Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica
Abstract
Yarrowia lipolytica is an oleaginous ascomycete yeast that stores lipids in response to limitation of nitrogen. Furthermore, while the enzymatic pathways responsible for neutral lipid accumulation in Y. lipolytica are well characterized, regulation of these pathways has received little attention. We therefore sought to characterize the response to nitrogen limitation at system-wide levels, including the proteome, phosphoproteome and metabolome, to better understand how this organism regulates and controls lipid metabolism and to identify targets that may be manipulated to improve lipid yield.
- Authors:
- Publication Date:
- Research Org.:
- Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1618542
- Alternate Identifier(s):
- OSTI ID: 1249359
- Report Number(s):
- PNNL-SA-112784
Journal ID: ISSN 1471-2164; 138; PII: 2471
- Grant/Contract Number:
- SC0008744; AC05-76RL01830
- Resource Type:
- Published Article
- Journal Name:
- BMC Genomics
- Additional Journal Information:
- Journal Name: BMC Genomics Journal Volume: 17 Journal Issue: 1; Journal ID: ISSN 1471-2164
- Publisher:
- Springer Science + Business Media
- Country of Publication:
- United Kingdom
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Yarrowia lipolytica; lipid; proteome; metabolome; phosphorylation; phosphoproteome; nitrogen regulation; beta-oxidation; ribosome biogenesis; translation
Citation Formats
Pomraning, Kyle R., Kim, Young-Mo, Nicora, Carrie D., Chu, Rosalie K., Bredeweg, Erin L., Purvine, Samuel O., Hu, Dehong, Metz, Thomas O., and Baker, Scott E. Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica. United Kingdom: N. p., 2016.
Web. doi:10.1186/s12864-016-2471-2.
Pomraning, Kyle R., Kim, Young-Mo, Nicora, Carrie D., Chu, Rosalie K., Bredeweg, Erin L., Purvine, Samuel O., Hu, Dehong, Metz, Thomas O., & Baker, Scott E. Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica. United Kingdom. https://doi.org/10.1186/s12864-016-2471-2
Pomraning, Kyle R., Kim, Young-Mo, Nicora, Carrie D., Chu, Rosalie K., Bredeweg, Erin L., Purvine, Samuel O., Hu, Dehong, Metz, Thomas O., and Baker, Scott E. Thu .
"Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica". United Kingdom. https://doi.org/10.1186/s12864-016-2471-2.
@article{osti_1618542,
title = {Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica},
author = {Pomraning, Kyle R. and Kim, Young-Mo and Nicora, Carrie D. and Chu, Rosalie K. and Bredeweg, Erin L. and Purvine, Samuel O. and Hu, Dehong and Metz, Thomas O. and Baker, Scott E.},
abstractNote = {Yarrowia lipolytica is an oleaginous ascomycete yeast that stores lipids in response to limitation of nitrogen. Furthermore, while the enzymatic pathways responsible for neutral lipid accumulation in Y. lipolytica are well characterized, regulation of these pathways has received little attention. We therefore sought to characterize the response to nitrogen limitation at system-wide levels, including the proteome, phosphoproteome and metabolome, to better understand how this organism regulates and controls lipid metabolism and to identify targets that may be manipulated to improve lipid yield.},
doi = {10.1186/s12864-016-2471-2},
journal = {BMC Genomics},
number = 1,
volume = 17,
place = {United Kingdom},
year = {Thu Feb 25 00:00:00 EST 2016},
month = {Thu Feb 25 00:00:00 EST 2016}
}
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Works referenced in this record:
B lineage--specific interactions of an immunoglobulin enhancer with cellular factors in vivo
journal, January 1985
- Ephrussi, A.; Church, G.; Tonegawa, S.
- Science, Vol. 227, Issue 4683
3-Amino-2-piperidone in the urine of patients with hyperornithinemia
journal, August 1978
- Oberholzer, Victor G.; Briddon, Anthony
- Clinica Chimica Acta, Vol. 87, Issue 3
Yarrowia lipolytica: A model and a tool to understand the mechanisms implicated in lipid accumulation
journal, June 2009
- Beopoulos, Athanasios; Chardot, Thierry; Nicaud, Jean-Marc
- Biochimie, Vol. 91, Issue 6
Magnetic Bead Processor for Rapid Evaluation and Optimization of Parameters for Phosphopeptide Enrichment
journal, June 2009
- Ficarro, Scott B.; Adelmant, Guillaume; Tomar, Maria N.
