Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides

Coradetti, Samuel T.; Pinel, Dominic; Geiselman, Gina M.; Ito, Masakazu; Mondo, Stephen J.; Reilly, Morgann C.; Cheng, Ya-Fang; Bauer, Stefan; Grigoriev, Igor V.; Gladden, John M.; Simmons, Blake A.; Brem, Rachel B.; Arkin, Adam P.; Skerker, Jeffrey M.

doi:10.7554/eLife.32110

Title: Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides

Abstract

The basidiomycete yeast Rhodosporidium toruloides (also known as Rhodotorula toruloides) accumulates high concentrations of lipids and carotenoids from diverse carbon sources. It has great potential as a model for the cellular biology of lipid droplets and for sustainable chemical production. We developed a method for high-throughput genetics (RB-TDNAseq), using sequence-barcoded Agrobacterium tumefaciens T-DNA insertions. We identified 1,337 putative essential genes with low T-DNA insertion rates. We functionally profiled genes required for fatty acid catabolism and lipid accumulation, validating results with 35 targeted deletion strains. We identified a high-confidence set of 150 genes affecting lipid accumulation, including genes with predicted function in signaling cascades, gene expression, protein modification and vesicular trafficking, autophagy, amino acid synthesis and tRNA modification, and genes of unknown function. Lastly, these results greatly advance our understanding of lipid metabolism in this oleaginous species and demonstrate a general approach for barcoded mutagenesis that should enable functional genomics in diverse fungi.

Authors:

^[1]; Pinel, Dominic ^[2]; Geiselman, Gina M. ^[2]; Ito, Masakazu ^[2];

^[3]; Reilly, Morgann C. ^[4]; Cheng, Ya-Fang ^[2]; Bauer, Stefan ^[2]; Grigoriev, Igor V. ^[5];

^[6]; Simmons, Blake A. ^[7]; Brem, Rachel B. ^[8];

^[9];

^[10]

The Buck Institute for Research on Aging, Novato, United States
Energy Biosciences Institute, Berkeley, United States
United States Department of Energy Joint Genome Institute, Walnut Creek, United States
Joint BioEnergy Institute, Emeryville, United States, Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, United States
United States Department of Energy Joint Genome Institute, Walnut Creek, United States, Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, United States, Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, United States
Joint BioEnergy Institute, Emeryville, United States
Joint BioEnergy Institute, Emeryville, United States, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, United States
The Buck Institute for Research on Aging, Novato, United States, Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, United States
Energy Biosciences Institute, Berkeley, United States, Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, United States, Department of Bioengineering, University of California, Berkeley, Berkeley, United States
Energy Biosciences Institute, Berkeley, United States, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, United States, Department of Bioengineering, University of California, Berkeley, Berkeley, United States

Publication Date:: Fri Mar 09 00:00:00 EST 2018

Research Org.:: Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

OSTI Identifier:: 1466439

Alternate Identifier(s):: OSTI ID: 1437152; OSTI ID: 1459403; OSTI ID: 1466441

Grant/Contract Number:: Office of Biological and Environmental Research, DE-SC-0012527; Office of Biological and Environmental Research, DE-AC02-05CH11231; AC05-76RL01830; AC02-05CH11231

Resource Type:: Published Article

Journal Name:: eLife

Additional Journal Information:: Journal Name: eLife Journal Volume: 7; Journal ID: ISSN 2050-084X

Publisher:: eLife Sciences Publications, Ltd.

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Coradetti, Samuel T., Pinel, Dominic, Geiselman, Gina M., Ito, Masakazu, Mondo, Stephen J., Reilly, Morgann C., Cheng, Ya-Fang, Bauer, Stefan, Grigoriev, Igor V., Gladden, John M., Simmons, Blake A., Brem, Rachel B., Arkin, Adam P., and Skerker, Jeffrey M. Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides.  United States: N. p., 2018. 
Web.  doi:10.7554/eLife.32110.

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                    Coradetti, Samuel T., Pinel, Dominic, Geiselman, Gina M., Ito, Masakazu, Mondo, Stephen J., Reilly, Morgann C., Cheng, Ya-Fang, Bauer, Stefan, Grigoriev, Igor V., Gladden, John M., Simmons, Blake A., Brem, Rachel B., Arkin, Adam P., & Skerker, Jeffrey M. Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides.  United States.  https://doi.org/10.7554/eLife.32110

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                    Coradetti, Samuel T., Pinel, Dominic, Geiselman, Gina M., Ito, Masakazu, Mondo, Stephen J., Reilly, Morgann C., Cheng, Ya-Fang, Bauer, Stefan, Grigoriev, Igor V., Gladden, John M., Simmons, Blake A., Brem, Rachel B., Arkin, Adam P., and Skerker, Jeffrey M. Fri .  
"Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides".  United States.  https://doi.org/10.7554/eLife.32110.

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@article{osti_1466439,

  title        = {Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides},

  author       = {Coradetti, Samuel T. and Pinel, Dominic and Geiselman, Gina M. and Ito, Masakazu and Mondo, Stephen J. and Reilly, Morgann C. and Cheng, Ya-Fang and Bauer, Stefan and Grigoriev, Igor V. and Gladden, John M. and Simmons, Blake A. and Brem, Rachel B. and Arkin, Adam P. and Skerker, Jeffrey M.},

  abstractNote = {The basidiomycete yeast Rhodosporidium toruloides (also known as Rhodotorula toruloides) accumulates high concentrations of lipids and carotenoids from diverse carbon sources. It has great potential as a model for the cellular biology of lipid droplets and for sustainable chemical production. We developed a method for high-throughput genetics (RB-TDNAseq), using sequence-barcoded Agrobacterium tumefaciens T-DNA insertions. We identified 1,337 putative essential genes with low T-DNA insertion rates. We functionally profiled genes required for fatty acid catabolism and lipid accumulation, validating results with 35 targeted deletion strains. We identified a high-confidence set of 150 genes affecting lipid accumulation, including genes with predicted function in signaling cascades, gene expression, protein modification and vesicular trafficking, autophagy, amino acid synthesis and tRNA modification, and genes of unknown function. Lastly, these results greatly advance our understanding of lipid metabolism in this oleaginous species and demonstrate a general approach for barcoded mutagenesis that should enable functional genomics in diverse fungi.},

  doi          = {10.7554/eLife.32110},

  journal      = {eLife},

  number       = ,

  volume       = 7,

  place        = {United States},

  year         = {Fri Mar 09 00:00:00 EST 2018},

  month        = {Fri Mar 09 00:00:00 EST 2018}

}

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Works referenced in this record:

A Lipid Droplet-Associated GFP Reporter-Based Screen Identifies New Fat Storage Regulators in C. elegans
journal, May 2014

Liu, Zhenglong; Li, Xia; Ge, Qinlan
Journal of Genetics and Genomics, Vol. 41, Issue 5
DOI: 10.1016/j.jgg.2014.03.002

The Structural Features of Thousands of T-DNA Insertion Sites Are Consistent with a Double-Strand Break Repair-Based Insertion Mechanism
journal, November 2015

Kleinboelting, Nils; Huep, Gunnar; Appelhagen, Ingo
Molecular Plant, Vol. 8, Issue 11
DOI: 10.1016/j.molp.2015.08.011

Mitochondrial long chain fatty acid β-oxidation in man and mouse
journal, August 2009

Chegary, Malika; Brinke, Heleen te; Ruiter, Jos P. N.
Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids, Vol. 1791, Issue 8
DOI: 10.1016/j.bbalip.2009.05.006

Agrobacterium tumefaciens-mediated transformation of the soybean pathogen Phomopsis longicolla
journal, March 2013

Li, Shuxian; Ridenour, John B.; Kim, Hun
Journal of Microbiological Methods, Vol. 92, Issue 3
DOI: 10.1016/j.mimet.2012.12.015

PomBase: a comprehensive online resource for fission yeast
journal, October 2011

Wood, V.; Harris, M. A.; McDowall, M. D.
Nucleic Acids Research, Vol. 40, Issue D1
DOI: 10.1093/nar/gkr853

Identification of Conidiogenesis-Associated Genes in Colletotrichum gloeosporioides by Agrobacterium tumefaciens-Mediated Transformation
journal, September 2016

Wu, Jianyuan; Ji, Zhirui; Wang, Na
Current Microbiology, Vol. 73, Issue 6
DOI: 10.1007/s00284-016-1131-8

Metabolic engineering for ricinoleic acid production in the oleaginous yeast Yarrowia lipolytica
journal, October 2013

Beopoulos, A.; Verbeke, J.; Bordes, F.
Applied Microbiology and Biotechnology, Vol. 98, Issue 1
DOI: 10.1007/s00253-013-5295-x

Regulation of the Regulators: Post-Translational Modifications, Subcellular, and Spatiotemporal Distribution of Plant 14-3-3 Proteins
journal, May 2016

Wilson, Rashaun S.; Swatek, Kirby N.; Thelen, Jay J.
Frontiers in Plant Science, Vol. 7
DOI: 10.3389/fpls.2016.00611

Agrobacterium tumefaciens Integrates Transfer DNA into Single Chromosomal Sites of Dimorphic Fungi and Yields Homokaryotic Progeny from Multinucleate Yeast
journal, December 2002

Sullivan, Thomas D.; Rooney, Peggy J.; Klein, Bruce S.
Eukaryotic Cell, Vol. 1, Issue 6
DOI: 10.1128/EC.1.6.895-905.2002

Protein Correlation Profiles Identify Lipid Droplet Proteins with High Confidence
journal, January 2013

Krahmer, Natalie; Hilger, Maximiliane; Kory, Nora
Molecular & Cellular Proteomics, Vol. 12, Issue 5
DOI: 10.1074/mcp.M112.020230

Transposon sequencing: methods and expanding applications
journal, October 2015

Kwon, Young Min; Ricke, Steven C.; Mandal, Rabindra K.
Applied Microbiology and Biotechnology, Vol. 100, Issue 1
DOI: 10.1007/s00253-015-7037-8

Kinetic Regulation of the Mitochondrial Glycerol-3-phosphate Dehydrogenase by the External NADH Dehydrogenase in Saccharomyces cerevisiae
journal, May 2002

Påhlman, Inga-lill; Larsson, Christer; Averét, Nicole
Journal of Biological Chemistry, Vol. 277, Issue 31
DOI: 10.1074/jbc.M204079200

