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Negative effects characterization and comparative transcriptomics elucidation on the lag phase of an industrial S. cerevisiae under the corn stover hydrolysate stress

https://doi.org/10.1101/2020.03.16.994723
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Sfl1 functions via the co-repressor Ssn6-Tup1 and the cAMP-dependent protein kinase Tpk2
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Engineering and Evolution of Saccharomyces cerevisiae to Produce Biofuels and Chemicals
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The diversity of the DnaJ/Hsp40 family, the crucial partners for Hsp70 chaperones
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A new method for isolation of S-adenosylmethionine (SAM)-accumulating yeast
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Molecular mechanisms of yeast tolerance and in situ detoxification of lignocellulose hydrolysates
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SUMO expression shortens the lag phase of Saccharomyces cerevisiae yeast growth caused by complex interactive effects of major mixed fermentation inhibitors found in hot-compressed water-treated lignocellulosic hydrolysate
inferredcites →https://doi.org/10.1007/s00253-018-8993-6openalex-snapshot
Understanding the tolerance of the industrial yeast Saccharomyces cerevisiae against a major class of toxic aldehyde compounds
inferredcites →https://doi.org/10.1007/s00253-018-9478-3openalex-snapshot
Molecular and physiological basis of Saccharomyces cerevisiae tolerance to adverse lignocellulose-based process conditions
inferredcites →https://doi.org/10.1007/s00294-007-0136-zopenalex-snapshot
Sfl1p acts as an activator of the HSP30 gene in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1007/s00294-014-0445-yopenalex-snapshot
Purifying selection against gene conversions between the polyamine transport (TPO) genes of Saccharomyces species
inferredcites →https://doi.org/10.1007/s00294-019-00972-0openalex-snapshot
Cross-talk in NAD+ metabolism: insights from Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1007/s00726-007-0513-4openalex-snapshot
Spermine and spermidine mediate protection against oxidative damage caused by hydrogen peroxide
inferredcites →https://doi.org/10.1007/s10529-010-0330-9openalex-snapshot
Selection of Saccharomyces cerevisiae strains for efficient very high gravity bio-ethanol fermentation processes
inferredcites →https://doi.org/10.1007/s11120-006-9096-2openalex-snapshot
Thioredoxins, glutaredoxins, and glutathionylation: new crosstalks to explore
inferredcites →https://doi.org/10.1007/s11274-017-2259-9openalex-snapshot
Omics analysis of acetic acid tolerance in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1007/s12010-014-1188-4openalex-snapshot
Oxidative Stress Protection and Glutathione Metabolism in Response to Hydrogen Peroxide and Menadione in Riboflavinogenic Fungus Ashbya gossypii
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Fatty acid synthesis and elongation in yeast
inferredcites →https://doi.org/10.1016/j.bbamcr.2011.09.020openalex-snapshot
Evolution and function of diverse Hsp90 homologs and cochaperone proteins
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Alternatives for detoxification of diluted-acid lignocellulosic hydrolyzates for use in fermentative processes: a review
inferredcites →https://doi.org/10.1016/j.biortech.2011.05.043openalex-snapshot
Removal of enzymatic and fermentation inhibitory compounds from biomass slurries for enhanced biorefinery process efficiencies
inferredcites →https://doi.org/10.1016/j.biortech.2014.03.043openalex-snapshot
Industrial robust yeast isolates with great potential for fermentation of lignocellulosic biomass
inferredcites →https://doi.org/10.1016/j.biortech.2018.08.005openalex-snapshot
Efficiency of dilute sulfuric acid pretreatment of distillery stillage in the production of cellulosic ethanol
inferredcites →https://doi.org/10.1016/j.jbiotec.2009.05.001openalex-snapshot
Mechanisms of yeast stress tolerance and its manipulation for efficient fuel ethanol production
inferredcites →https://doi.org/10.1016/j.molcel.2006.06.025openalex-snapshot
Constraining G1-Specific Transcription to Late G1 Phase: The MBF-Associated Corepressor Nrm1 Acts via Negative Feedback
inferredcites →https://doi.org/10.1016/j.molcel.2010.08.001openalex-snapshot
Hsp12 Is an Intrinsically Unstructured Stress Protein that Folds upon Membrane Association and Modulates Membrane Function
inferredcites →https://doi.org/10.1016/j.pbi.2009.12.009openalex-snapshot
Plant cell wall polymers as precursors for biofuels
inferredcites →https://doi.org/10.1016/j.ymben.2015.02.004openalex-snapshot
Enhanced tolerance of Saccharomyces cerevisiae to multiple lignocellulose-derived inhibitors through modulation of spermidine contents
inferredcites →https://doi.org/10.1016/s0021-9258(19)77815-6openalex-snapshot
Glutathione metabolism and its selective modification.
