ArticleBMC genomics2012
High-resolution genome-wide scan of genes, gene-networks and cellular systems impacting the yeast ionome.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
26 citing papers in PubMed.
- Fungal elemental profiling unleashed through rapid laser-induced breakdown spectroscopy (LIBS).mSystems · 2024Article
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- Acrylamide-Derived Ionome, Metabolic, and Cell Cycle Alterations Are Alleviated by Ascorbic Acid in the Fission Yeast.Molecules (Basel, Switzerland) · 2022Article
- Ty1 integrase is composed of an active N-terminal domain and a large disordered C-terminal module dispensable for its activity in vitro.The Journal of biological chemistry · 2021Article
- IonFlow: a galaxy tool for the analysis of ionomics data sets.Metabolomics : Official journal of the Metabolomic Society · 2021Article
- Exploring metal ion metabolisms to improve xylose fermentation in Saccharomyces cerevisiae.Microbial biotechnology · 2021Article
- Off-the-shelf proximity biotinylation for interaction proteomics.Nature communications · 2021Article
- Ionomic Approaches for Discovery of Novel Stress-Resilient Genes in Plants.International journal of molecular sciences · 2021Review
- Disease Ionomics: Understanding the Role of Ions in Complex Disease.International journal of molecular sciences · 2020Review
- Article
- Towards single-cell ionomics: a novel micro-scaled method for multi-element analysis of nanogram-sized biological samples.Plant methods · 2020Article
- Manganese co-localizes with calcium and phosphorus inThe Journal of biological chemistry · 2019Article
- Elemental Metabolomics and Pregnancy Outcomes.Nutrients · 2019Review
- Genomewide association study of ionomic traits on diverse soybean populations from germplasm collections.Plant direct · 2018Article
- Editor's Highlight: A Genome-wide Screening of Target Genes Against Silver Nanoparticles in Fission Yeast.Toxicological sciences : an official journal of the Society of Toxicology · 2018Article
- Designing and interpreting 'multi-omic' experiments that may change our understanding of biology.Current opinion in systems biology · 2017Review
- A systematic assessment of chemical, genetic, and epigenetic factors influencing the activity of anticancer drug KP1019 (FFC14A).Oncotarget · 2017Article
- Mutations in PMR1 stimulate xylose isomerase activity and anaerobic growth on xylose of engineered Saccharomyces cerevisiae by influencing manganese homeostasis.Scientific reports · 2017Article
- Ecological Stoichiometry beyond Redfield: An Ionomic Perspective on Elemental Homeostasis.Frontiers in microbiology · 2017Article
- The New Role for an Old Kinase: Protein Kinase CK2 Regulates Metal Ion Transport.Pharmaceuticals (Basel, Switzerland) · 2016Review
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
backgroundTo balance the demand for uptake of essential elements with their potential toxicity living cells have complex regulatory mechanisms. Here, we describe a genome-wide screen to identify genes that impact the elemental composition ('ionome') of yeast Saccharomyces cerevisiae. Using inductively coupled plasma - mass spectrometry (ICP-MS) we quantify Ca, Cd, Co, Cu, Fe, K, Mg, Mn, Mo, Na, Ni, P, S and Zn in 11890 mutant strains, including 4940 haploid and 1127 diploid deletion strains, and 5798 over expression strains.
resultsWe identified 1065 strains with an altered ionome, including 584 haploid and 35 diploid deletion strains, and 446 over expression strains. Disruption of protein metabolism or trafficking has the highest likelihood of causing large ionomic changes, with gene dosage also being important. Gene over expression produced more extreme ionomic changes, but over expression and loss of function phenotypes are generally not related. Ionomic clustering revealed the existence of only a small number of possible ionomic profiles suggesting fitness tradeoffs that constrain the ionome. Clustering also identified important roles for the mitochondria, vacuole and ESCRT pathway in regulation of the ionome. Network analysis identified hub genes such as PMR1 in Mn homeostasis, novel members of ionomic networks such as SMF3 in vacuolar retrieval of Mn, and cross-talk between the mitochondria and the vacuole. All yeast ionomic data can be searched and downloaded at http://www.ionomicshub.org.
conclusionsHere, we demonstrate the power of high-throughput ICP-MS analysis to functionally dissect the ionome on a genome-wide scale. The information this reveals has the potential to benefit both human health and agriculture.
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