A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae
journal, August 2008

Huang, B.; Lu, J.; Bystrom, A. S.
RNA, Vol. 14, Issue 10
DOI: 10.1261/rna.1184108

Systematic analysis of genome-wide fitness data in yeast reveals novel gene function and drug action
journal, January 2010

Hillenmeyer, Maureen E.; Ericson, Elke; Davis, Ronald W.
Genome Biology, Vol. 11, Issue 3
DOI: 10.1186/gb-2010-11-3-r30

Fatty Acid Trafficking in Starved Cells: Regulation by Lipid Droplet Lipolysis, Autophagy, and Mitochondrial Fusion Dynamics
journal, March 2015

Rambold, Angelika S.; Cohen, Sarah; Lippincott-Schwartz, Jennifer
Developmental Cell, Vol. 32, Issue 6
DOI: 10.1016/j.devcel.2015.01.029

Agrobacterium-mediated transformation of Guignardia citricarpa: An efficient tool to gene transfer and random mutagenesis
journal, July 2013

Rodrigues, Maria Beatriz Calderan; Fávaro, Léia Cecília de Lima; Pallu, Ana Paula de Souza
Fungal Biology, Vol. 117, Issue 7-8
DOI: 10.1016/j.funbio.2013.06.005

Phosphate-limitation mediated lipid production by Rhodosporidium toruloides
journal, August 2010

Wu, Siguo; Hu, Cuimin; Jin, Guojie
Bioresource Technology, Vol. 101, Issue 15
DOI: 10.1016/j.biortech.2010.02.111

Functional genomic screen reveals genes involved in lipid-droplet formation and utilization
journal, April 2008

Guo, Yi; Walther, Tobias C.; Rao, Meghana
Nature, Vol. 453, Issue 7195
DOI: 10.1038/nature06928

A role for lipid droplets in inter-membrane lipid traffic
journal, February 2009

Zehmer, John K.; Huang, Youguo; Peng, Gong
PROTEOMICS, Vol. 9, Issue 4
DOI: 10.1002/pmic.200800584

Acyl-CoA Dehydrogenases: Dynamic History of Protein Family Evolution
journal, July 2009

Swigoňová, Zuzana; Mohsen, Al-Walid; Vockley, Jerry
Journal of Molecular Evolution, Vol. 69, Issue 2
DOI: 10.1007/s00239-009-9263-0

Comprehensive identification of conditionally essential genes in mycobacteria
journal, October 2001

Sassetti, C. M.; Boyd, D. H.; Rubin, E. J.
Proceedings of the National Academy of Sciences, Vol. 98, Issue 22
DOI: 10.1073/pnas.231275498

Not Just Fat: The Structure and Function of the Lipid Droplet
journal, January 2011

Fujimoto, T.; Parton, R. G.
Cold Spring Harbor Perspectives in Biology, Vol. 3, Issue 3
DOI: 10.1101/cshperspect.a004838

Exploiting Bioprocessing Fluctuations to Elicit the Mechanistics of De Novo Lipogenesis in Yarrowia lipolytica
journal, January 2017

Vasdekis, Andreas E.; Silverman, Andrew M.; Stephanopoulos, Gregory
PLOS ONE, Vol. 12, Issue 1
DOI: 10.1371/journal.pone.0168889

Peroxisomal Acyl-CoA oxidase 4 activity differs between Arabidopsis accessions
journal, November 2011

Khan, Bibi Rafeiza; Adham, A. Raquel; Zolman, Bethany K.
Plant Molecular Biology, Vol. 78, Issue 1-2
DOI: 10.1007/s11103-011-9843-4

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources
journal, November 2011

Arnaud, M. B.; Cerqueira, G. C.; Inglis, D. O.
Nucleic Acids Research, Vol. 40, Issue D1
DOI: 10.1093/nar/gkr875

In Vivo Analysis of the Mechanisms for Oxidation of Cytosolic NADH by Saccharomyces cerevisiae Mitochondria
journal, May 2000

Overkamp, K. M.; Bakker, B. M.; Kotter, P.
Journal of Bacteriology, Vol. 182, Issue 10
DOI: 10.1128/JB.182.10.2823-2830.2000

Lipid particles/droplets of the yeast Saccharomyces cerevisiae revisited: Lipidome meets Proteome
journal, December 2011

Grillitsch, Karlheinz; Connerth, Melanie; Köfeler, Harald
Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids, Vol. 1811, Issue 12
DOI: 10.1016/j.bbalip.2011.07.015

FSP27 contributes to efficient energy storage in murine white adipocytes by promoting the formation of unilocular lipid droplets
journal, July 2008

Nishino, Naonobu; Tamori, Yoshikazu; Tateya, Sanshiro
Journal of Clinical Investigation
DOI: 10.1172/JCI34090

Concomitant Production of Lipids and Carotenoids in Rhodosporidium toruloides under Osmotic Stress Using Response Surface Methodology
journal, October 2016

Singh, Gunjan; Jawed, Arshad; Paul, Debarati
Frontiers in Microbiology, Vol. 7
DOI: 10.3389/fmicb.2016.01686

Cloning and disruption of a gene required for growth on acetate but not on ethanol: The acetyl-coenzyme a synthetase gene ofSaccharmoyces cerevisiae
journal, December 1992

De Virgilio, Claudio; Bürckert, Niels; Barth, Gerold
Yeast, Vol. 8, Issue 12, p. 1043-1051
DOI: 10.1002/yea.320081207

Phylogenetic diversity of stress signaling pathways in fungi
journal, January 2009

Nikolaou, Elissavet; Agriafioti, Ino; Stumpf, Michael
BMC Evolutionary Biology, Vol. 9, Issue 1
DOI: 10.1186/1471-2148-9-44

14-3-3 Proteins Are Essential for RAS/MAPK Cascade Signaling during Pseudohyphal Development in S. cerevisiae
journal, June 1997

Roberts, Radclyffe L.; Mösch, Hans-Ulrich; Fink, Gerald R.
Cell, Vol. 89, Issue 7
DOI: 10.1016/S0092-8674(00)80293-7

The lipodystrophy protein seipin is found at endoplasmic reticulum lipid droplet junctions and is important for droplet morphology
journal, December 2007

Szymanski, K. M.; Binns, D.; Bartz, R.
Proceedings of the National Academy of Sciences, Vol. 104, Issue 52
DOI: 10.1073/pnas.0704154104

The MAP1-LC3 conjugation system is involved in lipid droplet formation
journal, May 2009

Shibata, Masahiro; Yoshimura, Kentaro; Furuya, Norihiko
Biochemical and Biophysical Research Communications, Vol. 382, Issue 2
DOI: 10.1016/j.bbrc.2009.03.039

Origins of Cell-to-Cell Bioprocessing Diversity and Implications of the Extracellular Environment Revealed at the Single-Cell Level
journal, December 2015

Vasdekis, A. E.; Silverman, A. M.; Stephanopoulos, G.
Scientific Reports, Vol. 5, Issue 1
DOI: 10.1038/srep17689

Human disorders of peroxisome metabolism and biogenesis
journal, May 2016

Waterham, Hans R.; Ferdinandusse, Sacha; Wanders, Ronald J. A.
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1863, Issue 5
DOI: 10.1016/j.bbamcr.2015.11.015

UV-resistant yeasts isolated from a high-altitude volcanic area on the Atacama Desert as eukaryotic models for astrobiology
journal, July 2015

Pulschen, André A.; Rodrigues, Fabio; Duarte, Rubens T. D.
MicrobiologyOpen, Vol. 4, Issue 4
DOI: 10.1002/mbo3.262

Identification of ATP-NADH kinase isozymes and their contribution to supply of NADP(H) in Saccharomyces cerevisiae: Saccharomyces cerevisiae NADH kinases
journal, June 2005

Shi, Feng; Kawai, Shigeyuki; Mori, Shigetarou
FEBS Journal, Vol. 272, Issue 13
DOI: 10.1111/j.1742-4658.2005.04749.x

The cAMP/protein kinase A signaling pathway in pathogenic basidiomycete fungi: Connections with iron homeostasis
journal, August 2015

Choi, Jaehyuk; Jung, Won Hee; Kronstad, James W.
Journal of Microbiology, Vol. 53, Issue 9
DOI: 10.1007/s12275-015-5247-5

Functional profiling of the Saccharomyces cerevisiae genome
journal, July 2002

Giaever, Guri; Chu, Angela M.; Ni, Li
Nature, Vol. 418, Issue 6896
DOI: 10.1038/nature00935

Lipid droplets maintain lipid homeostasis during anaphase for efficient cell separation in budding yeast
journal, August 2016

Yang, Po-Lin; Hsu, Tzu-Han; Wang, Chao-Wen
Molecular Biology of the Cell, Vol. 27, Issue 15
DOI: 10.1091/mbc.E16-02-0106

Emergence and Spread of New Races of Wheat Stem Rust Fungus: Continued Threat to Food Security and Prospects of Genetic Control
journal, July 2015

Singh, Ravi P.; Hodson, David P.; Jin, Yue
Phytopathology, Vol. 105, Issue 7
DOI: 10.1094/PHYTO-01-15-0030-FI

Effects of biomass hydrolysis by-products on oleaginous yeast Rhodosporidium toruloides
journal, October 2009

Hu, Cuimin; Zhao, Xin; Zhao, Jin
Bioresource Technology, Vol. 100, Issue 20
DOI: 10.1016/j.biortech.2009.04.041

Lipid Droplet Protein LID-1 Mediates ATGL-1-Dependent Lipolysis during Fasting in Caenorhabditis elegans
journal, September 2014

Lee, J. H.; Kong, J.; Jang, J. Y.
Molecular and Cellular Biology, Vol. 34, Issue 22
DOI: 10.1128/MCB.00722-14

A simple technique for the preparation and storage of sucrose gradients
journal, November 1983

Luthe, Dawn S.
Analytical Biochemistry, Vol. 135, Issue 1
DOI: 10.1016/0003-2697(83)90755-8

14-3-3 proteins: potential roles in vesicular transport and Ras signaling in Saccharomyces cerevisiae.
journal, December 1995

Gelperin, D.; Weigle, J.; Nelson, K.
Proceedings of the National Academy of Sciences, Vol. 92, Issue 25
DOI: 10.1073/pnas.92.25.11539

Seipin regulates ER –lipid droplet contacts and cargo delivery
journal, October 2016