inferredcites →https://doi.org/10.1016/s0092-8674(03)00116-8openalex-snapshot
Mitochondria
inferredcites →https://doi.org/10.1016/s0168-6445(03)00017-2openalex-snapshot
The biochemistry of peroxisomal β-oxidation in the yeastSaccharomyces cerevisiae
inferredcites →https://doi.org/10.1016/s1357-2725(99)00139-9openalex-snapshot
S-Adenosylmethionine
inferredcites →https://doi.org/10.1038/35017589openalex-snapshot
Forkhead-like transcription factors recruit Ndd1 to the chromatin of G2/M-specific promoters
inferredcites →https://doi.org/10.1038/cr.2010.146openalex-snapshot
Identifying cooperative transcription factors by combining ChIP-chip data and knockout data
inferredcites →https://doi.org/10.1038/ncb1174openalex-snapshot
Hog1 mediates cell-cycle arrest in G1 phase by the dual targeting of Sic1
inferredcites →https://doi.org/10.1038/ncb2549openalex-snapshot
Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress
inferredcites →https://doi.org/10.1038/srep06556openalex-snapshot
Genomic and transcriptome analyses reveal that MAPK- and phosphatidylinositol-signaling pathways mediate tolerance to 5-hydroxymethyl-2-furaldehyde for industrial yeast Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1042/bj20060034openalex-snapshot
Saccharomyces cerevisiae cells have three Omega class glutathione S-transferases acting as 1-Cys thiol transferases
inferredcites →https://doi.org/10.1046/j.1365-2958.2000.01968.xopenalex-snapshot
GUP1 and its close homologue GUP2, encoding multimembrane‐spanning proteins involved in active glycerol uptake in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1046/j.1365-2958.2002.03174.xopenalex-snapshot
Glutathione regulates the expression of γ‐glutamylcysteine synthetase via the Met4 transcription factor
inferredcites →https://doi.org/10.1074/jbc.273.44.28713openalex-snapshot
Regulation of Zinc Homeostasis in Yeast by Binding of the ZAP1 Transcriptional Activator to Zinc-responsive Promoter Elements
inferredcites →https://doi.org/10.1074/jbc.274.30.21029openalex-snapshot
Distinct Regions of the Swi5 and Ace2 Transcription Factors Are Required for Specific Gene Activation
inferredcites →https://doi.org/10.1074/jbc.275.12.8290openalex-snapshot
The Transcriptional Response of Saccharomyces cerevisiae to Osmotic Shock
inferredcites →https://doi.org/10.1074/jbc.m004248200openalex-snapshot
Regulation of the Balance of One-carbon Metabolism inSaccharomyces cerevisiae
inferredcites →https://doi.org/10.1074/jbc.m005392200openalex-snapshot
Characterization of the Saccharomyces cerevisiae High Affinity Copper Transporter Ctr3
inferredcites →https://doi.org/10.1074/jbc.m105672200openalex-snapshot
Saccharomyces cerevisiae Expresses Three Phospholipid Hydroperoxide Glutathione Peroxidases
inferredcites →https://doi.org/10.1074/jbc.m411062200openalex-snapshot
Pkc1 and the Upstream Elements of the Cell Integrity Pathway in Saccharomyces cerevisiae, Rom2 and Mtl1, Are Required for Cellular Responses to Oxidative Stress
inferredcites →https://doi.org/10.1074/jbc.m502854200openalex-snapshot
A Chaperone Pathway in Protein Disaggregation
inferredcites →https://doi.org/10.1074/jbc.m611105200openalex-snapshot
Polyamine Uptake by DUR3 and SAM3 in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1080/03601234.2014.868683openalex-snapshot
Tolerance ofS. cerevisiaeandZ. mobilisto inhibitors produced during dilute acid hydrolysis of soybean meal
inferredcites →https://doi.org/10.1089/omi.2011.0003openalex-snapshot
Metabolomic Study of Interactive Effects of Phenol, Furfural, and Acetic Acid on Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1091/mbc.11.12.4241openalex-snapshot
Genomic Expression Programs in the Response of Yeast Cells to Environmental Changes
inferredcites →https://doi.org/10.1091/mbc.12.1.53openalex-snapshot
Regulation of Cell Cycle Progression by Swe1p and Hog1p Following Hypertonic Stress
inferredcites →https://doi.org/10.1091/mbc.9.5.1081openalex-snapshot
The YeastSaccharomyces cerevisiaeContains Two Glutaredoxin Genes That Are Required for Protection against Reactive Oxygen Species
inferredcites →https://doi.org/10.1091/mbc.e02-04-0201openalex-snapshot
Pkh1 and Pkh2 Differentially Phosphorylate and Activate Ypk1 and Ykr2 and Define Protein Kinase Modules Required for Maintenance of Cell Wall Integrity
inferredcites →https://doi.org/10.1093/emboj/cdg353openalex-snapshot
A docking site determining specificity of Pbs2 MAPKK for Ssk2/Ssk22 MAPKKKs in the yeast HOG pathway
