ArticleBMC genomics2016
Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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24 citing papers in PubMed, 44 citations in OpenAlex.
- Microscopic Fungi as Sources of Natural UV-Protective Compounds.Current microbiology · 2026Review
- Harnessing synthetic biology for tetraterpenoid astaxanthin production: Recent advances and challenges.Synthetic and systems biotechnology · 2026Review
- Screening and characterization of a high-astaxanthin-producing Xanthophyllomyces dendrorhous strain TP-4 via an efficient evolutionary-enrichment system.Archives of microbiology · 2025Article
- Omics-driven onboarding of the carotenoid producing red yeast Xanthophyllomyces dendrorhous CBS 6938.Applied microbiology and biotechnology · 2024Article
- Characteristic of new Phaffia rhodozyma yeast strains isolated from birch slime fluxes in Poland.Archives of microbiology · 2024Article
- The enhancement of astaxanthin production inFrontiers in microbiology · 2024Article
- Unraveling the Molecular Basis of Mycosporine Biosynthesis in Fungi.International journal of molecular sciences · 2023Article
- Salicylic acid treatment and overexpression of a novel polyamine transporter gene for astaxanthin production inFrontiers in bioengineering and biotechnology · 2023Article
- Role of ROX1, SKN7, and YAP6 Stress Transcription Factors in the Production of Secondary Metabolites inInternational journal of molecular sciences · 2022Article
- Optimization of microbial cell factories for astaxanthin production: Biosynthesis and regulations, engineering strategies and fermentation optimization strategies.Synthetic and systems biotechnology · 2022Review
- Genomic Characterization of the Titan-like Cell ProducingJournal of fungi (Basel, Switzerland) · 2022Article
- Draft genome sequences of strains CBS6241 and CBS6242 of the basidiomycetous yeast Filobasidium floriforme.G3 (Bethesda, Md.) · 2022Article
- Metabolic engineering for high yield synthesis of astaxanthin in Xanthophyllomyces dendrorhous.Microbial cell factories · 2021Review
- Multiple Pathways to Homothallism in Closely Related Yeast Lineages in the Basidiomycota.mBio · 2021Article
- The Untapped Australasian Diversity of Astaxanthin-Producing Yeasts with Biotechnological Potential-Microorganisms · 2020Article
- Enhancing astaxanthin accumulation in Xanthophyllomyces dendrorhous by a phytohormone: metabolomic and gene expression profiles.Microbial biotechnology · 2020Article
- Hybrid Heme Peroxidases from Rice Blast FungusAntioxidants (Basel, Switzerland) · 2020Article
- Into the wild: new yeast genomes from natural environments and new tools for their analysis.FEMS yeast research · 2020Review
- Disruption ofFood science and biotechnology · 2019Article
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Authors and funding
8 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe class Tremellomycete (Agaricomycotina) encompasses more than 380 fungi. Although there are a few edible Tremella spp., the only species with current biotechnological use is the astaxanthin-producing yeast Phaffia rhodozyma (Cystofilobasidiales). Besides astaxanthin, a carotenoid pigment with potent antioxidant activity and great value for aquaculture and pharmaceutical industries, P. rhodozyma possesses multiple exceptional traits of fundamental and applied interest. The aim of this study was to obtain, and analyze two new genome sequences of representative strains from the northern (CBS 7918
resultsBoth genomes had ca. 19 Mb and 6000 protein coding genes, similar to CBS 6938. Compared to other fungal genomes P. rhodozyma strains and other Cystofilobasidiales have the highest number of intron-containing genes and highest number of introns per gene. The Patagonian strain showed 4.4 % of nucleotide sequence divergence compared to the European strains which differed from each other by only 0.073 %. All known genes related to the synthesis of astaxanthin were annotated. A hitherto unknown gene cluster potentially responsible for photoprotection (mycosporines) was found in the newly sequenced P. rhodozyma strains but was absent in the non-mycosporinogenic strain CBS 6938. A broad battery of enzymes that act as scavengers of free radical oxygen species were detected, including catalases and superoxide dismutases (SODs). Additionally, genes involved in sexual reproduction were found and annotated.
conclusionsA draft genome sequence of the type strain of P. rhodozyma is now available, and comparison with that of the Patagonian population suggests the latter deserves to be assigned to a distinct variety. An unexpected genetic trait regarding high occurrence of introns in P. rhodozyma and other Cystofilobasidiales was revealed. New genomic insights into fungal homothallism were also provided. The genetic basis of several additional photoprotective and antioxidant strategies were described, indicating that P. rhodozyma is one of the fungi most well-equipped to cope with environmental oxidative stress, a factor that has probably contributed to shaping its genome.
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