Salo, Veijo T.; Belevich, Ilya; Li, Shiqian
The EMBO Journal, Vol. 35, Issue 24
DOI: 10.15252/embj.201695170

Regulation of lipid droplet dynamics in Saccharomyces cerevisiae depends on the Rab7-like Ypt7p, HOPS complex and V1-ATPase
journal, May 2015

Bouchez, I.; Pouteaux, M.; Canonge, M.
Biology Open, Vol. 4, Issue 7
DOI: 10.1242/bio.20148615

Identification of Genes Affecting Lipid Content Using Transposon Mutagenesis in Saccharomyces cerevisiae
journal, January 2006

Kamisaka, Yasushi; Noda, Naomi; Tomita, Nao
Bioscience, Biotechnology, and Biochemistry, Vol. 70, Issue 3
DOI: 10.1271/bbb.70.646

A critical assessment of Agrobacterium tumefaciens-mediated transformation as a tool for pathogenicity gene discovery in the phytopathogenic fungus Leptosphaeria maculans
journal, February 2007

Blaise, Françoise; Rémy, Estelle; Meyer, Michel
Fungal Genetics and Biology, Vol. 44, Issue 2
DOI: 10.1016/j.fgb.2006.07.006

“Density equilibrium” method for the quantitative and rapid in situ determination of lipid, hydrocarbon, or biopolymer content in microorganisms
journal, April 2009

Eroglu, Ela; Melis, Anastasios
Biotechnology and Bioengineering, Vol. 102, Issue 5
DOI: 10.1002/bit.22182

Highly efficient transformation system for Malassezia furfur and Malassezia pachydermatis using Agrobacterium tumefaciens-mediated transformation
journal, March 2017

Celis, A. M.; Vos, A. M.; Triana, S.
Journal of Microbiological Methods, Vol. 134
DOI: 10.1016/j.mimet.2017.01.001

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica
journal, March 2016

Kerkhoven, Eduard J.; Pomraning, Kyle R.; Baker, Scott E.
npj Systems Biology and Applications, Vol. 2, Issue 1
DOI: 10.1038/npjsba.2016.5

Identification of 23 complementation groups required for post-translational events in the yeast secretory pathway
journal, August 1980

Novick, Peter; Field, Charles; Schekman, Randy
Cell, Vol. 21, Issue 1
DOI: 10.1016/0092-8674(80)90128-2

Involvement of Rad52 in T-DNA circle formation during A grobacterium tumefaciens -mediated transformation of S accharomyces cerevisiae : Involvement of Rad52 in T-DNA circle formation
journal, February 2014

Rolloos, Martijn; Dohmen, Marius H. C.; Hooykaas, Paul J. J.
Molecular Microbiology, Vol. 91, Issue 6
DOI: 10.1111/mmi.12531

Lipid droplet autophagy in the yeast Saccharomyces cerevisiae
journal, January 2014

van Zutphen, Tim; Todde, Virginia; de Boer, Rinse
Molecular Biology of the Cell, Vol. 25, Issue 2
DOI: 10.1091/mbc.E13-08-0448

High-throughput fluorescence-activated cell sorting for lipid hyperaccumulating Chlamydomonas reinhardtii mutants
journal, April 2014

Xie, Bo; Stessman, Dan; Hart, Jason H.
Plant Biotechnology Journal, Vol. 12, Issue 7
DOI: 10.1111/pbi.12190

Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13 804 T-DNA flanking sequences from an enhancer-trap mutant library: T-DNA flanking sequence tags in rice
journal, February 2007

Zhang, Jian; Guo, Dong; Chang, Yuxiao
The Plant Journal, Vol. 49, Issue 5
DOI: 10.1111/j.1365-313X.2006.03001.x

Genetic and dietary regulation of lipid droplet expansion in Caenorhabditis elegans
journal, February 2010

Zhang, S. O.; Box, A. C.; Xu, N.
Proceedings of the National Academy of Sciences, Vol. 107, Issue 10
DOI: 10.1073/pnas.0912308107

Lipid production in batch and fed-batch cultures of Rhodosporidium toruloidesfrom 5 and 6 carbon carbohydrates
journal, May 2012

Wiebe, Marilyn G.; Koivuranta, Kari; Penttilä, Merja
BMC Biotechnology, Vol. 12, Issue 1
DOI: 10.1186/1472-6750-12-26

Genome-wide analysis of T-DNA integration into the chromosomes of Magnaporthe oryzae
journal, October 2007

Choi, Jaehyuk; Park, Jongsun; Jeon, Junhyun
Molecular Microbiology, Vol. 66, Issue 2
DOI: 10.1111/j.1365-2958.2007.05918.x

tRNA thiolation links translation to stress responses in Saccharomyces cerevisiae
journal, January 2015

Damon, Jadyn R.; Pincus, David; Ploegh, Hidde L.
Molecular Biology of the Cell, Vol. 26, Issue 2
DOI: 10.1091/mbc.E14-06-1145

Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
journal, January 2006

Smith, Jennifer J.; Sydorskyy, Yaroslav; Marelli, Marcello
Molecular Systems Biology, Vol. 2, Issue 1
DOI: 10.1038/msb4100051

Metabolic engineering of the oleaginous yeast Rhodosporidium toruloides IFO0880 for lipid overproduction during high-density fermentation
journal, September 2016

Zhang, Shuyan; Ito, Masakazu; Skerker, Jeffrey M.
Applied Microbiology and Biotechnology, Vol. 100, Issue 21
DOI: 10.1007/s00253-016-7815-y

Metabolomic Profiling of Rhodosporidium toruloides Grown on Glycerol for Carotenoid Production during Different Growth Phases
journal, October 2014

Lee, Jaslyn Jie Lin; Chen, Liwei; Shi, Jiahua
Journal of Agricultural and Food Chemistry, Vol. 62, Issue 41
DOI: 10.1021/jf502987q

Seipin is required for converting nascent to mature lipid droplets
journal, August 2016

Wang, Huajin; Becuwe, Michel; Housden, Benjamin E.
eLife, Vol. 5
DOI: 10.7554/eLife.16582

A Role for Phosphatidic Acid in the Formation of “Supersized” Lipid Droplets
journal, July 2011

Fei, Weihua; Shui, Guanghou; Zhang, Yuxi
PLoS Genetics, Vol. 7, Issue 7
DOI: 10.1371/journal.pgen.1002201

Genome-Wide Localization Study of Yeast Pex11 Identifies Peroxisome–Mitochondria Interactions through the ERMES Complex
journal, June 2015

Mattiazzi Ušaj, M.; Brložnik, M.; Kaferle, P.
Journal of Molecular Biology, Vol. 427, Issue 11
DOI: 10.1016/j.jmb.2015.03.004

Signaling pathways for stress responses and adaptation in Aspergillus species: stress biology in the post-genomic era
journal, February 2016

Hagiwara, Daisuke; Sakamoto, Kazutoshi; Abe, Keietsu
Bioscience, Biotechnology, and Biochemistry, Vol. 80, Issue 9
DOI: 10.1080/09168451.2016.1162085

Insertional mutagenesis in yeasts using T-DNA fromAgrobacterium tumefaciens
journal, January 2002

Bundock, Paul; van Attikum, Haico; den Dulk-Ras, Amke
Yeast, Vol. 19, Issue 6
DOI: 10.1002/yea.858

Culture strategies for lipid production using acetic acid as sole carbon source by Rhodosporidium toruloides
journal, April 2016

Huang, Xiang-Feng; Liu, Jia-Nan; Lu, Li-Jun
Bioresource Technology, Vol. 206
DOI: 10.1016/j.biortech.2016.01.073

Gene Ontology: tool for the unification of biology
journal, May 2000

Ashburner, Michael; Ball, Catherine A.; Blake, Judith A.
Nature Genetics, Vol. 25, Issue 1
DOI: 10.1038/75556

The yeast p24 complex regulates GPI-anchored protein transport and quality control by monitoring anchor remodeling
journal, August 2011

Castillon, Guillaume A.; Aguilera-Romero, Auxiliadora; Manzano-Lopez, Javier
Molecular Biology of the Cell, Vol. 22, Issue 16
DOI: 10.1091/mbc.E11-04-0294

P58 ^IPK , a Novel Endoplasmic Reticulum Stress-inducible Protein and Potential Negative Regulator of eIF2α Signaling
journal, February 2003

van Huizen, Rika; Martindale, Jennifer L.; Gorospe, Myriam
Journal of Biological Chemistry, Vol. 278, Issue 18
DOI: 10.1074/jbc.M212074200

Rapid Quantification of Mutant Fitness in Diverse Bacteria by Sequencing Randomly Bar-Coded Transposons
journal, May 2015

Wetmore, Kelly M.; Price, Morgan N.; Waters, Robert J.
mBio, Vol. 6, Issue 3, Article No. e00306-15
DOI: 10.1128/mBio.00306-15

Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes
journal, May 2015

Le Breton, Yoann; Belew, Ashton T.; Valdes, Kayla M.
Scientific Reports, Vol. 5, Issue 1
DOI: 10.1038/srep09838

The Lipid-Droplet Proteome Reveals that Droplets Are a Protein-Storage Depot
journal, September 2006

Cermelli, Silvia; Guo, Yi; Gross, Steven P.
Current Biology, Vol. 16, Issue 18
DOI: 10.1016/j.cub.2006.07.062

Metabolic Interplay between Peroxisomes and Other Subcellular Organelles Including Mitochondria and the Endoplasmic Reticulum
journal, January 2016

Wanders, Ronald J. A.; Waterham, Hans R.; Ferdinandusse, Sacha
Frontiers in Cell and Developmental Biology, Vol. 3
DOI: 10.3389/fcell.2015.00083

Yeast diversity in hypersaline habitats
journal, March 2005

Butinar, L.; Santos, S.; Spencer-Martins, I.
FEMS Microbiology Letters, Vol. 244, Issue 2
DOI: 10.1016/j.femsle.2005.01.043

Microbial lipid production by Rhodosporidium toruloides under sulfate-limited conditions
journal, January 2011

Wu, Siguo; Zhao, Xin; Shen, Hongwei
Bioresource Technology, Vol. 102, Issue 2
DOI: 10.1016/j.biortech.2010.09.033

Barcode Sequencing Screen Identifies SUB1 as a Regulator of Yeast Pheromone Inducible Genes
journal, February 2016