inferredcites →https://doi.org/10.1093/femsle/fnx080openalex-snapshot
Functional relevance of water and glycerol channels in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1093/femsyr/foy106openalex-snapshot
Elucidating cellular mechanisms of Saccharomyces cerevisiae tolerant to combined lignocellulosic-derived inhibitors using high-throughput phenotyping and multiomics analyses
inferredcites →https://doi.org/10.1093/genetics/113.2.229openalex-snapshot
GENETIC AND MOLECULAR ANALYSIS OF THE GAL3 GENE IN THE EXPRESSION OF THE GALACTOSE/MELIBIOSE REGULON OF SACCHAROMYCES CEREVISIAE
inferredcites →https://doi.org/10.1093/genetics/151.3.989openalex-snapshot
Fus3p and Kss1p Control G1 Arrest in Saccharomyces cerevisiae Through a Balance of Distinct Arrest and Proliferative Functions That Operate in Parallel With Far1p
inferredcites →https://doi.org/10.1093/nar/28.16.3160openalex-snapshot
Combinatorial regulation of phospholipid biosynthetic gene expression by the UME6, SIN3 and RPD3 genes
inferredcites →https://doi.org/10.1093/nar/gkh894openalex-snapshot
The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomes
inferredcites →https://doi.org/10.1093/nar/gkq1019openalex-snapshot
The Sequence Read Archive
inferredcites →https://doi.org/10.1099/00221287-148-8-2599openalex-snapshot
Protective role of trehalose during severe oxidative stress caused by hydrogen peroxide and the adaptive oxidative stress response in Candida albicans
inferredcites →https://doi.org/10.1101/gad.1034302openalex-snapshot
Conserved homeodomain proteins interact with MADS box protein Mcm1 to restrict ECB-dependent transcription to the M/G1 phase of the cell cycle
inferredcites →https://doi.org/10.1101/gad.8.24.2974openalex-snapshot
Elements of a single MAP kinase cascade in Saccharomyces cerevisiae mediate two developmental programs in the same cell type: mating and invasive growth.
inferredcites →https://doi.org/10.1101/gr.091777.109openalex-snapshot
Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production
inferredcites →https://doi.org/10.1111/j.1365-2958.2004.04238.xopenalex-snapshot
Rck1 and Rck2 MAPKAP kinases and the HOG pathway are required for oxidative stress resistance
inferredcites →https://doi.org/10.1111/j.1365-2958.2010.07502.xopenalex-snapshot
Repression of ergosterol biosynthesis is essential for stress resistance and is mediated by the Hog1 MAP kinase and the Mot3 and Rox1 transcription factors
inferredcites →https://doi.org/10.1111/j.1567-1364.2009.00549.xopenalex-snapshot
Critical role ofRPI1 in the stress tolerance of yeast during ethanolic fermentation
inferredcites →https://doi.org/10.1128/aac.42.5.1034openalex-snapshot
Identification ofSaccharomyces cerevisiaeGenes Conferring Resistance to Quinoline Ring-Containing Antimalarial Drugs
inferredcites →https://doi.org/10.1128/aem.02594-08openalex-snapshot
Comparative Proteomic Analysis of Tolerance and Adaptation of EthanologenicSaccharomyces cerevisiaeto Furfural, a Lignocellulosic Inhibitory Compound
inferredcites →https://doi.org/10.1128/mcb.02053-05openalex-snapshot
Regulation of Mating and Filamentation Genes by Two Distinct Ste12 Complexes in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1128/mcb.17.5.2615openalex-snapshot
Characterization of a Serum Response Factor-Like Protein in Saccharomyces cerevisiae , Rlm1, Which Has Transcriptional Activity Regulated by the Mpk1 (Slt2) Mitogen-Activated Protein Kinase Pathway
inferredcites →https://doi.org/10.1128/mcb.17.7.3640openalex-snapshot
Met31p and Met32p, Two Related Zinc Finger Proteins, Are Involved in Transcriptional Regulation of Yeast Sulfur Amino Acid Metabolism
inferredcites →https://doi.org/10.1128/mcb.19.11.7651openalex-snapshot
Differential Regulation of the Cell Wall Integrity Mitogen-Activated Protein Kinase Pathway in Budding Yeast by the Protein Tyrosine Phosphatases Ptp2 and Ptp3
inferredcites →https://doi.org/10.1128/mmbr.05018-11openalex-snapshot
Biology of the Heat Shock Response and Protein Chaperones: Budding Yeast (Saccharomyces cerevisiae) as a Model System
inferredcites →https://doi.org/10.1152/physrev.00026.2013openalex-snapshot
Mitochondrial Reactive Oxygen Species (ROS) and ROS-Induced ROS Release
inferredcites →https://doi.org/10.1186/1471-2164-11-660openalex-snapshot
Comparative transcriptome profiling analyses during the lag phase uncover YAP1, PDR1, PDR3, RPN4, and HSF1 as key regulatory genes in genomic adaptation to the lignocellulose derived inhibitor HMF for Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1186/1471-2180-10-169openalex-snapshot
