Nuclear thioredoxin peroxidase Dot5 in Saccharomyces cerevisiae : roles in oxidative stress response and disruption of telomeric silencing

Izawa, Shingo; Kuroki, Naoko; Inoue, Yoshiharu

doi:10.1007/s00253-003-1421-5

Cited by 13 publications

(6 citation statements)

References 20 publications

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“…In C. cinerea this gene shows a very strong induction in young fruiting body gills, whereas in other species no evidence for a transcript enrichment in gill tissues was found. Finally, we detected orthologs of S. cerevisiae Dot5 ( C. cinerea protein ID: 379600) (Table 39), a thioredoxin (thiol-specific peroxidase) that is involved in the detoxification of peroxides(Cha et al 2003; Izawa et al 2003), but was also reported to be involved in the regulation of telomere length. Thioredoxins, together with peroxiredoxins (thioredoxin peroxidase) make up the thioredoxin system, which acts similarly to the glutaredoxin system in ROS scavenging.…”

Section: Results: Developmentally Expressed Gene Classes In the Agari...mentioning

confidence: 99%

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes

Nagy

Vonk

Künzler

et al. 2021

Preprint

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Fruiting bodies of mushroom-forming fungi (Agaricomycetes) are among the most complex structures produced by fungi. Unlike vegetative hyphae, fruiting bodies grow determinately and follow a genetically encoded developmental program that orchestrates tissue differentiation, growth and sexual sporulation. In spite of more than a century of research, our understanding of the molecular details of fruiting body morphogenesis is limited and a general synthesis on the genetics of this complex process is lacking. In this paper, we aim to comprehensively identify conserved genes related to fruiting body morphogenesis and distill novel functional hypotheses for functionally poorly characterized genes. As a result of this analysis, we report 921 conserved developmentally expressed gene families, only a few dozens of which have previously been reported in fruiting body development. Based on literature data, conserved expression patterns and functional annotations, we provide informed hypotheses on the potential role of these gene families in fruiting body development, yielding the most complete description of molecular processes in fruiting body morphogenesis to date. We discuss genes related to the initiation of fruiting, differentiation, growth, cell surface and cell wall, defense, transcriptional regulation as well as signal transduction. Based on these data we derive a general model of fruiting body development, which includes an early, proliferative phase that is mostly concerned with laying out the mushroom body plan (via cell division and differentiation), and a second phase of growth via cell expansion as well as meiotic events and sporulation. Altogether, our discussions cover 1480 genes of Coprinopsis cinerea, and their orthologs in Agaricus bisporus, Cyclocybe aegerita, Armillaria ostoyae, Auriculariopsis ampla, Laccaria bicolor, Lentinula edodes, Lentinus tigrinus, Mycena kentingensis, Phanerochaete chrysosporium, Pleurotus ostreatus, and Schizophyllum commune, providing functional hypotheses for ~10% of genes in the genomes of these species. Although experimental evidence for the role of these genes will need to be established in the future, our data provide a roadmap for guiding functional analyses of fruiting related genes in the Agaricomycetes. We anticipate that the gene compendium presented here, combined with developments in functional genomics approaches will contribute to uncovering the genetic bases of one of the most spectacular multicellular developmental processes in fungi. Key words: functional annotation; comparative genomics; cell wall remodeling; development; fruiting body morphogenesis; mushroom; transcriptome

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Section: Results: Developmentally Expressed Gene Classes In the Agari...mentioning

confidence: 99%

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes

Nagy

Vonk

Künzler

et al. 2021

Preprint

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“…The list was enriched for both single-stranded and double-stranded telomeric DNA binding proteins ( p = 2.1 × 10 –3 , 3.6 × 10 –3 ), nuclear proteins ( p = 3.0 × 10 –4 ) and chromosome-associated proteins ( p = 2.0 × 10 –3 ), all functions expected for this DNA locus based on its physiological role. Included on the list were several expected proteins, including Orc4 that binds to the ARS, 1 Sir4 involved in telomeric silencing, 25 and Cdc13, 26 Stm1, 27 Top1, 28 Dot5, 29 and Ebs1 30 that are all known to bind to the telomeres. We also identified over 20 other proteins that are involved in DNA and chromosome maintenance and nearly 50 other proteins that are known to localize to the nucleus.…”

Section: Resultsmentioning

confidence: 99%

Discovery of Chromatin-Associated Proteins via Sequence-Specific Capture and Mass Spectrometric Protein Identification in Saccharomyces cerevisiae

Kennedy‐Darling¹,

Guillen-Ahlers

Shortreed³

et al. 2014

J. Proteome Res.

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DNA–protein interactions play critical roles in the control of genome expression and other fundamental processes. An essential element in understanding how these systems function is to identify their molecular components. We present here a novel strategy, Hybridization Capture of Chromatin Associated Proteins for Proteomics (HyCCAPP), to identify proteins that are interacting with any given region of the genome. This technology identifies and quantifies the proteins that are specifically interacting with a genomic region of interest by sequence-specific hybridization capture of the target region from in vivo cross-linked chromatin, followed by mass spectrometric identification and quantification of associated proteins. We demonstrate the utility of HyCCAPP by identifying proteins associated with three multicopy and one single-copy loci in yeast. In each case, a locus-specific pattern of target-associated proteins was revealed. The binding of previously unknown proteins was confirmed by ChIP in 11 of 17 cases. The identification of many previously known proteins at each locus provides strong support for the ability of HyCCAPP to correctly identify DNA-associated proteins in a sequence-specific manner, while the discovery of previously unknown proteins provides new biological insights into transcriptional and regulatory processes at the target locus.

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“…Dot5 (nTPx) is a nuclear 2-Cys Prx, which is most active against alkyl hydroperoxides (Cha et al 2003). However, it has been proposed to play a minor role as an antioxidant, predominantly functioning in telomeric silencing (Izawa et al 2004). Yeast Prx1 is a member of the 1-Cys family of Prx's and is active as a peroxidase (Pedrajas et al 2000).…”

Section: Antioxidant Defensesmentioning

confidence: 99%

The Response to Heat Shock and Oxidative Stress inSaccharomyces cerevisiae

2012

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A common need for microbial cells is the ability to respond to potentially toxic environmental insults. Here we review the progress in understanding the response of the yeast Saccharomyces cerevisiae to two important environmental stresses: heat shock and oxidative stress. Both of these stresses are fundamental challenges that microbes of all types will experience. The study of these environmental stress responses in S. cerevisiae has illuminated many of the features now viewed as central to our understanding of eukaryotic cell biology. Transcriptional activation plays an important role in driving the multifaceted reaction to elevated temperature and levels of reactive oxygen species. Advances provided by the development of whole genome analyses have led to an appreciation of the global reorganization of gene expression and its integration between different stress regimens. While the precise nature of the signal eliciting the heat shock response remains elusive, recent progress in the understanding of induction of the oxidative stress response is summarized here. Although these stress conditions represent ancient challenges to S. cerevisiae and other microbes, much remains to be learned about the mechanisms dedicated to dealing with these environmental parameters.

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Nuclear thioredoxin peroxidase Dot5 in Saccharomyces cerevisiae : roles in oxidative stress response and disruption of telomeric silencing

Cited by 13 publications

References 20 publications

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes

Discovery of Chromatin-Associated Proteins via Sequence-Specific Capture and Mass Spectrometric Protein Identification in Saccharomyces cerevisiae

The Response to Heat Shock and Oxidative Stress inSaccharomyces cerevisiae

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