Sliva, Anna; Kuang, Zheng; Meluh, Pamela B.
G3: Genes|Genomes|Genetics, Vol. 6, Issue 4
DOI: 10.1534/g3.115.026757

tRNA transfers to the limelight
journal, January 2003

Hopper, A. K.
Genes & Development, Vol. 17, Issue 2
DOI: 10.1101/gad.1049103

Agrobacterium-Mediated Plant Transformation: the Biology behind the "Gene-Jockeying" Tool
journal, March 2003

Gelvin, S. B.
Microbiology and Molecular Biology Reviews, Vol. 67, Issue 1, p. 16-37
DOI: 10.1128/MMBR.67.1.16-37.2003

TRAPP ing Rab18 in lipid droplets
journal, December 2016

Zappa, Francesca; Venditti, Rossella; De Matteis, Maria Antonietta
The EMBO Journal, Vol. 36, Issue 4
DOI: 10.15252/embj.201696287

Autophagy-independent function of Atg8 in lipid droplet dynamics in yeast
journal, December 2016

Maeda, Yuichiro; Oku, Masahide; Sakai, Yasuyoshi
Journal of Biochemistry
DOI: 10.1093/jb/mvw078

The Role of Nuclear Cap Binding Protein Cbc1p of Yeast in mRNA Termination and Degradation
journal, April 2000

Das, B.; Guo, Z.; Russo, P.
Molecular and Cellular Biology, Vol. 20, Issue 8
DOI: 10.1128/MCB.20.8.2827-2838.2000

Factors underlying the variability of lipid droplet fluorescence in MA-10 leydig tumor cells
journal, October 1994

Gocze, Peter M.; Freeman, Dale A.
Cytometry, Vol. 17, Issue 2
DOI: 10.1002/cyto.990170207

The lipid droplet—a well-connected organelle
journal, August 2015

Gao, Qiang; Goodman, Joel M.
Frontiers in Cell and Developmental Biology, Vol. 3
DOI: 10.3389/fcell.2015.00049

The Biochemistry and Physiology of Mitochondrial Fatty Acid β-Oxidation and Its Genetic Disorders
journal, February 2016

Houten, Sander M.; Violante, Sara; Ventura, Fatima V.
Annual Review of Physiology, Vol. 78, Issue 1
DOI: 10.1146/annurev-physiol-021115-105045

Measurement of mass, density, and volume during the cell cycle of yeast
journal, December 2009

Bryan, A. K.; Goranov, A.; Amon, A.
Proceedings of the National Academy of Sciences, Vol. 107, Issue 3
DOI: 10.1073/pnas.0901851107

New insights into the peroxisomal protein inventory: Acyl-CoA oxidases and -dehydrogenases are an ancient feature of peroxisomes
journal, January 2015

Camões, Fátima; Islinger, Markus; Guimarães, Sofia C.
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1853, Issue 1
DOI: 10.1016/j.bbamcr.2014.10.005

Loss of a Conserved tRNA Anticodon Modification Perturbs Cellular Signaling
journal, August 2013

Zinshteyn, Boris; Gilbert, Wendy V.
PLoS Genetics, Vol. 9, Issue 8
DOI: 10.1371/journal.pgen.1003675

Agrobacterium tumefaciens-mediated transformation of Aspergillus aculeatus for insertional mutagenesis
journal, January 2011

Kunitake, Emi; Tani, Shuji; Sumitani, Jun-ichi
AMB Express, Vol. 1, Issue 1
DOI: 10.1186/2191-0855-1-46

Lipid droplets and their component triglycerides and steryl esters regulate autophagosome biogenesis
journal, July 2015

Shpilka, Tomer; Welter, Evelyn; Borovsky, Noam
The EMBO Journal, Vol. 34, Issue 16
DOI: 10.15252/embj.201490315

Development of an Agrobacterium-mediated transformation system for the cold-adapted fungi Pseudogymnoascus destructans and P. pannorum
journal, August 2015

Zhang, Tao; Ren, Ping; Chaturvedi, Vishnu
Fungal Genetics and Biology, Vol. 81
DOI: 10.1016/j.fgb.2015.05.009

Agrobacterium tumefaciens-mediated transformation of Lasiodiplodia theobromae, the causal agent of gummosis in cashew nut plants
journal, January 2014

Muniz, C. R.; da Silva, G. F.; Souza Jr, M. T.
Genetics and Molecular Research, Vol. 13, Issue AOP
DOI: 10.4238/2014.February.21.8

NADP(H) Phosphatase Activities of Archaeal Inositol Monophosphatase and Eubacterial 3'-Phosphoadenosine 5'-Phosphate Phosphatase
journal, July 2007

Fukuda, C.; Kawai, S.; Murata, K.
Applied and Environmental Microbiology, Vol. 73, Issue 17
DOI: 10.1128/AEM.02703-06

Indirect and suboptimal control of gene expression is widespread in bacteria
journal, January 2013

Price, Morgan N.; Deutschbauer, Adam M.; Skerker, Jeffrey M.
Molecular Systems Biology, Vol. 9, Issue 1
DOI: 10.1038/msb.2013.16

Genome-wide identification of bacterial plant colonization genes
journal, September 2017

Cole, Benjamin J.; Feltcher, Meghan E.; Waters, Robert J.
PLOS Biology, Vol. 15, Issue 9
DOI: 10.1371/journal.pbio.2002860

Essential Gene Discovery in the Basidiomycete Cryptococcus neoformans for Antifungal Drug Target Prioritization
journal, March 2015

Ianiri, Giuseppe; Idnurm, Alexander
mBio, Vol. 6, Issue 2
DOI: 10.1128/mBio.02334-14

AMPK and vacuole-associated Atg14p orchestrate μ-lipophagy for energy production and long-term survival under glucose starvation
journal, April 2017

Seo, Arnold Y.; Lau, Pick-Wei; Feliciano, Daniel
eLife, Vol. 6
DOI: 10.7554/eLife.21690

Overcoming recalcitrant transformation and gene manipulation in Pucciniomycotina yeasts
journal, November 2012

Abbott, Erika P.; Ianiri, Giuseppe; Castoria, Raffaello
Applied Microbiology and Biotechnology, Vol. 97, Issue 1
DOI: 10.1007/s00253-012-4561-7

Phosphoregulatory protein 14-3-3 facilitates SAC1 transport from the endoplasmic reticulum
journal, June 2015

Bajaj Pahuja, Kanika; Wang, Jinzhi; Blagoveshchenskaya, Anastasia
Proceedings of the National Academy of Sciences, Vol. 112, Issue 25
DOI: 10.1073/pnas.1509119112

The role of malic enzyme in the regulation of lipid accumulation in filamentous fungi
journal, August 1999

Wynn, J. P.; Hamid, A. b. A.; Ratledge, C.
Microbiology, Vol. 145, Issue 8
DOI: 10.1099/13500872-145-8-1911

A Functional, Genome-wide Evaluation of Liposensitive Yeast Identifies the “ ARE2 Required for Viability” ( ARV1 ) Gene Product as a Major Component of Eukaryotic Fatty Acid Resistance
journal, November 2013

Ruggles, Kelly V.; Garbarino, Jeanne; Liu, Ying
Journal of Biological Chemistry, Vol. 289, Issue 7
DOI: 10.1074/jbc.M113.515197

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
DOI: 10.1038/ncomms2112

SEIPIN Regulates Lipid Droplet Expansion and Adipocyte Development by Modulating the Activity of Glycerol-3-phosphate Acyltransferase
journal, November 2016

Pagac, Martin; Cooper, Daniel E.; Qi, Yanfei
Cell Reports, Vol. 17, Issue 6
DOI: 10.1016/j.celrep.2016.10.037

Regulation of Nitrogen Metabolism by GATA Zinc Finger Transcription Factors in Yarrowia lipolytica
journal, February 2017

Pomraning, Kyle R.; Bredeweg, Erin L.; Baker, Scott E.
mSphere, Vol. 2, Issue 1
DOI: 10.1128/mSphere.00038-17

Phylogenetic classification of yeasts and related taxa within Pucciniomycotina
journal, June 2015

Wang, Q. -M.; Yurkov, A. M.; Göker, M.
Studies in Mycology, Vol. 81
DOI: 10.1016/j.simyco.2015.12.002

The superfamily of mitochondrial Complex1_LYR motif-containing (LYRM) proteins
journal, September 2013

Angerer, Heike
Biochemical Society Transactions, Vol. 41, Issue 5
DOI: 10.1042/BST20130116

A One Pot, One Step, Precision Cloning Method with High Throughput Capability
journal, November 2008

Engler, Carola; Kandzia, Romy; Marillonnet, Sylvestre
PLoS ONE, Vol. 3, Issue 11, Article No. e3647
DOI: 10.1371/journal.pone.0003647

A fluorescence-activated cell sorting-based strategy for rapid isolation of high-lipid Chlamydomonas mutants
journal, October 2014

Terashima, Mia; Freeman, Elizabeth S.; Jinkerson, Robert E.
The Plant Journal, Vol. 81, Issue 1
DOI: 10.1111/tpj.12682

Integration of Agrobacterium tumefaciens T-DNA in the Saccharomyces cerevisiae genome by illegitimate recombination
journal, December 1996

Bundock, P.; Hooykaas, P. J. J.
Proceedings of the National Academy of Sciences, Vol. 93, Issue 26, p. 15272-15275
DOI: 10.1073/pnas.93.26.15272

Functional overexpression and characterization of lipogenesis-related genes in the oleaginous yeast Yarrowia lipolytica
journal, February 2016

Silverman, Andrew M.; Qiao, Kangjian; Xu, Peng
Applied Microbiology and Biotechnology, Vol. 100, Issue 8
DOI: 10.1007/s00253-016-7376-0

Leaf Rust of Cultivated Barley: Pathology and Control
journal, August 2015

Park, Robert F.; Golegaonkar, Prashant G.; Derevnina, Lida
Annual Review of Phytopathology, Vol. 53, Issue 1
DOI: 10.1146/annurev-phyto-080614-120324

Malic enzyme: the controlling activity for lipid production? Overexpression of malic enzyme in Mucor circinelloides leads to a 2.5-fold increase in lipid accumulation
journal, July 2007

Zhang, Y.; Adams, I. P.; Ratledge, C.
Microbiology, Vol. 153, Issue 7
DOI: 10.1099/mic.0.2006/002683-0

COPI Complex Is a Regulator of Lipid Homeostasis
journal, November 2008

Beller, Mathias; Sztalryd, Carole; Southall, Noel
PLoS Biology, Vol. 6, Issue 11
DOI: 10.1371/journal.pbio.0060292