- Analytical Chemistry, Vol. 81, Issue 11
The regulatory gene areA mediating nitrogen metabolite repression in Aspergillus nidulans. Mutations affecting specificity of gene activation alter a loop residue of a putative zinc finger.
journal, May 1990
- Kudla, B.; Caddick, M. X.; Langdon, T.
- The EMBO Journal, Vol. 9, Issue 5
Glutamate synthase levels in Neurospora crassa mutants altered with respect to nitrogen metabolism.
journal, February 1981
- Dunn-Coleman, N. S.; Robey, E. A.; Tomsett, A. B.
- Molecular and Cellular Biology, Vol. 1, Issue 2
Stb3 Binds to Ribosomal RNA Processing Element Motifs That Control Transcriptional Responses to Growth in Saccharomyces cerevisiae
journal, July 2007
- Liko, Dritan; Slattery, Matthew G.; Heideman, Warren
- Journal of Biological Chemistry, Vol. 282, Issue 36
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
journal, January 2009
- Langmead, Ben; Trapnell, Cole; Pop, Mihai
- Genome Biology, Vol. 10, Issue 3
Data, information, knowledge and principle: back to metabolism in KEGG
journal, November 2013
- Kanehisa, Minoru; Goto, Susumu; Sato, Yoko
- Nucleic Acids Research, Vol. 42, Issue D1
Two different, adjacent and divergent zinc finger binding sites are necessary for CREA-mediated carbon catabolite repression in the proline gene cluster of Aspergillus nidulans.
journal, January 1994
- Cubero, B.; Scazzocchio, C.
- The EMBO Journal, Vol. 13, Issue 2
Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation
journal, June 2013
- Swaney, Danielle L.; Beltrao, Pedro; Starita, Lea
- Nature Methods, Vol. 10, Issue 7
Improving Production of Malonyl Coenzyme A-Derived Metabolites by Abolishing Snf1-Dependent Regulation of Acc1
journal, May 2014
- Shi, Shuobo; Chen, Yun; Siewers, Verena
- mBio, Vol. 5, Issue 3
Lipid particle composition of the yeast Yarrowia lipolytica depends on the carbon source
journal, March 2006
- Athenstaedt, Karin; Jolivet, Pascale; Boulard, Céline
- PROTEOMICS, Vol. 6, Issue 5, p. 1450-1459
The PhosphoGRID Saccharomyces cerevisiae protein phosphorylation site database: version 2.0 update
journal, January 2013
- Sadowski, I.; Breitkreutz, B. -J.; Stark, C.
- Database, Vol. 2013, Issue 0
Defining the sequence specificity of DNA-binding proteins by selecting binding sites from random-sequence oligonucleotides: analysis of yeast GCN4 protein.
journal, July 1989
- Oliphant, A. R.; Brandl, C. J.; Struhl, K.
- Molecular and Cellular Biology, Vol. 9, Issue 7
DtaRefinery, a Software Tool for Elimination of Systematic Errors from Parent Ion Mass Measurements in Tandem Mass Spectra Data Sets
journal, December 2009
- Petyuk, Vladislav A.; Mayampurath, Anoop M.; Monroe, Matthew E.
- Molecular & Cellular Proteomics, Vol. 9, Issue 3
Saccharomyces cerevisiae Yak1p protein kinase autophosphorylates on tyrosine residues and phosphorylates myelin basic protein on a C-terminal serine residue
journal, May 2000
- Kassis, Shouki; Melhuish, Tiffany; Annan, Roland S.