Quantitative transcription dynamic analysis reveals candidate genes and key regulators for ethanol tolerance in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1186/1472-6750-14-22openalex-snapshot
Identifying inhibitory compounds in lignocellulosic biomass hydrolysates using an exometabolomics approach
inferredcites →https://doi.org/10.1186/1475-2859-9-79openalex-snapshot
Genome-wide identification of Saccharomyces cerevisiae genes required for tolerance to acetic acid
inferredcites →https://doi.org/10.1186/1754-6834-3-2openalex-snapshot
Furfural induces reactive oxygen species accumulation and cellular damage in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1186/1754-6834-7-23openalex-snapshot
Characterization of pilot-scale dilute acid pretreatment performance using deacetylated corn stover
inferredcites →https://doi.org/10.1186/s13065-017-0331-zopenalex-snapshot
Acidic and enzymatic saccharification of waste agricultural biomass for biotechnological production of xylitol
inferredcites →https://doi.org/10.1186/s13068-015-0418-5openalex-snapshot
Transcriptional profiling reveals molecular basis and novel genetic targets for improved resistance to multiple fermentation inhibitors in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1186/s13068-016-0614-yopenalex-snapshot
Phenotypic characterization and comparative transcriptomics of evolved Saccharomyces cerevisiae strains with improved tolerance to lignocellulosic derived inhibitors
inferredcites →https://doi.org/10.1186/s13068-019-1456-1openalex-snapshot
Enhanced acetic acid stress tolerance and ethanol production in Saccharomyces cerevisiae by modulating expression of the de novo purine biosynthesis genes
inferredcites →https://doi.org/10.1186/s13068-019-1510-zopenalex-snapshot
Transcriptomic analysis of the oleaginous yeast Lipomyces starkeyi during lipid accumulation on enzymatically treated corn stover hydrolysate
inferredcites →https://doi.org/10.1242/jeb.01730openalex-snapshot
Organic osmolytes as compatible, metabolic and counteracting cytoprotectants in high osmolarity and other stresses
inferredcites →https://doi.org/10.1371/journal.pgen.1003854openalex-snapshot
Xbp1 Directs Global Repression of Budding Yeast Transcription during the Transition to Quiescence and Is Important for the Longevity and Reversibility of the Quiescent State
inferredcites →https://doi.org/10.1371/journal.pone.0019060openalex-snapshot
The Stress Response Factors Yap6, Cin5, Phd1, and Skn7 Direct Targeting of the Conserved Co-Repressor Tup1-Ssn6 in S. cerevisiae
inferredcites →https://doi.org/10.1371/journal.pone.0078920openalex-snapshot
Multiple MAPK Cascades Regulate the Transcription of IME1, the Master Transcriptional Activator of Meiosis in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1371/journal.pone.0164678openalex-snapshot
Crystal Structure of Saccharomyces cerevisiae ECM4, a Xi-Class Glutathione Transferase that Reacts with Glutathionyl-(hydro)quinones
inferredcites →https://doi.org/10.14348/molcells.2018.2214openalex-snapshot
Mechanisms and Physiological Roles of Mitophagy in Yeast.
inferredcites →https://doi.org/10.1534/g3.112.004127openalex-snapshot
Natural Variation in the Yeast Glucose-Signaling Network Reveals a New Role for the Mig3p Transcription Factor
inferredcites →https://doi.org/10.1534/genetics.111.128033openalex-snapshot
The Response to Heat Shock and Oxidative Stress in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1534/genetics.112.140863openalex-snapshot
Response to Hyperosmotic Stress
inferredcites →https://doi.org/10.2174/0929866525666180122144504openalex-snapshot
Lignocellulosic Biomass: A Sustainable Bioenergy Source for the Future
inferredcites →https://doi.org/10.3389/fchem.2013.00042openalex-snapshot
Stress and polyamine metabolism in fungi
inferredcites →https://doi.org/10.3389/fmicb.2018.00274openalex-snapshot
Adaptive Response and Tolerance to Acetic Acid in Saccharomyces cerevisiae and Zygosaccharomyces bailii: A Physiological Genomics Perspective
inferredcites →https://doi.org/10.3390/ma9080635openalex-snapshot
Redefining Agricultural Residues as Bioenergy Feedstocks

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inferred← citeshttps://doi.org/10.21203/rs.3.rs-3631957/v1openalex-snapshot
Response mechanisms of Candida tropicalis incubated with a dilute acid hydrolysate from corn stover
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