Annotating non-coding regions of the genome
journal, July 2010

Alexander, Roger P.; Fang, Gang; Rozowsky, Joel
Nature Reviews Genetics, Vol. 11, Issue 8
DOI: 10.1038/nrg2814

From The Cover: Highly efficient gene replacements in Neurospora strains deficient for nonhomologous end-joining
journal, August 2004

Ninomiya, Y.; Suzuki, K.; Ishii, C.
Proceedings of the National Academy of Sciences, Vol. 101, Issue 33
DOI: 10.1073/pnas.0402780101

Agrobacterium tumefaciens-mediated genetic transformation of the Taxol-producing endophytic fungus Ozonium sp EFY21
journal, January 2013

Liu, L.; Wei, Y. M.; Zhou, X. W.
Genetics and Molecular Research, Vol. 12, Issue 3
DOI: 10.4238/2013.August.12.7

The T-DNA integration pattern in Arabidopsis transformants is highly determined by the transformed target cell
journal, October 2009

De Buck, Sylvie; Podevin, Nancy; Nolf, Jonah
The Plant Journal, Vol. 60, Issue 1
DOI: 10.1111/j.1365-313X.2009.03942.x

LC3, a microtubule-associated protein1A/B light chain3, is involved in cytoplasmic lipid droplet formation
journal, March 2010

Shibata, Masahiro; Yoshimura, Kentaro; Tamura, Hirosumi
Biochemical and Biophysical Research Communications, Vol. 393, Issue 2
DOI: 10.1016/j.bbrc.2010.01.121

The Saccharomyces cerevisiae ICL2 Gene Encodes a Mitochondrial 2-Methylisocitrate Lyase Involved in Propionyl-Coenzyme A Metabolism
journal, December 2000

Luttik, M. A. H.; Kotter, P.; Salomons, F. A.
Journal of Bacteriology, Vol. 182, Issue 24
DOI: 10.1128/JB.182.24.7007-7013.2000

Transformation of the cucurbit powdery mildew pathogen Podosphaera xanthii by Agrobacterium tumefaciens
journal, November 2016

Martínez‐Cruz, Jesús; Romero, Diego; Vicente, Antonio
New Phytologist, Vol. 213, Issue 4
DOI: 10.1111/nph.14297

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
DOI: 10.1002/pmic.200500339

Autophagy regulates lipid metabolism
journal, April 2009

Singh, Rajat; Kaushik, Susmita; Wang, Yongjun
Nature, Vol. 458, Issue 7242
DOI: 10.1038/nature07976

A New Fluorescence-Based Method Identifies Protein Phosphatases Regulating Lipid Droplet Metabolism
journal, October 2010

Bozaquel-Morais, Bruno L.; Madeira, Juliana B.; Maya-Monteiro, Clarissa M.
PLoS ONE, Vol. 5, Issue 10
DOI: 10.1371/journal.pone.0013692

An evolutionary metabolic engineering approach for enhancing lipogenesis in Yarrowia lipolytica
journal, May 2015

Liu, Leqian; Pan, Anny; Spofford, Caitlin
Metabolic Engineering, Vol. 29
DOI: 10.1016/j.ymben.2015.02.003

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
DOI: 10.1016/j.ymben.2015.02.005

Lipid Droplets Finally Get a Little R-E-S-P-E-C-T
journal, November 2009

Farese, Robert V.; Walther, Tobias C.
Cell, Vol. 139, Issue 5
DOI: 10.1016/j.cell.2009.11.005

The oxidative pentose phosphate pathway is the primary source of NADPH for lipid overproduction from glucose in Yarrowia lipolytica
journal, July 2015

Wasylenko, Thomas M.; Ahn, Woo Suk; Stephanopoulos, Gregory
Metabolic Engineering, Vol. 30
DOI: 10.1016/j.ymben.2015.02.007

Crossroads of PI3K and Rac pathways
journal, April 2015

Campa, Carlo C.; Ciraolo, Elisa; Ghigo, Alessandra
Small GTPases, Vol. 6, Issue 2
DOI: 10.4161/21541248.2014.989789

Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants
journal, October 2009

Langridge, G. C.; Phan, M. -D.; Turner, D. J.
Genome Research, Vol. 19, Issue 12
DOI: 10.1101/gr.097097.109

Production of Lactones and Peroxisomal Beta-Oxidation in Yeasts
journal, January 1996

Endrizzi, Anne; Pagot, Yves; Clainche, Annick Le
Critical Reviews in Biotechnology, Vol. 16, Issue 4
DOI: 10.3109/07388559609147424

Cryptococcus: from environmental saprophyte to global pathogen
journal, December 2015

May, Robin C.; Stone, Neil R. H.; Wiesner, Darin L.
Nature Reviews Microbiology, Vol. 14, Issue 2
DOI: 10.1038/nrmicro.2015.6

Validating regulatory predictions from diverse bacteria with mutant fitness data
journal, May 2017

Sagawa, Shiori; Price, Morgan N.; Deutschbauer, Adam M.
PLOS ONE, Vol. 12, Issue 5
DOI: 10.1371/journal.pone.0178258

Integrating siRNA and protein-protein interaction data to identify an expanded insulin signaling network
journal, March 2009

Tu, Z.; Argmann, C.; Wong, K. K.
Genome Research, Vol. 19, Issue 6
DOI: 10.1101/gr.087890.108

Engineering Rhodosporidium toruloides for the production of very long-chain monounsaturated fatty acid-rich oils
journal, August 2017

Fillet, Sandy; Ronchel, Carmen; Callejo, Carla
Applied Microbiology and Biotechnology, Vol. 101, Issue 19
DOI: 10.1007/s00253-017-8461-8

T-DNA integration patterns in co-transformed plant cells suggest that T-DNA repeats originate from co-integration of separate T-DNAs
journal, January 1997

Neve, Myriam; Buck, Sylvie; Jacobs, Anni
The Plant Journal, Vol. 11, Issue 1
DOI: 10.1046/j.1365-313X.1997.11010015.x

Inositol Deacylation of Glycosylphosphatidylinositol-anchored Proteins Is Mediated by Mammalian PGAP1 and Yeast Bst1p
journal, January 2004

Tanaka, Satoshi; Maeda, Yusuke; Tashima, Yuko
Journal of Biological Chemistry, Vol. 279, Issue 14
DOI: 10.1074/jbc.M313755200

A high-throughput gene knockout procedure for Neurospora reveals functions for multiple transcription factors
journal, June 2006

Colot, H. V.; Park, G.; Turner, G. E.
Proceedings of the National Academy of Sciences, Vol. 103, Issue 27
DOI: 10.1073/pnas.0601456103

Involvement of the G3P shuttle and β-oxidation pathway in the control of TAG synthesis and lipid accumulation in Yarrowia lipolytica
journal, September 2011

Dulermo, Thierry; Nicaud, Jean-Marc
Metabolic Engineering, Vol. 13, Issue 5, p. 482-491
DOI: 10.1016/j.ymben.2011.05.002

Synthesis of Triacylglycerols by the Acyl-Coenzyme A:Diacyl-Glycerol Acyltransferase Dga1p in Lipid Particles of the Yeast Saccharomyces cerevisiae
journal, January 2002

Sorger, D.; Daum, G.
Journal of Bacteriology, Vol. 184, Issue 2
DOI: 10.1128/JB.184.2.519-524.2002

G*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences
journal, May 2007

Faul, Franz; Erdfelder, Edgar; Lang, Albert-Georg
Behavior Research Methods, Vol. 39, Issue 2
DOI: 10.3758/BF03193146

Fiji: an open-source platform for biological-image analysis
journal, June 2012

Schindelin, Johannes; Arganda-Carreras, Ignacio; Frise, Erwin
Nature Methods, Vol. 9, Issue 7
DOI: 10.1038/nmeth.2019

Fatty alcohols production by oleaginous yeast
journal, August 2015

Fillet, Sandy; Gibert, Jordi; Suárez, Beatriz
Journal of Industrial Microbiology & Biotechnology, Vol. 42, Issue 11
DOI: 10.1007/s10295-015-1674-x

Novel gene functions required for melanization of the human pathogen Cryptococcus neoformans : Genes for melanization of
journal, July 2005

Walton, Felicia J.; Idnurm, Alexander; Heitman, Joseph
Molecular Microbiology, Vol. 57, Issue 5
DOI: 10.1111/j.1365-2958.2005.04779.x

Engineered high content of ricinoleic acid in fission yeast Schizosaccharomyces pombe
journal, February 2012

Holic, Roman; Yazawa, Hisashi; Kumagai, Hiromichi
Applied Microbiology and Biotechnology, Vol. 95, Issue 1
DOI: 10.1007/s00253-012-3959-6

Agrobacterium-mediated transformation as a tool for functional genomics in fungi
journal, May 2005

Michielse, Caroline B.; Hooykaas, Paul J. J.; van den Hondel, Cees A. M. J. J.
Current Genetics, Vol. 48, Issue 1
DOI: 10.1007/s00294-005-0578-0

High-value oils from plants
journal, May 2008

Dyer, John M.; Stymne, Sten; Green, Allan G.
The Plant Journal, Vol. 54, Issue 4
DOI: 10.1111/j.1365-313X.2008.03430.x

Inositol Deacylation by Bst1p Is Required for the Quality Control of Glycosylphosphatidylinositol-anchored Proteins
journal, February 2006

Fujita, Morihisa; Yoko-o, Takehiko; Jigami, Yoshifumi
Molecular Biology of the Cell, Vol. 17, Issue 2
DOI: 10.1091/mbc.E05-05-0443

Single-cell mass spectrometry reveals the importance of genetic diversity and plasticity for phenotypic variation in nitrogen-limited Chlamydomonas
journal, December 2016

Krismer, Jasmin; Tamminen, Manu; Fontana, Simone
The ISME Journal, Vol. 11, Issue 4
DOI: 10.1038/ismej.2016.167

Lipid Droplets and Cellular Lipid Metabolism
journal, July 2012

Walther, Tobias C.; Farese, Robert V.
Annual Review of Biochemistry, Vol. 81, Issue 1
DOI: 10.1146/annurev-biochem-061009-102430

Role of Rab GTPases in Membrane Traffic and Cell Physiology
journal, January 2011