- Biochemical Journal, Vol. 348, Issue 2
Chemically Etched Open Tubular and Monolithic Emitters for Nanoelectrospray Ionization Mass Spectrometry
journal, November 2006
- Kelly, Ryan T.; Page, Jason S.; Luo, Quanzhou
- Analytical Chemistry, Vol. 78, Issue 22, p. 7796-7801
Structural basis for the inhibition of the eukaryotic ribosome
journal, September 2014
- Garreau de Loubresse, Nicolas; Prokhorova, Irina; Holtkamp, Wolf
- Nature, Vol. 513, Issue 7519
How Saccharomyces Responds to Nutrients
journal, December 2008
- Zaman, Shadia; Lippman, Soyeon Im; Zhao, Xin
- Annual Review of Genetics, Vol. 42, Issue 1
UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
journal, January 2009
- Newburger, D. E.; Bulyk, M. L.
- Nucleic Acids Research, Vol. 37, Issue Database
Subtle hydrophobic interactions between the seventh residue of the zinc finger loop and the first base of an HGATAR sequence determine promoter-specific recognition by the Aspergillus nidulans GATA factor AreA
journal, July 1997
- Ravagnani, Adriana; Gorfinkiel, Lisette; Langdon, Timothy
- The EMBO Journal, Vol. 16, Issue 13
Engineering lipid overproduction in the oleaginous yeast Yarrowia lipolytica
journal, May 2015
- Qiao, Kangjian; Imam Abidi, Syed Hussain; Liu, Hongjuan
- Metabolic Engineering, Vol. 29, p. 56-65
Rearrangements of the transcriptional regulatory networks of metabolic pathways in fungi
journal, December 2009
- Lavoie, Hugo; Hogues, Hervé; Whiteway, Malcolm
- Current Opinion in Microbiology, Vol. 12, Issue 6
NIH Image to ImageJ: 25 years of image analysis
journal, June 2012
- Schneider, Caroline A.; Rasband, Wayne S.; Eliceiri, Kevin W.
- Nature Methods, Vol. 9, Issue 7
Recognition of nitrogen-responsive upstream activation sequences of Saccharomyces cerevisiae by the product of the GLN3 gene.
journal, July 1995
- Blinder, D.; Magasanik, B.
- Journal of Bacteriology, Vol. 177, Issue 14
Glycogen Synthase Kinase-3 (GSK3): Inflammation, Diseases, and Therapeutics
journal, August 2006
- Jope, Richard S.; Yuskaitis, Christopher J.; Beurel, Eléonore
- Neurochemical Research, Vol. 32, Issue 4-5
Fatty acid biosynthesis in microorganisms being used for Single Cell Oil production
journal, November 2004
- Ratledge, Colin
- Biochimie, Vol. 86, Issue 11
Regulation of lipid accumulation in oleaginous micro-organisms
journal, November 2002
- Ratledge, C.
- Biochemical Society Transactions, Vol. 30, Issue 6, p. 1047-1050
Manipulation of culture conditions alters lipid content and fatty acid profiles of a wide variety of known and new oleaginous yeast species
journal, September 2013
- Sitepu, Irnayuli R.; Sestric, Ryan; Ignatia, Laura
- Bioresource Technology, Vol. 144
The genetics of polyamine synthesis in Neurospora crassa
journal, May 1990
- Pitkin, John; Davis, Rowland H.
- Archives of Biochemistry and Biophysics, Vol. 278, Issue 2
Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes
journal, January 2013
- Kim, Young-Mo; Schmidt, Brian J.; Kidwai, Afshan S.
- Molecular BioSystems, Vol. 9, Issue 6
Target-Decoy Search Strategy for Mass Spectrometry-Based Proteomics
book, December 2009
- Elias, Joshua E.; Gygi, Steven P.
- Methods in Molecular Biology
Microscopic Analysis of Lipid Droplet Metabolism and Dynamics in Yeast
book, January 2008
- Wolinski, Heimo; Kohlwein, Sepp D.
- Membrane Trafficking
Accumulation of High-Value Lipids in Single-Cell Microorganisms: A Mechanistic Approach and Future Perspectives
journal, March 2014
- Garay, Luis A.; Boundy-Mills, Kyria L.; German, J. Bruce
- Journal of Agricultural and Food Chemistry, Vol. 62, Issue 13
Oily yeasts as oleaginous cell factories
journal, April 2011
- Ageitos, Jose Manuel; Vallejo, Juan Andres; Veiga-Crespo, Patricia
- Applied Microbiology and Biotechnology, Vol. 90, Issue 4
Physiology and genetics of the dimorphic fungus Yarrowia lipolytica
journal, April 1997
- Barth, Gerold; Gaillardin, Claude
- FEMS Microbiology Reviews, Vol. 19, Issue 4, p. 219-237
Transformation of yeast by lithium acetate/single-stranded carrier DNA/polyethylene glycol method
book, January 2002
- Daniel Gietz, R.; Woods, Robin A.
