological potential of R. glutinis, the genomics and lipidomics analysis was performed through the Next-Generation Sequencing and HPLC-MS-based metabolomics technologies. Results Here, we firstly assemble the genome of R. glutinis ZHK into 21.8 Mb, containing 30 scaffolds and 6774 predicted genes with a N50 length of 14, 66,672 bp and GC content of 67.8%. Genome completeness assessment (BUSCO alignment: 95.3%) indicated the genome assembly with a high-quality features. According to the functional annotation of the genome, we predicted several key genes involved in lipids and carotenoids metabolism as well as certain industrial enzymes biosynthesis. Comparative genomics results suggested that most of orthologous genes have underwent the strong purifying selection within the five Rhodotorula species, especially genes responsible for carotenoids biosynthesis. Furthermore, a total of 982 lipids were identified using the lipidomics approaches, mainly including triacylglycerols, diacylglyceryltrimethylhomo-ser and phosphatidylethanolamine. Conclusion Using whole genome shotgun sequencing, we comprehensively analyzed the genome of R. glutinis and predicted several key genes involved in lipids and carotenoids metabolism. By performing comparative genomic analysis, we show that most of the ortholog genes have undergone strong purifying selection within the five Rhodotorula species. Furthermore, we identified 982 lipid species using lipidomic approaches. These results provided valuable resources to further advance biotechnological applications of R .glutinis.

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Section: Discussionmentioning

confidence: 98%

Genomics and lipidomics analysis of the biotechnologically important oleaginous red yeast Rhodotorula glutinis ZHK provides new insights into its lipid and carotenoid metabolism

Zhao

Cheng

et al. 2020

BMC Genomics

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“…Bifunctional lycopene cyclase/phytoene synthase encoded by crtYB gene, phytoene desaturase encoding gene crtI . Torularhodin is obtained in transformation of torulene, including hydroxylation and oxidation [ 26 , 53 , 54 ] …”

Section: Torulene and Torularhodin Biosynthesis In Yeast Cellsmentioning

confidence: 99%

Torulene and torularhodin: “new” fungal carotenoids for industry?

et al. 2018

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Torulene and torularhodin represent the group of carotenoids and are synthesized by yeasts and fungi. The most important producers of these two compounds include yeasts of Rhodotorula and Sporobolomyces genera. The first reports confirming the presence of torulene and torularhodin in the cells of microorganisms date to the 1930s and 1940s; however, only in the past few years, the number of works describing the properties of these compounds increased. These compounds have strong anti-oxidative and anti-microbial properties, and thus may be successfully used as food, feedstock, and cosmetics additives. In addition, tests performed on rats and mice showed that both torulene and torularhodin have anti-cancerous properties. In order to commercialize the production of these two carotenoids, it is necessary to obtain highly efficient yeast strains, for example, via mutagenization and optimization of cultivation conditions. Further studies on the activity of torulene and torularhodin on the human body are also needed.

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“…In addition, 1940 ( Based on KEGG pathways mapping, we annotated the coding genes of candidate for biotechnological potential in the NGR genome. A summary of the candidates (Additional files 8, 9, 10 and 11 for details) is presented as following: 1) carotenoids biosynthesis, including crtI (phytoene desaturase, GenBank: KR108014) [22], crtYB (lycopene cyclase/phytoene synthase, GenBank: KR108013) [23], crtE (GGPP synthase, GenBank: KY652916), and other genes encoding hydroxylase, monooxygenase, or ketolase/carboxylase which might be responsible for the transformation from torulene to torularhodin; 2) lipid metabolism, including genes encoding acetyl-CoA carboxylase, acyl-CoA oxidase, phospholipid: diacylglycerol acyltransferase, glycerol 3-phosphate dehydrogenase; 3) carbohydrate metabolism, including genes encoding pyruvate dehydrogenase, pyruvate carboxylase and acyl-CoA: diacylglycerol acyltransferase; 4) stress responses, including genes involved in MAPK signaling pathway and calcium signal transduction.…”

Section: Functional Annotationmentioning

confidence: 99%

Whole genome sequencing and comparative genomic analysis of oleaginous red yeast Sporobolomyces pararoseus NGR identifies candidate genes for biotechnological potential and ballistospores-shooting

Zhao

et al. 2020

BMC Genomics

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Background: Sporobolomyces pararoseus is regarded as an oleaginous red yeast, which synthesizes numerous valuable compounds with wide industrial usages. This species hold biotechnological interests in biodiesel, food and cosmetics industries. Moreover, the ballistospores-shooting promotes the colonizing of S. pararoseus in most terrestrial and marine ecosystems. However, very little is known about the basic genomic features of S. pararoseus. To assess the biotechnological potential and ballistospores-shooting mechanism of S. pararoseus on genome-scale, the whole genome sequencing was performed by next-generation sequencing technology. Results: Here, we used Illumina Hiseq platform to firstly assemble S. pararoseus genome into 20.9 Mb containing 54 scaffolds and 5963 predicted genes with a N50 length of 2,038,020 bp and GC content of 47.59%. Genome completeness (BUSCO alignment: 95.4%) and RNA-seq analysis (expressed genes: 98.68%) indicated the high-quality features of the current genome. Through the annotation information of the genome, we screened many key genes involved in carotenoids, lipids, carbohydrate metabolism and signal transduction pathways. A phylogenetic assessment suggested that the evolutionary trajectory of the order Sporidiobolales species was evolved from genus Sporobolomyces to Rhodotorula through the mediator Rhodosporidiobolus. Compared to the lacking ballistospores Rhodotorula toruloides and Saccharomyces cerevisiae, we found genes enriched for spore germination and sugar metabolism. These genes might be responsible for the ballistospores-shooting in S. pararoseus NGR. Conclusion: These results greatly advance our understanding of S. pararoseus NGR in biotechnological potential and ballistospores-shooting, which help further research of genetic manipulation, metabolic engineering as well as its evolutionary direction.

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A single desaturase gene from red yeast Sporidiobolus pararoseus is responsible for both four- and five-step dehydrogenation of phytoene

Cited by 19 publications

References 36 publications

Genomics and lipidomics analysis of the biotechnologically important oleaginous red yeast Rhodotorula glutinis ZHK provides new insights into its lipid and carotenoid metabolism

Genomics and lipidomics analysis of the biotechnologically important oleaginous red yeast Rhodotorula glutinis ZHK provides new insights into its lipid and carotenoid metabolism

Torulene and torularhodin: “new” fungal carotenoids for industry?

Whole genome sequencing and comparative genomic analysis of oleaginous red yeast Sporobolomyces pararoseus NGR identifies candidate genes for biotechnological potential and ballistospores-shooting

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