Hutagalung, Alex H.; Novick, Peter J.
Physiological Reviews, Vol. 91, Issue 1
DOI: 10.1152/physrev.00059.2009

Balancing the fat: lipid droplets and human disease
journal, June 2013

Krahmer, Natalie; Farese, Robert V.; Walther, Tobias C.
EMBO Molecular Medicine, Vol. 5, Issue 7
DOI: 10.1002/emmm.201100671

The genome portal of the Department of Energy Joint Genome Institute: 2014 updates
journal, November 2013

Nordberg, Henrik; Cantor, Michael; Dusheyko, Serge
Nucleic Acids Research, Vol. 42, Issue D1
DOI: 10.1093/nar/gkt1069

An evaluation of new and established methods to determine T-DNA copy number and homozygosity in transgenic plants.: Estimating T-DNA copy number in transgenic plants
journal, January 2016

Głowacka, Katarzyna; Kromdijk, Johannes; Leonelli, Lauriebeth
Plant, Cell & Environment, Vol. 39, Issue 4
DOI: 10.1111/pce.12693

MycoCosm portal: gearing up for 1000 fungal genomes
journal, December 2013

Grigoriev, Igor V.; Nikitin, Roman; Haridas, Sajeet
Nucleic Acids Research, Vol. 42, Issue D1
DOI: 10.1093/nar/gkt1183

Fld1p, a functional homologue of human seipin, regulates the size of lipid droplets in yeast
journal, February 2008

Fei, Weihua; Shui, Guanghou; Gaeta, Bruno
The Journal of Cell Biology, Vol. 180, Issue 3
DOI: 10.1083/jcb.200711136

Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung
journal, September 2009

Gawronski, J. D.; Wong, S. M. S.; Giannoukos, G.
Proceedings of the National Academy of Sciences, Vol. 106, Issue 38
DOI: 10.1073/pnas.0906627106

Metabolic network analysis and experimental study of lipid production in Rhodosporidium toruloides grown on single and mixed substrates
journal, March 2015

Bommareddy, Rajesh Reddy; Sabra, Wael; Maheshwari, Garima
Microbial Cell Factories, Vol. 14, Issue 1
DOI: 10.1186/s12934-015-0217-5

Engineering Rhodosporidium toruloides with a membrane transporter facilitates production and separation of carotenoids and lipids in a bi-phasic culture
journal, November 2015

Lee, Jaslyn J. L.; Chen, Liwei; Cao, Bin
Applied Microbiology and Biotechnology, Vol. 100, Issue 2
DOI: 10.1007/s00253-015-7102-3

PAT proteins, an ancient family of lipid droplet proteins that regulate cellular lipid stores
journal, June 2009

Bickel, Perry E.; Tansey, John T.; Welte, Michael A.
Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids, Vol. 1791, Issue 6
DOI: 10.1016/j.bbalip.2009.04.002

Efficient transformation of Agrobacterium tumefaciens by electroporation
journal, May 1990

Mersereau, Mark; Pazour, Gregory J.; Das, Anath
Gene, Vol. 90, Issue 1
DOI: 10.1016/0378-1119(90)90452-W

Characterization of the Drosophila Lipid Droplet Subproteome
journal, March 2006

Beller, Mathias; Riedel, Dietmar; Jänsch, Lothar
Molecular & Cellular Proteomics, Vol. 5, Issue 6
DOI: 10.1074/mcp.M600011-MCP200

Open source clustering software
journal, February 2004

de Hoon, M. J. L.; Imoto, S.; Nolan, J.
Bioinformatics, Vol. 20, Issue 9
DOI: 10.1093/bioinformatics/bth078

Sulfur Amino Acids Regulate Translational Capacity and Metabolic Homeostasis through Modulation of tRNA Thiolation
journal, July 2013

Laxman, Sunil; Sutter, Benjamin M.; Wu, Xi
Cell, Vol. 154, Issue 2
DOI: 10.1016/j.cell.2013.06.043

14-3-3 Proteins Interact with a Hybrid Prenyl-Phosphorylation Motif to Inhibit G Proteins
journal, May 2013

Riou, Philippe; Kjær, Svend; Garg, Ritu
Cell, Vol. 153, Issue 5
DOI: 10.1016/j.cell.2013.05.003

Unraveling the roles of PLIN5: linking cell biology to physiology
journal, March 2015

Mason, Rachael R.; Watt, Matthew J.
Trends in Endocrinology & Metabolism, Vol. 26, Issue 3
DOI: 10.1016/j.tem.2015.01.005

Biotechnological production of carotenoids by yeasts: an overview
journal, January 2014

Mata-Gómez, Luis; Montañez, Julio; Méndez-Zavala, Alejandro
Microbial Cell Factories, Vol. 13, Issue 1
DOI: 10.1186/1475-2859-13-12

The diversity of fungal genome
journal, April 2015

Mohanta, Tapan Kumar; Bae, Hanhong
Biological Procedures Online, Vol. 17, Issue 1
DOI: 10.1186/s12575-015-0020-z

tRNA’s Wobble Decoding of the Genome: 40 Years of Modification
journal, February 2007

Agris, Paul F.; Vendeix, Franck A. P.; Graham, William D.
Journal of Molecular Biology, Vol. 366, Issue 1
DOI: 10.1016/j.jmb.2006.11.046

Fluorescence-Based Flow Sorting in Parallel with Transposon Insertion Site Sequencing Identifies Multidrug Efflux Systems in Acinetobacter baumannii
journal, September 2016

Hassan, Karl A.; Cain, Amy K.; Huang, TaoTao
mBio, Vol. 7, Issue 5
DOI: 10.1128/mBio.01200-16

Dynamics of the Lipid Droplet Proteome of the Oleaginous Yeast Rhodosporidium toruloides
journal, January 2015

Zhu, Zhiwei; Ding, Yunfeng; Gong, Zhiwei
Eukaryotic Cell, Vol. 14, Issue 3
DOI: 10.1128/EC.00141-14

Isolation of oleaginous yeast ( Rhodosporidium toruloides ) mutants tolerant of sugarcane bagasse hydrolysate
journal, February 2014

Kitahara, Yuki; Yin, Tie; Zhao, Xuebing
Bioscience, Biotechnology, and Biochemistry, Vol. 78, Issue 2
DOI: 10.1080/09168451.2014.882746

Functional mapping of yeast genomes by saturated transposition
journal, May 2017

Michel, Agnès H.; Hatakeyama, Riko; Kimmig, Philipp
eLife, Vol. 6
DOI: 10.7554/eLife.23570

Two T-DNA's co-transformed intoBrassica napus by a doubleAgrobacterium tumefaciens infection are mainly integrated at the same locus
journal, September 1991

De Block, Marc; Debrouwer, Dirk
Theoretical and Applied Genetics, Vol. 82, Issue 3
DOI: 10.1007/BF02190610

Cell-to-Cell Heterogeneity in Lipid Droplets Suggests a Mechanism to Reduce Lipotoxicity
journal, August 2013

Herms, Albert; Bosch, Marta; Ariotti, Nicholas
Current Biology, Vol. 23, Issue 15
DOI: 10.1016/j.cub.2013.06.032

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
journal, September 2003

Li, L.
Genome Research, Vol. 13, Issue 9
DOI: 10.1101/gr.1224503

Autophagy regulates adipose mass and differentiation in mice
journal, October 2009

Singh, Rajat; Xiang, Youqing; Wang, Yongjun
Journal of Clinical Investigation
DOI: 10.1172/JCI39228

Genome-wide barcoded transposon screen for cancer drug sensitivity in haploid mouse embryonic stem cells
journal, March 2017

Pettitt, Stephen J.; Krastev, Dragomir B.; Pemberton, Helen N.
Scientific Data, Vol. 4, Issue 1
DOI: 10.1038/sdata.2017.20

Expanding Roles for Lipid Droplets
journal, June 2015

Welte, Michael A.
Current Biology, Vol. 25, Issue 11
DOI: 10.1016/j.cub.2015.04.004

Enhanced lipid production by Rhodosporidium toruloides using different fed-batch feeding strategies with lignocellulosic hydrolysate as the sole carbon source
journal, June 2016

Fei, Qiang; O’Brien, Marykate; Nelson, Robert
Biotechnology for Biofuels, Vol. 9, Issue 1
DOI: 10.1186/s13068-016-0542-x

Autophagy Regulates Cholesterol Efflux from Macrophage Foam Cells via Lysosomal Acid Lipase
journal, June 2011

Ouimet, Mireille; Franklin, Vivian; Mak, Esther
Cell Metabolism, Vol. 13, Issue 6
DOI: 10.1016/j.cmet.2011.03.023

Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes
journal, January 2003

Ashrafi, Kaveh; Chang, Francesca Y.; Watts, Jennifer L.
Nature, Vol. 421, Issue 6920
DOI: 10.1038/nature01279

Engineering Rhodosporidium toruloides for increased lipid production : Engineering
journal, November 2015

Zhang, Shuyan; Skerker, Jeffrey M.; Rutter, Charles D.
Biotechnology and Bioengineering, Vol. 113, Issue 5
DOI: 10.1002/bit.25864

Recurrent background mutations in WHI2 impair proteostasis and degradation of misfolded cytosolic proteins in Saccharomyces cerevisiae
journal, June 2017

Comyn, Sophie A.; Flibotte, Stéphane; Mayor, Thibault
Scientific Reports, Vol. 7, Issue 1
DOI: 10.1038/s41598-017-04525-8

High confidence proteomic analysis of yeast LDs identifies additional droplet proteins and reveals connections to dolichol synthesis and sterol acetylation
journal, May 2014

Currie, Erin; Guo, Xiuling; Christiano, Romain
Journal of Lipid Research, Vol. 55, Issue 7
DOI: 10.1194/jlr.M050229

Autophagy and Lipid Metabolism Coordinately Modulate Life Span in Germline-less C. elegans
journal, September 2011

Lapierre, Louis R.; Gelino, Sara; Meléndez, Alicia
Current Biology, Vol. 21, Issue 18
DOI: 10.1016/j.cub.2011.07.042

Identification of gene disruptions for increased poly-3-hydroxybutyrate accumulation in Synechocystis PCC 6803
journal, July 2009

Tyo, Keith E. J.; Jin, Yong-Su; Espinoza, Freddy A.
Biotechnology Progress, Vol. 25, Issue 5
DOI: 10.1002/btpr.228