- Guide to Yeast Genetics and Molecular and Cell Biology - Part B
A Library of Yeast Transcription Factor Motifs Reveals a Widespread Function for Rsc3 in Targeting Nucleosome Exclusion at Promoters
journal, December 2008
- Badis, Gwenael; Chan, Esther T.; van Bakel, Harm
- Molecular Cell, Vol. 32, Issue 6
Polyamine Metabolism and Growth of Neurospora Strains Lacking Cis-Acting Control Sites in the Ornithine Decarboxylase Gene
journal, November 1994
- Pitkin, J.; Perriere, M.; Kanehl, A.
- Archives of Biochemistry and Biophysics, Vol. 315, Issue 1
An evolutionary and functional assessment of regulatory network motifs
journal, January 2005
- Mazurie, Aurélien; Bottani, Samuel; Vergassola, Massimo
- Genome Biology, Vol. 6, Issue 4, p. R35
Self-made frits for nanoscale columns in proteomics
journal, October 2005
- Maiolica, Alessio; Borsotti, Dario; Rappsilber, Juri
- PROTEOMICS, Vol. 5, Issue 15
Isolation and characterization of two crude oil-degrading yeast strains, Yarrowia lipolytica PG-20 and PG-32, from the Persian Gulf
journal, July 2012
- Hassanshahian, Mehdi; Tebyanian, Hamid; Cappello, Simone
- Marine Pollution Bulletin, Vol. 64, Issue 7
Genetic regulation of nitrogen metabolism in the fungi.
journal, January 1997
- Marzluf, G. A.
- Microbiology and molecular biology reviews : MMBR, Vol. 61, Issue 1
DREME: motif discovery in transcription factor ChIP-seq data
journal, May 2011
- Bailey, Timothy L.
- Bioinformatics, Vol. 27, Issue 12
DAnTE: a statistical tool for quantitative analysis of -omics data
journal, May 2008
- Polpitiya, A. D.; Qian, W. -J.; Jaitly, N.
- Bioinformatics, Vol. 24, Issue 13
Nitrogen Catabolite Repression of DAL80 Expression Depends on the Relative Levels of Gat1p and Ure2p Production in Saccharomyces cerevisiae
journal, May 2000
- Cunningham, Thomas S.; Andhare, Roopa; Cooper, Terrance G.
- Journal of Biological Chemistry, Vol. 275, Issue 19
Regulation of nitrogen assimilation in Saccharomyces cerevisiae: roles of the URE2 and GLN3 genes.
journal, February 1988
- Courchesne, W. E.; Magasanik, B.
- Journal of Bacteriology, Vol. 170, Issue 2
The TOR signalling pathway controls nuclear localization of nutrient-regulated transcription factors
journal, December 1999
- Beck, Thomas; Hall, Michael N.
- Nature, Vol. 402, Issue 6762
The pathway of arginine breakdown in Saccharomyces cerevisiae
journal, December 1964
- Middelhoven, W. J.
- Biochimica et Biophysica Acta (BBA) - General Subjects, Vol. 93, Issue 3
Disruption of the MIG1 gene enhances lipid biosynthesis in the oleaginous yeast Yarrowia lipolytica ACA-DC 50109
journal, April 2013
- Wang, Zhi-Peng; Xu, Hong-Mei; Wang, Guang-Yuan
- Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids, Vol. 1831, Issue 4
Recent Advances in Nitrogen Regulation: a Comparison between Saccharomyces cerevisiae and Filamentous Fungi
journal, April 2008
- Wong, Koon Ho; Hynes, Michael J.; Davis, Meryl A.
