Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

Bellora, Nicolás; Moliné, Martín; David-Palma, Márcia; Coelho, Marco A.; Hittinger, Chris Todd; Sampaio, José Paulo; Gonçalves, Paula; Libkind, Diego

doi:10.1186/s12864-016-3244-7

Cited by 37 publications

(47 citation statements)

References 75 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Each cluster was composed of one pheromone and one pheromone receptor gene (either MFA1/STE3-1 or MFA2/STE3-2; Fig. 3A) (167). In contrast, a single HD1/HD2 gene pair was found in the genome that was not linked to the P/R locus (Fig.…”

Section: Homothallic Breeding System Of Phaffia Rhodozymamentioning

confidence: 99%

“…In contrast, a single HD1/HD2 gene pair was found in the genome that was not linked to the P/R locus (Fig. 2) (167). In elucidating the molecular interactions involved in mating compatibility in P. rhodozyma, David-Palma et al (168) pursued targeted gene replacement of the MAT genes and genetic crosses using single, double, and triple mutants (168).…”

Section: Homothallic Breeding System Of Phaffia Rhodozymamentioning

confidence: 99%

See 1 more Smart Citation

Fungal Sex: The Basidiomycota

et al. 2017

Self Cite

View full text Add to dashboard Cite

show abstract

Section: Homothallic Breeding System Of Phaffia Rhodozymamentioning

confidence: 99%

Section: Homothallic Breeding System Of Phaffia Rhodozymamentioning

confidence: 99%

Fungal Sex: The Basidiomycota

et al. 2017

Self Cite

View full text Add to dashboard Cite

show abstract

“…P. rhodozyma possesses a broad range of genes related to antioxidant defense, a number of which are shared by all eukaryotes, but lacks or exhibits low activity of the cytosolic superoxide dismutase (SOD1 or Cu/Zn SOD). Nevertheless, astaxanthin is considered a primary, uncommon and critical antioxidant protection for this yeast [ 8 , 9 ].…”

Section: Introductionmentioning

confidence: 99%

A common mechanism explains the induction of aerobic fermentation and adaptive antioxidant response in Phaffia rhodozyma

et al. 2018

View full text Add to dashboard Cite

BackgroundGrowth conditions that bring about stress on Phaffia rhodozyma cells encourage the synthesis of astaxanthin, an antioxidant carotenoid, which protects cells against oxidative damage. Using P. rhodozyma cultures performed with and without copper limitation, we examined the kinetics of astaxanthin synthesis along with the expression of asy, the key astaxanthin synthesis gene, as well as aox, which encodes an alternative oxidase protein.ResultsCopper deficiency had a detrimental effect on the rates of oxygen consumption and ethanol reassimilation at the diauxic shift. In contrast, copper deficiency prompted alcoholic fermentation under aerobic conditions and had a favorable effect on the astaxanthin content of cells, as well as on aox expression. Both cultures exhibited strong aox expression while consuming ethanol, but particularly when copper was absent.ConclusionWe show that the induction of either astaxanthin production, aox expression, or aerobic fermentation exemplifies the crucial role that redox imbalance plays in triggering any of these phenomena. Based on our own results and data from others, we propose a mechanism that rationalizes the central role played by changes of respiratory activity, which lead to redox imbalances, in triggering both the short-term antioxidant response as well as fermentation in yeasts and other cell types.

show abstract

“…Understanding these holistic changes will enable us to decipher the correlated metabolite pathways that exist and facilitate the design of new strategies for the exploitation of Xanthophyllomyces as a cell factory for high value isoprenoids. Moreover, important advances in proteomic (Martinez-Moya et al 2011 , 2015 ) and genomic (Bellora et al 2016 ; Sharma et al 2015 ) analysis in Xanthophyllomyces will greatly benefit from associated metabolite analysis in order to evaluate cellular regulation.…”

Section: Discussionmentioning

confidence: 99%

Extending our tools and resources in the non-conventional industrial yeast Xanthophyllomyces dendrorhous through the application of metabolite profiling methodologies

Alcalde

Fraser

2018

Metabolomics

View full text Add to dashboard Cite

IntroductionXanthophyllomyces dendrorhous is a non-conventional industrial yeast. It has the unique ability among yeasts to produce geranylgeranyl pyrophosphate derived terpenoids such as carotenoids and in particular the high value pigment astaxanthin.ObjectiveIn order to fully exploit the industrial potential of Xanthophyllomyces using modern industrial biotechnology approaches the further development of “omic” resources in this organism are required to build on the now sequenced and annotated genome. To contribute to this goal, the present study has developed and implemented an efficient metabolite profiling system comprised of, quenching, extraction and associated GC–MS and UPLC analysis.MethodFour quenching methods and five extraction methods compatible with GC–MS and UPLC profiling were tested and validated by analysing steady state metabolite changes of Xanthophyllomyces cultivated at laboratory scale in liquid shake culture at lag, exponential and early and late stationary phases.ResultsA customised Automated Mass Spectral Deconvolution and Identification System (AMDIS) library has been created for Xanthophyllomyces, over 400 compounds are present in the library of which 78 are detected and quantified routinely in polar and non-polar derived extracts. A preliminary biochemical network has been constructed. Over a standardised laboratory growth cycle, changes in metabolite levels have been determined to create reference point for future strain improvement approaches and the initial biochemical network construction. Correlation analysis has illustrated that astaxanthin formation correlates positively with different sectors of intermediary metabolism (e.g. the TCA cycle intermediates and amino acid formation), “short” saturated fatty acids and β-carotene, while other metabolites are reduced in response to astaxanthin production. These sectors of intermediary metabolism offer potential future targets for the manipulation resulting in the generation of strains with improved titres of given terpenoids.DiscussionIn summary a robust metabolite profiling system for Xanthophyllomyces is in place to further our understanding and potential exploitation of this underutilised industrial yeast.Electronic supplementary materialThe online version of this article (10.1007/s11306-017-1313-9) contains supplementary material, which is available to authorized users.

show abstract

Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

Cited by 37 publications

References 75 publications

Fungal Sex: The Basidiomycota

Fungal Sex: The Basidiomycota

A common mechanism explains the induction of aerobic fermentation and adaptive antioxidant response in Phaffia rhodozyma

Extending our tools and resources in the non-conventional industrial yeast Xanthophyllomyces dendrorhous through the application of metabolite profiling methodologies

Contact Info

Product

Resources

About