Structural insights into RNA recognition properties of glyceraldehyde‐3‐phosphate dehydrogenase 3 from <i>Saccharomyces cerevisiae</i>

Shen, Hui; Wang, Hong; Liu, Qiao; Liu, Huihui; Teng, Maikun; Xu, Li

doi:10.1002/iub.1313

Cited by 10 publications

(5 citation statements)

References 29 publications

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“…29 The Sc GAPDH3 protein was shown to weakly bind AU-rich or Poly(A) RNA in vitro (K D of ~110-150 μM), but not Poly(U). 127 In contrast to mammalian GAPDH, Sc GAPDH3 showed higher affinity for shorter RNA with only one or two AUUUA motifs. In yeast cells, the GAPDH2 isoform was identified in a cross-link to an AU dinucleotide by mass spectrometry.…”

Section: Gapdh-rna Interactions Are Conserved In Other Speciesmentioning

confidence: 93%

“…Early studies showed that the Saccharomyces cerevisiae basic GAPDH isoform ( Sc GAPDH1) bound to poly(U) RNA and had a strong nucleic acid‐helix destabilizing effect . The Sc GAPDH3 protein was shown to weakly bind AU‐rich or Poly(A) RNA in vitro ( K D of ~110–150 μM), but not Poly(U) . In contrast to mammalian GAPDH, Sc GAPDH3 showed higher affinity for shorter RNA with only one or two AUUUA motifs.…”

Section: Gapdh–rna Interactions Are Conserved In Other Speciesmentioning

confidence: 99%

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The sweet side ofRNAregulation: glyceraldehyde‐3‐phosphate dehydrogenase as a noncanonicalRNA‐binding protein

White

Garcin

2015

WIREs RNA

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The glycolytic protein, glyceraldehyde-3-phosphate dehydrogenase (GAPDH), has a vast array of extraglycolytic cellular functions, including interactions with nucleic acids. GAPDH has been implicated in the translocation of transfer RNA (tRNA), the regulation of cellular messenger RNA (mRNA) stability and translation, as well as the regulation of replication and gene expression of many single-stranded RNA viruses. A growing body of evidence supports GAPDH–RNA interactions serving as part of a larger coordination between intermediary metabolism and RNA biogenesis. Despite the established role of GAPDH in nucleic acid regulation, it is still unclear how and where GAPDH binds to its RNA targets, highlighted by the absence of any conserved RNA-binding sequences. This review will summarize our current understanding of GAPDH-mediated regulation of RNA function.

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Section: Gapdh-rna Interactions Are Conserved In Other Speciesmentioning

confidence: 93%

Section: Gapdh–rna Interactions Are Conserved In Other Speciesmentioning

confidence: 99%

The sweet side ofRNAregulation: glyceraldehyde‐3‐phosphate dehydrogenase as a noncanonicalRNA‐binding protein

White

Garcin

2015

WIREs RNA

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“…TDH3 encodes an isozyme of the yeast glyceraldehyde-3-phosphate dehydrogenase (GAPDH) involved in glycolysis and gluconeogenesis ( McAlister and Holland, 1985 ) as well as transcriptional silencing ( Ringel et al, 2013 ), RNA-binding ( Shen et al, 2014 ) and possibly antimicrobial defense ( Branco et al, 2014 ). Variation in this gene’s promoter affecting expression noise has previously been shown to be a target of selection in natural populations ( Metzger et al, 2015 ).…”

Section: Introductionmentioning

confidence: 99%

Fitness effects of altering gene expression noise in Saccharomyces cerevisiae

Duveau

Hodgins‐Davis

Metzger

et al. 2018

eLife

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Gene expression noise is an evolvable property of biological systems that describes differences in expression among genetically identical cells in the same environment. Prior work has shown that expression noise is heritable and can be shaped by selection, but the impact of variation in expression noise on organismal fitness has proven difficult to measure. Here, we quantify the fitness effects of altering expression noise for the TDH3 gene in Saccharomyces cerevisiae. We show that increases in expression noise can be deleterious or beneficial depending on the difference between the average expression level of a genotype and the expression level maximizing fitness. We also show that a simple model relating single-cell expression levels to population growth produces patterns consistent with our empirical data. We use this model to explore a broad range of average expression levels and expression noise, providing additional insight into the fitness effects of variation in expression noise.

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“…Glyceraldehyde 3-phosphate dehydrogenase (GAPDH), an important enzyme in the carbohydrate metabolism, is responsible for the oxidative phosphorylation of glyceraldehyde-3-phosphate into 1-3-diphosphoglycerate in the presence of nicotinamide adenine dinucleotide (NAD + ). Despite its importance for glycolysis and gluconeogenesis, studies have presented other roles of GAPDH such as DNA replication and repair, membrane fusion and transport and tRNA export, [42].…”

Section: Resultsmentioning

confidence: 99%

Proteome and fermentative parameters of Saccharomyces cerevisiae CAT-1 under Very High Gravity Fermentation (VHGF) using sugarcane juice

2017

J App Biol Biotech

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Alcoholic fermentation is an important process in the modern world, allowing the production of ethanol for several applications. Different Saccharomyces cerevisiae strains have been used for this purpose, such as CAT-1, a strain resistant to different stress factors. Hence, our aim was to analyze some fermentative parameters and the proteome of S. cerevisae CAT-1 under Very High Gravity Fermentation (VHGF) using sugarcane juice as fermentative medium. The yeast was cultured in the must with the sucrose concentration adjusted to 2%, 14%, 21% and 30%, for 10 h at 30 ºC. The cell viability was 96-100% for all sucrose concentrations analyzed and the biomass increased for each condition as time function. The highest ethanol recovery was obtained under 30% sucrose. Considering the S. cerevisiae CAT-1 proteome under 14% and 30% sucrose, qualitative and quantitative differences were found in the protein expression. Important enzymes for fermentation, such as enolase and one alcohol dehydrogenase isoform were more expressed at 30% sucrose than with 14% sucrose. The yeast S. cerevisiae CAT-1 is an interesting strain to be used for fermentation under VHGF technology using sugarcane juice, allowing high ethanol recovery with increased expression of proteins related to alcoholic fermentation and viability as well.

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Structural insights into RNA recognition properties of glyceraldehyde‐3‐phosphate dehydrogenase 3 from Saccharomyces cerevisiae

Cited by 10 publications

References 29 publications

The sweet side ofRNAregulation: glyceraldehyde‐3‐phosphate dehydrogenase as a noncanonicalRNA‐binding protein

The sweet side ofRNAregulation: glyceraldehyde‐3‐phosphate dehydrogenase as a noncanonicalRNA‐binding protein

Fitness effects of altering gene expression noise in Saccharomyces cerevisiae

Proteome and fermentative parameters of Saccharomyces cerevisiae CAT-1 under Very High Gravity Fermentation (VHGF) using sugarcane juice

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