- Eukaryotic Cell, Vol. 7, Issue 6
Sch9 regulates ribosome biogenesis via Stb3, Dot6 and Tod6 and the histone deacetylase complex RPD3L
journal, July 2011
- Huber, Alexandre; French, Sarah L.; Tekotte, Hille
- The EMBO Journal, Vol. 30, Issue 15
Stb3 Plays a Role in the Glucose-Induced Transition from Quiescence to Growth in Saccharomyces cerevisiae
journal, April 2010
- Liko, Dritan; Conway, Michael K.; Grunwald, Douglas S.
- Genetics, Vol. 185, Issue 3
Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
journal, August 2005
- Conesa, A.; Gotz, S.; Garcia-Gomez, J. M.
- Bioinformatics, Vol. 21, Issue 18
Comprehensive Metabolomic, Lipidomic and Microscopic Profiling of Yarrowia lipolytica during Lipid Accumulation Identifies Targets for Increased Lipogenesis
journal, April 2015
- Pomraning, Kyle R.; Wei, Siwei; Karagiosis, Sue A.
- PLOS ONE, Vol. 10, Issue 4
Engineering the push and pull of lipid biosynthesis in oleaginous yeast Yarrowia lipolytica for biofuel production
journal, January 2013
- Tai, Mitchell; Stephanopoulos, Gregory
- Metabolic Engineering, Vol. 15, p. 1-9
Quantitative phosphoproteomics identifies filaggrin and other targets of ionizing radiation in a human skin model: Phosphoproteomics on irradiated skin
journal, April 2012
- Yang, Feng; Waters, Katrina M.; Webb-Robertson, Bobbie-Jo
- Experimental Dermatology, Vol. 21, Issue 5
MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC–MS(/MS) features
journal, June 2008
- Monroe, Matthew E.; Shaw, Jason L.; Daly, Don S.
- Computational Biology and Chemistry, Vol. 32, Issue 3
Phosphorylation of ATP-Citrate Lyase by Nucleoside Diphosphate Kinase
journal, September 1995
- Wagner, Paul D.; Vu, Ngoc-Diep
- Journal of Biological Chemistry, Vol. 270, Issue 37
Biochemical activities during lipid accumulation inCandida curvata
journal, September 1983
- Evans, Christopher T.; Ratledge, Colin
- Lipids, Vol. 18, Issue 9
Genome evolution in yeasts
journal, July 2004
- Dujon, Bernard; Sherman, David; Fischer, Gilles
- Nature, Vol. 430, Issue 6995
Hyperornithinaemia- hyperammonaemia- homocitrullinuria syndrome is caused by mutations in a gene encoding a mitochondrial ornithine transporter
journal, June 1999
- Camacho, Jose A.; Obie, Cassandra; Biery, Barbara
- Nature Genetics, Vol. 22, Issue 2
Transcriptomic Analyses during the Transition from Biomass Production to Lipid Accumulation in the Oleaginous Yeast Yarrowia lipolytica
journal, November 2011
- Morin, Nicolas; Cescut, Julien; Beopoulos, Athanasios
- PLoS ONE, Vol. 6, Issue 11, Article No. e27966
Enhanced lipid accumulation in the yeast Yarrowia lipolytica by over-expression of ATP:citrate lyase from Mus musculus
journal, December 2014
- Zhang, Huaiyuan; Zhang, Luning; Chen, Haiqin
- Journal of Biotechnology, Vol. 192
141 Malic enzyme: A lipogenic enzyme in fungi
journal, November 1997
- Wynn, James P.; Kendrick, Andrew; Hamid, Adil A.
- Biochemical Society Transactions, Vol. 25, Issue 4
Essential Functions of Protein Tyrosine Phosphatases Ptp2 and Ptp3 and Rim11 Tyrosine Phosphorylation in Saccharomyces cerevisiae Meiosis and Sporulation
journal, February 2000
- Zhan, Xiao-Li; Hong, Yulong; Zhu, Tianqing
- Molecular Biology of the Cell, Vol. 11, Issue 2
Improving polyketide and fatty acid synthesis by engineering of the yeast acetyl-CoA carboxylase
journal, October 2014
- Choi, Jin Wook; Da Silva, Nancy A.
