Divergent branches of mitochondrial signaling regulate specific genes and the viability of specialized cell types of differentiated yeast colonies

Podholová, Kristýna; Plocek, Vítězslav; Rešetárová, Stanislava; Kučerová, Helena; Hlaváček, Otakar; Váchová, Libuše; Palková, Zdena

doi:10.18632/oncotarget.8084

Cited by 24 publications

(40 citation statements)

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“…Whereas upper cells are glycolytic with a low respiratory metabolism, lower cells behave oppositely (Palková et al, 2014;Čáp et al, 2015). Lower cells can be further stratified into "upper" and "lower" lower cells (Podholová et al, 2016).…”

Section: Csr2 Regulates Hxt6 Homeostasis In the Context Of A Yeast Comentioning

confidence: 99%

Multilevel regulation of an α-arrestin by glucose depletion controls hexose transporter endocytosis

Hovsepian

Defenouillère

Albanèse

et al. 2017

Journal of Cell Biology

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Section: Csr2 Regulates Hxt6 Homeostasis In the Context Of A Yeast Comentioning

confidence: 99%

Multilevel regulation of an α-arrestin by glucose depletion controls hexose transporter endocytosis

Hovsepian

Defenouillère

Albanèse

et al. 2017

Journal of Cell Biology

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“…Activation, by RTG gene-dependent retrograde signaling (RTG signaling), of expression of genes (such as CIT2 ) involved in anaplerotic pathways was described many years ago in yeast cells grown in liquid cultures [ 15 , 16 ]. However, we recently showed that RTG signaling in colonies is more complex than that described previously and activates expression of different genes in differentiated cells [ 17 ]. We identified three branches of RTG signaling that are specific to U cells (the Ato branch), the upper subpopulation of L cells (the Cit2 branch), and the lower subpopulation of L cells (the cell-viability branch).…”

Section: Introductionmentioning

confidence: 99%

“…We identified three branches of RTG signaling that are specific to U cells (the Ato branch), the upper subpopulation of L cells (the Cit2 branch), and the lower subpopulation of L cells (the cell-viability branch). These signaling branches regulate different gene targets and/or contribute differently to viability of each of the three subpopulations [ 17 ].…”

Section: Introductionmentioning

confidence: 99%

Transcriptome Remodeling of Differentiated Cells during Chronological Ageing of Yeast Colonies: New Insights into Metabolic Differentiation

Wilkinson

Maršíková

Hlaváček

et al. 2018

Oxidative Medicine and Cellular Longevity

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We present the spatiotemporal metabolic differentiation of yeast cell subpopulations from upper, lower, and margin regions of colonies of different ages, based on comprehensive transcriptomic analysis. Furthermore, the analysis was extended to include smaller cell subpopulations identified previously by microscopy within fully differentiated U and L cells of aged colonies. New data from RNA-seq provides both spatial and temporal information on cell metabolic reprogramming during colony ageing and shows that cells at marginal positions are similar to upper cells, but both these cell types are metabolically distinct from cells localized to lower colony regions. As colonies age, dramatic metabolic reprogramming occurs in cells of upper regions, while changes in margin and lower cells are less prominent. Interestingly, whereas clear expression differences were identified between two L cell subpopulations, U cells (which adopt metabolic profiles, similar to those of tumor cells) form a more homogeneous cell population. The data identified crucial metabolic reprogramming events that arise de novo during colony ageing and are linked to U and L cell colony differentiation and support a role for mitochondria in this differentiation process.

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“…Whereas laboratory and domesticated yeast strains form smooth colonies of cells that do not invade the agar and can be separated relatively easily [ 9 , 25 ], wild yeast strains form complex colony biofilms with features of natural biofilms. Cells within colony biofilms are connected by extracellular fibers, and the lower parts of colonies (“roots”) are formed by pseudohyphae.…”

Section: Discussionmentioning

confidence: 99%

Metabolic differentiation of surface and invasive cells of yeast colony biofilms revealed by gene expression profiling

et al. 2017

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BackgroundYeast infections are often connected with formation of biofilms that are extremely difficult to eradicate. An excellent model system for deciphering multifactorial determinants of yeast biofilm development is the colony biofilm, composed of surface (“aerial”) and invasive (“root”) cells. While surface cells have been partially analyzed before, we know little about invasive root cells. In particular, information on the metabolic, chemical and morphogenetic properties of invasive versus surface cells is lacking. In this study, we used a new strategy to isolate invasive cells from agar and extracellular matrix, and employed it to perform genome wide expression profiling and biochemical analyses of surface and invasive cells.ResultsRNA sequencing revealed expression differences in 1245 genes with high statistical significance, indicating large genetically regulated metabolic differences between surface and invasive cells. Functional annotation analyses implicated genes involved in stress defense, peroxisomal fatty acid β-oxidation, autophagy, protein degradation, storage compound metabolism and meiosis as being important in surface cells. In contrast, numerous genes with functions in nutrient transport and diverse synthetic metabolic reactions, including genes involved in ribosome biogenesis, biosynthesis and translation, were found to be important in invasive cells. Variation in gene expression correlated significantly with cell-type specific processes such as autophagy and storage compound accumulation as identified by microscopic and biochemical analyses. Expression profiling also provided indications of cell-specific regulations. Subsequent knockout strain analyses identified Gip2p, a regulatory subunit of type 1 protein phosphatase Glc7p, to be essential for glycogen accumulation in surface cells.ConclusionsThis is the first study reporting genome wide differences between surface and invasive cells of yeast colony biofilms. New findings show that surface and invasive cells display very different physiology, adapting to different conditions in different colony areas and contributing to development and survival of the colony biofilm as a whole. Notably, surface and invasive cells of colony biofilms differ significantly from upper and lower cells of smooth colonies adapted to plentiful laboratory conditions.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-017-4214-4) contains supplementary material, which is available to authorized users.

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Divergent branches of mitochondrial signaling regulate specific genes and the viability of specialized cell types of differentiated yeast colonies

Abstract: ABSTRACT

Cited by 24 publications

References 42 publications

Multilevel regulation of an α-arrestin by glucose depletion controls hexose transporter endocytosis

Multilevel regulation of an α-arrestin by glucose depletion controls hexose transporter endocytosis

Transcriptome Remodeling of Differentiated Cells during Chronological Ageing of Yeast Colonies: New Insights into Metabolic Differentiation

Metabolic differentiation of surface and invasive cells of yeast colony biofilms revealed by gene expression profiling

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