An efficient Agrobacterium-mediated transformation method for the edible mushroom Hypsizygus marmoreus
journal, September 2014

Zhang, Jin jing; Shi, Liang; Chen, Hui
Microbiological Research, Vol. 169, Issue 9-10
DOI: 10.1016/j.micres.2014.01.004

Neutral Lipid Stores and Lipase PNPLA5 Contribute to Autophagosome Biogenesis
journal, March 2014

Dupont, Nicolas; Chauhan, Santosh; Arko-Mensah, John
Current Biology, Vol. 24, Issue 6
DOI: 10.1016/j.cub.2014.02.008

Contributions of Carnitine Acetyltransferases to Intracellular Acetyl Unit Transport in Candida albicans
journal, June 2010

Strijbis, Karin; van Roermund, Carlo W.; van den Burg, Janny
Journal of Biological Chemistry, Vol. 285, Issue 32
DOI: 10.1074/jbc.M109.094250

Fatty acid composition of leaf lipids determined after combined digestion and fatty acid methyl ester formation from fresh tissue
journal, January 1986

Browse, John; McCourt, Peter J.; Somerville, Christopher R.
Analytical Biochemistry, Vol. 152, Issue 1
DOI: 10.1016/0003-2697(86)90132-6

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
DOI: 10.1093/nar/gkr1029

High-density cultivation of oleaginous yeast Rhodosporidium toruloides Y4 in fed-batch culture
journal, August 2007

Li, Yonghong; Zhao, Zongbao (Kent); Bai, Fengwu
Enzyme and Microbial Technology, Vol. 41, Issue 3
DOI: 10.1016/j.enzmictec.2007.02.008

Yeasts colonizing the leaves of fruit trees
journal, September 2009

SlÁviková, Elena; Vadkertiová, Renata; Vránová, Dana
Annals of Microbiology, Vol. 59, Issue 3
DOI: 10.1007/BF03175125

Lipid Droplets and Peroxisomes: Key Players in Cellular Lipid Homeostasis or A Matter of Fat--Store 'em Up or Burn 'em Down
journal, December 2012

Kohlwein, S. D.; Veenhuis, M.; van der Klei, I. J.
Genetics, Vol. 193, Issue 1, p. 1-50
DOI: 10.1534/genetics.112.143362

Works referencing / citing this record:

Proteome analysis of xylose metabolism in Rhodotorula toruloides during lipid production
journal, June 2019

Tiukova, Ievgeniia A.; Brandenburg, Jule; Blomqvist, Johanna
Biotechnology for Biofuels, Vol. 12, Issue 1
DOI: 10.1186/s13068-019-1478-8

Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880
journal, October 2019

Jagtap, Sujit Sadashiv; Bedekar, Ashwini Ashok; Liu, Jing-Jing
Biotechnology for Biofuels, Vol. 12, Issue 1
DOI: 10.1186/s13068-019-1586-5

Proteome analysis of xylose metabolism in Rhodotorula toruloides during lipid production
journal, June 2019

Tiukova, Ievgeniia A.; Brandenburg, Jule; Blomqvist, Johanna
Biotechnology for Biofuels, Vol. 12, Issue 1
DOI: 10.1186/s13068-019-1478-8

Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880
journal, October 2019

Jagtap, Sujit Sadashiv; Bedekar, Ashwini Ashok; Liu, Jing-Jing
Biotechnology for Biofuels, Vol. 12, Issue 1
DOI: 10.1186/s13068-019-1586-5

Maize multi-omics reveal roles for autophagic recycling in proteome remodelling and lipid turnover
journal, November 2018

McLoughlin, Fionn; Augustine, Robert C.; Marshall, Richard S.
Nature Plants, Vol. 4, Issue 12
DOI: 10.1038/s41477-018-0299-2

RNA interference in the oleaginous yeast Rhodosporidium toruloides
journal, April 2019

Liu, Xiangjian; Zhang, Yue; Liu, Hongdi
FEMS Yeast Research, Vol. 19, Issue 3
DOI: 10.1093/femsyr/foz031

Transposon insertional mutagenesis in Saccharomyces uvarum reveals trans -acting effects influencing species-dependent essential genes
journal, January 2019

Sanchez, Monica R.; Payen, Celia; Cheong, Frances
Genome Research, Vol. 29, Issue 3
DOI: 10.1101/gr.232330.117

Similar Records in DOE PAGES and OSTI.GOV collections:

Development of the Oleaginous Yeast Rhodosporidium Toruloides as a New Model Organism for a Systems-Level Analysis of Lipid Productivity

Technical Report Brem, Rachel ; Coradetti, Samuel ; Skerker, Jeffrey ; ...

The goal of our project has been to develop one of the most productive oleaginous yeasts, Rhodosporidium toruloides, into a powerful model for systems-level research leading to the production of advanced biofuels. Under carbon-replete growth conditions in which nitrogen, sulfur or phosphorus are limiting, R. toruloides accumulates up to 70% of its dry weight in neutral lipids. We set out to find the genes that underlie this remarkable characteristic. To accomplish this, during the award period our team developed a functional-genomic toolkit for R. toruloides based on barcoded mutagenesis.
Engineering transcriptional regulation of pentose metabolism in Rhodosporidium toruloides for improved conversion of xylose to bioproducts

Journal Article Coradetti, Samuel T. ; Adamczyk, Paul A. ; Liu, Di ; ... - Microbial Cell Factories

Efficient conversion of pentose sugars remains a significant barrier to the replacement of petroleum-derived chemicals with plant biomass-derived bioproducts. While the oleaginous yeast Rhodosporidium toruloides (also known as Rhodotorula toruloides) has a relatively robust native metabolism of pentose sugars compared to other wild yeasts, faster assimilation of those sugars will be required for industrial utilization of pentoses. To increase the rate of pentose assimilation in R. toruloides, we leveraged previously reported high-throughput fitness data to identify potential regulators of pentose catabolism. Two genes were selected for further investigation, a putative transcription factor (RTO4_12978, Pnt1) and a homolog of a glucosemore »« less
https://doi.org/10.1186/s12934-023-02148-5
Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880

Journal Article Jagtap, Sujit Sadashiv ; Bedekar, Ashwini Ashok ; Liu, Jing-Jing ; ... - Biotechnology for Biofuels

Abstract Background Sugar alcohols are commonly used as low-calorie sweeteners and can serve as potential building blocks for bio-based chemicals. Previous work has shown that the oleaginous yeast Rhodosporidium toruloides IFO0880 can natively produce arabitol from xylose at relatively high titers, suggesting that it may be a useful host for sugar alcohol production. In this work, we explored whether R. toruloides can produce additional sugar alcohols. Results Rhodosporidium toruloides is able to produce galactitol from galactose. During growth in nitrogen-rich medium, R. toruloides produced 3.2 ± 0.6 g/L, and 8.4 ± 0.8 g/L galactitol from 20 to 40 g/L galactose, respectively. In addition, R. toruloides was ablemore »« less
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https://doi.org/10.1186/s13068-019-1586-5
Integrating transcriptomic and metabolomic analysis of the oleaginous yeast Rhodosporidium toruloides IFO0880 during growth under different carbon sources

Journal Article Jagtap, Sujit Sadashiv ; Deewan, Anshu ; Liu, Jing-Jing ; ... - Applied Microbiology and Biotechnology

Rhodosporidium toruloides is an oleaginous yeast capable of producing a variety of biofuels and bioproducts from diverse carbon sources. Despite numerous studies showing its promise as a platform microorganism, little is known about its metabolism and physiology. In this work, we investigated the central carbon metabolism in R. toruloides IFO0880 using transcriptomics and metabolomics during growth on glucose, xylose, acetate, or soybean oil. These substrates were chosen because they can be derived from plants. Significant changes in gene expression and metabolite concentrations were observed during growth on these four substrates. We mapped these changes onto the governing metabolic pathways tomore »« less
https://doi.org/10.1007/s00253-021-11549-8

Full Text Available
Multi-omics driven metabolic network reconstruction and analysis of lignocellulosic carbon utilization in Rhodosporidium toruloides

Journal Article Kim, Joonhoon ; Coradetti, Samuel T. ; Kim, Young-Mo ; ... - Frontiers in Bioengineering and Biotechnology

An oleaginous yeast Rhodosporidium toruloides is a promising host for converting lignocellulosic biomass to bioproducts and biofuels. In this work, we performed multi-omics analysis of lignocellulosic carbon utilization in R. toruloides and reconstructed the genome-scale metabolic network of R. toruloides. High-quality metabolic network models for model organisms and orthologous protein mapping were used to build a draft metabolic network reconstruction. The reconstruction was manually curated to build a metabolic model using functional annotation and multi-omics data including transcriptomics, proteomics, metabolomics, and RB-TDNA sequencing. The multi-omics data and metabolic model were used to investigate R. toruloides metabolism including lipid accumulation andmore »« less
https://doi.org/10.3389/fbioe.2020.612832

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Title: Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides

Abstract

Citation Formats

A Lipid Droplet-Associated GFP Reporter-Based Screen Identifies New Fat Storage Regulators in C. elegans journal, May 2014

The Structural Features of Thousands of T-DNA Insertion Sites Are Consistent with a Double-Strand Break Repair-Based Insertion Mechanism journal, November 2015

Mitochondrial long chain fatty acid β-oxidation in man and mouse journal, August 2009

Agrobacterium tumefaciens-mediated transformation of the soybean pathogen Phomopsis longicolla journal, March 2013

PomBase: a comprehensive online resource for fission yeast journal, October 2011

Identification of Conidiogenesis-Associated Genes in Colletotrichum gloeosporioides by Agrobacterium tumefaciens-Mediated Transformation journal, September 2016

Metabolic engineering for ricinoleic acid production in the oleaginous yeast Yarrowia lipolytica journal, October 2013

Regulation of the Regulators: Post-Translational Modifications, Subcellular, and Spatiotemporal Distribution of Plant 14-3-3 Proteins journal, May 2016

Agrobacterium tumefaciens Integrates Transfer DNA into Single Chromosomal Sites of Dimorphic Fungi and Yields Homokaryotic Progeny from Multinucleate Yeast journal, December 2002

Protein Correlation Profiles Identify Lipid Droplet Proteins with High Confidence journal, January 2013

Transposon sequencing: methods and expanding applications journal, October 2015

Kinetic Regulation of the Mitochondrial Glycerol-3-phosphate Dehydrogenase by the External NADH Dehydrogenase in Saccharomyces cerevisiae journal, May 2002