- Journal of Biotechnology, Vol. 187
Degradation of the Transcription Factor Gcn4 Requires the Kinase Pho85 and the SCF CDC4 Ubiquitin–Ligase Complex
journal, March 2000
- Meimoun, Ariella; Holtzman, Tsvi; Weissman, Ziva
- Molecular Biology of the Cell, Vol. 11, Issue 3
Cross regulation of four GATA factors that control nitrogen catabolic gene expression in Saccharomyces cerevisiae.
journal, June 1997
- Coffman, J. A.; Rai, R.; Loprete, D. M.
- Journal of Bacteriology, Vol. 179, Issue 11
Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software
journal, February 2011
- Kamentsky, Lee; Jones, Thouis R.; Fraser, Adam
- Bioinformatics, Vol. 27, Issue 8
Single cell oil production by Yarrowia lipolytica growing on an industrial derivative of animal fat in batch cultures
journal, March 2002
- Papanikolaou, S.; Chevalot, I.; Komaitis, M.
- Applied Microbiology and Biotechnology, Vol. 58, Issue 3, p. 308-312
Transmitting the signal of excess nitrogen in Saccharomyces cerevisiae from the Tor proteins to the GATA factors: connecting the dots
journal, August 2002
- Cooper, Terrance G.
- FEMS Microbiology Reviews, Vol. 26, Issue 3
Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae
journal, March 2014
- Conrad, Michaela; Schothorst, Joep; Kankipati, Harish Nag
- FEMS Microbiology Reviews, Vol. 38, Issue 2
Improved similarity scores for comparing motifs
journal, May 2011
- Tanaka, Emi; Bailey, Timothy; Grant, Charles E.
- Bioinformatics, Vol. 27, Issue 12
Distinct roles of putrescine and spermidine in the regulation of ornithine decarboxylase in Neurospora crassa.
journal, June 1985
- Davis, R. H.; Krasner, G. N.; DiGangi, J. J.
- Proceedings of the National Academy of Sciences, Vol. 82, Issue 12
The Biochemistry and Molecular Biology of Lipid Accumulation in Oleaginous Microorganisms
book, January 2002
- Ratledge, Colin; Wynn, James P.
- Advances in Applied Microbiology
The Regulation of Glutamine Synthesis in Microorganisms
journal, October 1970
- Shapiro, B. M.; Stadtman, E. R.
- Annual Review of Microbiology, Vol. 24, Issue 1
GCN4 protein, a positive transcription factor in yeast, binds general control promoters at all 5' TGACTC 3' sequences.
journal, November 1986
- Arndt, K.; Fink, G. R.
- Proceedings of the National Academy of Sciences, Vol. 83, Issue 22
Saccharomyces Genome Database: the genomics resource of budding yeast
journal, November 2011
- Cherry, J. M.; Hong, E. L.; Amundsen, C.
- Nucleic Acids Research, Vol. 40, Issue D1
A multi-omic map of the lipid-producing yeast Rhodosporidium toruloides
journal, January 2012
- Zhu, Zhiwei; Zhang, Sufang; Liu, Hongwei
- Nature Communications, Vol. 3, Issue 1
MetaboliteDetector: Comprehensive Analysis Tool for Targeted and Nontargeted GC/MS Based Metabolome Analysis
journal, May 2009
- Hiller, Karsten; Hangebrauk, Jasper; Jäger, Christian
- Analytical Chemistry, Vol. 81, Issue 9
The Sequence Alignment/Map format and SAMtools
journal, June 2009
- Li, H.; Handsaker, B.; Wysoker, A.
- Bioinformatics, Vol. 25, Issue 16
MS-GF+ makes progress towards a universal database search tool for proteomics
journal, October 2014
- Kim, Sangtae; Pevzner, Pavel A.
- Nature Communications, Vol. 5, Issue 1
Harnessing Yarrowia lipolytica lipogenesis to create a platform for lipid and biofuel production
journal, January 2014
- Blazeck, John; Hill, Andrew; Liu, Leqian
- Nature Communications, Vol. 5, Issue 1
Control of Lipid Accumulation in the Yeast Yarrowia lipolytica
journal, October 2008
- Beopoulos, A.; Mrozova, Z.; Thevenieau, F.
- Applied and Environmental Microbiology, Vol. 74, Issue 24, p. 7779-7789
Glucose- and nitrogen sensing and regulatory mechanisms in Saccharomyces cerevisiae
journal, May 2014
- Rødkaer, Steven V.; Faergeman, Nils J.
- FEMS Yeast Research, Vol. 14, Issue 5
Works referencing / citing this record:
Systems biology for understanding and engineering of heterotrophic oleaginous microorganisms
journal, November 2016
- Park, Beom Gi; Kim, Minsuk; Kim, Joonwon
- Biotechnology Journal, Vol. 12, Issue 1
Optimization of protein isolation by proteomic qualification from Cutaneotrichosporon oleaginosus
journal, December 2019
- Awad, Dania; Brueck, Thomas
- Analytical and Bioanalytical Chemistry, Vol. 412, Issue 2
A molecular genetic toolbox for Yarrowia lipolytica
journal, January 2017
- Bredeweg, Erin L.; Pomraning, Kyle R.; Dai, Ziyu
- Biotechnology for Biofuels, Vol. 10, Issue 1
Transcriptomic analysis of the oleaginous yeast Lipomyces starkeyi during lipid accumulation on enzymatically treated corn stover hydrolysate
journal, June 2019
- Pomraning, Kyle R.; Collett, James R.; Kim, Joonhoon
- Biotechnology for Biofuels, Vol. 12, Issue 1
Time-resolved multi-omics analysis reveals the role of nutrient stress-induced resource reallocation for TAG accumulation in oleaginous fungus Mortierella alpina
journal, July 2020
- Lu, Hengqian; Chen, Haiqin; Tang, Xin
- Biotechnology for Biofuels, Vol. 13, Issue 1
Multi-Omics Analysis of Fatty Alcohol Production in Engineered Yeasts Saccharomyces cerevisiae and Yarrowia lipolytica
journal, August 2019
- Dahlin, Jonathan; Holkenbrink, Carina; Marella, Eko Roy
- Frontiers in Genetics, Vol. 10
Glutamate dehydrogenases in the oleaginous yeast Yarrowia lipolytica
journal, August 2019
- Trotter, Pamela J.; Juco, Karen; Le, Ha T.
- Yeast, Vol. 37, Issue 1
Overexpression screen reveals transcription factors involved in lipid accumulation in Yarrowia lipolytica
journal, March 2018
- Leplat, Christophe; Nicaud, Jean-Marc; Rossignol, Tristan
- FEMS Yeast Research, Vol. 18, Issue 5
Predictive models of eukaryotic transcriptional regulation reveals changes in transcription factor roles and promoter usage between metabolic conditions
journal, April 2019
- Holland, Petter; Bergenholm, David; Börlin, Christoph S.
- Nucleic Acids Research, Vol. 47, Issue 10
Systems analysis of phosphate-limitation-induced lipid accumulation by the oleaginous yeast Rhodosporidium toruloides
journal, May 2018
- Wang, Yanan; Zhang, Sufang; Zhu, Zhiwei
- Biotechnology for Biofuels, Vol. 11, Issue 1
Oleaginicity of the yeast strain Saccharomyces cerevisiae D5A
journal, September 2018
- He, Qiaoning; Yang, Yongfu; Yang, Shihui
- Biotechnology for Biofuels, Vol. 11, Issue 1
In silico identification of metabolic engineering strategies for improved lipid production in Yarrowia lipolytica by genome-scale metabolic modeling
journal, July 2019
- Kim, Minsuk; Park, Beom Gi; Kim, Eun-Jung
- Biotechnology for Biofuels, Vol. 12, Issue 1
Integrating Cellular and Bioprocess Engineering in the Non-Conventional Yeast Yarrowia lipolytica for Biodiesel Production: A Review
journal, October 2017
- Xie, Dongming
- Frontiers in Bioengineering and Biotechnology, Vol. 5
Metabolic Engineering of Oleaginous Yeasts for Production of Fuels and Chemicals
journal, November 2017
- Shi, Shuobo; Zhao, Huimin
- Frontiers in Microbiology, Vol. 8