A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae journal, August 2008

Systematic analysis of genome-wide fitness data in yeast reveals novel gene function and drug action journal, January 2010

Fatty Acid Trafficking in Starved Cells: Regulation by Lipid Droplet Lipolysis, Autophagy, and Mitochondrial Fusion Dynamics journal, March 2015

Agrobacterium-mediated transformation of Guignardia citricarpa: An efficient tool to gene transfer and random mutagenesis journal, July 2013

Phosphate-limitation mediated lipid production by Rhodosporidium toruloides journal, August 2010

Functional genomic screen reveals genes involved in lipid-droplet formation and utilization journal, April 2008

A role for lipid droplets in inter-membrane lipid traffic journal, February 2009

Acyl-CoA Dehydrogenases: Dynamic History of Protein Family Evolution journal, July 2009

Comprehensive identification of conditionally essential genes in mycobacteria journal, October 2001

Not Just Fat: The Structure and Function of the Lipid Droplet journal, January 2011

Exploiting Bioprocessing Fluctuations to Elicit the Mechanistics of De Novo Lipogenesis in Yarrowia lipolytica journal, January 2017

Peroxisomal Acyl-CoA oxidase 4 activity differs between Arabidopsis accessions journal, November 2011

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources journal, November 2011

In Vivo Analysis of the Mechanisms for Oxidation of Cytosolic NADH by Saccharomyces cerevisiae Mitochondria journal, May 2000

Lipid particles/droplets of the yeast Saccharomyces cerevisiae revisited: Lipidome meets Proteome journal, December 2011

FSP27 contributes to efficient energy storage in murine white adipocytes by promoting the formation of unilocular lipid droplets journal, July 2008

Concomitant Production of Lipids and Carotenoids in Rhodosporidium toruloides under Osmotic Stress Using Response Surface Methodology journal, October 2016

Cloning and disruption of a gene required for growth on acetate but not on ethanol: The acetyl-coenzyme a synthetase gene ofSaccharmoyces cerevisiae journal, December 1992

Phylogenetic diversity of stress signaling pathways in fungi journal, January 2009

14-3-3 Proteins Are Essential for RAS/MAPK Cascade Signaling during Pseudohyphal Development in S. cerevisiae journal, June 1997

The lipodystrophy protein seipin is found at endoplasmic reticulum lipid droplet junctions and is important for droplet morphology journal, December 2007

The MAP1-LC3 conjugation system is involved in lipid droplet formation journal, May 2009

Origins of Cell-to-Cell Bioprocessing Diversity and Implications of the Extracellular Environment Revealed at the Single-Cell Level journal, December 2015

Human disorders of peroxisome metabolism and biogenesis journal, May 2016

UV-resistant yeasts isolated from a high-altitude volcanic area on the Atacama Desert as eukaryotic models for astrobiology journal, July 2015

Identification of ATP-NADH kinase isozymes and their contribution to supply of NADP(H) in Saccharomyces cerevisiae: Saccharomyces cerevisiae NADH kinases journal, June 2005

The cAMP/protein kinase A signaling pathway in pathogenic basidiomycete fungi: Connections with iron homeostasis journal, August 2015

Functional profiling of the Saccharomyces cerevisiae genome journal, July 2002

Lipid droplets maintain lipid homeostasis during anaphase for efficient cell separation in budding yeast journal, August 2016

Emergence and Spread of New Races of Wheat Stem Rust Fungus: Continued Threat to Food Security and Prospects of Genetic Control journal, July 2015

Effects of biomass hydrolysis by-products on oleaginous yeast Rhodosporidium toruloides journal, October 2009

Lipid Droplet Protein LID-1 Mediates ATGL-1-Dependent Lipolysis during Fasting in Caenorhabditis elegans journal, September 2014

A simple technique for the preparation and storage of sucrose gradients journal, November 1983

14-3-3 proteins: potential roles in vesicular transport and Ras signaling in Saccharomyces cerevisiae. journal, December 1995

Seipin regulates ER –lipid droplet contacts and cargo delivery journal, October 2016

Regulation of lipid droplet dynamics in Saccharomyces cerevisiae depends on the Rab7-like Ypt7p, HOPS complex and V1-ATPase journal, May 2015

Identification of Genes Affecting Lipid Content Using Transposon Mutagenesis in Saccharomyces cerevisiae journal, January 2006

A critical assessment of Agrobacterium tumefaciens-mediated transformation as a tool for pathogenicity gene discovery in the phytopathogenic fungus Leptosphaeria maculans journal, February 2007

“Density equilibrium” method for the quantitative and rapid in situ determination of lipid, hydrocarbon, or biopolymer content in microorganisms journal, April 2009

Highly efficient transformation system for Malassezia furfur and Malassezia pachydermatis using Agrobacterium tumefaciens-mediated transformation journal, March 2017

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica journal, March 2016

Identification of 23 complementation groups required for post-translational events in the yeast secretory pathway journal, August 1980

Involvement of Rad52 in T-DNA circle formation during A grobacterium tumefaciens -mediated transformation of S accharomyces cerevisiae : Involvement of Rad52 in T-DNA circle formation journal, February 2014

Lipid droplet autophagy in the yeast Saccharomyces cerevisiae journal, January 2014

High-throughput fluorescence-activated cell sorting for lipid hyperaccumulating Chlamydomonas reinhardtii mutants journal, April 2014

Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13 804 T-DNA flanking sequences from an enhancer-trap mutant library: T-DNA flanking sequence tags in rice journal, February 2007

Genetic and dietary regulation of lipid droplet expansion in Caenorhabditis elegans journal, February 2010

Lipid production in batch and fed-batch cultures of Rhodosporidium toruloidesfrom 5 and 6 carbon carbohydrates journal, May 2012

Genome-wide analysis of T-DNA integration into the chromosomes of Magnaporthe oryzae journal, October 2007

tRNA thiolation links translation to stress responses in Saccharomyces cerevisiae journal, January 2015

Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism journal, January 2006

Metabolic engineering of the oleaginous yeast Rhodosporidium toruloides IFO0880 for lipid overproduction during high-density fermentation journal, September 2016

Metabolomic Profiling of Rhodosporidium toruloides Grown on Glycerol for Carotenoid Production during Different Growth Phases journal, October 2014

Seipin is required for converting nascent to mature lipid droplets journal, August 2016

A Role for Phosphatidic Acid in the Formation of “Supersized” Lipid Droplets journal, July 2011

Genome-Wide Localization Study of Yeast Pex11 Identifies Peroxisome–Mitochondria Interactions through the ERMES Complex journal, June 2015

Signaling pathways for stress responses and adaptation in Aspergillus species: stress biology in the post-genomic era journal, February 2016

Insertional mutagenesis in yeasts using T-DNA fromAgrobacterium tumefaciens journal, January 2002

Culture strategies for lipid production using acetic acid as sole carbon source by Rhodosporidium toruloides journal, April 2016

Gene Ontology: tool for the unification of biology journal, May 2000

The yeast p24 complex regulates GPI-anchored protein transport and quality control by monitoring anchor remodeling journal, August 2011

P58 IPK , a Novel Endoplasmic Reticulum Stress-inducible Protein and Potential Negative Regulator of eIF2α Signaling journal, February 2003

Rapid Quantification of Mutant Fitness in Diverse Bacteria by Sequencing Randomly Bar-Coded Transposons journal, May 2015

Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes journal, May 2015

The Lipid-Droplet Proteome Reveals that Droplets Are a Protein-Storage Depot journal, September 2006

A Lipid Droplet-Associated GFP Reporter-Based Screen Identifies New Fat Storage Regulators in C. elegans
journal, May 2014

The Structural Features of Thousands of T-DNA Insertion Sites Are Consistent with a Double-Strand Break Repair-Based Insertion Mechanism
journal, November 2015

Mitochondrial long chain fatty acid β-oxidation in man and mouse
journal, August 2009

Agrobacterium tumefaciens-mediated transformation of the soybean pathogen Phomopsis longicolla
journal, March 2013

PomBase: a comprehensive online resource for fission yeast
journal, October 2011

Identification of Conidiogenesis-Associated Genes in Colletotrichum gloeosporioides by Agrobacterium tumefaciens-Mediated Transformation
journal, September 2016

Metabolic engineering for ricinoleic acid production in the oleaginous yeast Yarrowia lipolytica
journal, October 2013

Regulation of the Regulators: Post-Translational Modifications, Subcellular, and Spatiotemporal Distribution of Plant 14-3-3 Proteins
journal, May 2016

Agrobacterium tumefaciens Integrates Transfer DNA into Single Chromosomal Sites of Dimorphic Fungi and Yields Homokaryotic Progeny from Multinucleate Yeast
journal, December 2002

Protein Correlation Profiles Identify Lipid Droplet Proteins with High Confidence
journal, January 2013

Transposon sequencing: methods and expanding applications
journal, October 2015

Kinetic Regulation of the Mitochondrial Glycerol-3-phosphate Dehydrogenase by the External NADH Dehydrogenase in Saccharomyces cerevisiae
journal, May 2002

A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae
journal, August 2008

Systematic analysis of genome-wide fitness data in yeast reveals novel gene function and drug action
journal, January 2010

Fatty Acid Trafficking in Starved Cells: Regulation by Lipid Droplet Lipolysis, Autophagy, and Mitochondrial Fusion Dynamics
journal, March 2015

Agrobacterium-mediated transformation of Guignardia citricarpa: An efficient tool to gene transfer and random mutagenesis
journal, July 2013

Phosphate-limitation mediated lipid production by Rhodosporidium toruloides
journal, August 2010

Functional genomic screen reveals genes involved in lipid-droplet formation and utilization
journal, April 2008

A role for lipid droplets in inter-membrane lipid traffic
journal, February 2009

Acyl-CoA Dehydrogenases: Dynamic History of Protein Family Evolution
journal, July 2009

Comprehensive identification of conditionally essential genes in mycobacteria
journal, October 2001

Not Just Fat: The Structure and Function of the Lipid Droplet
journal, January 2011

Exploiting Bioprocessing Fluctuations to Elicit the Mechanistics of De Novo Lipogenesis in Yarrowia lipolytica
journal, January 2017

Peroxisomal Acyl-CoA oxidase 4 activity differs between Arabidopsis accessions
journal, November 2011

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources
journal, November 2011

In Vivo Analysis of the Mechanisms for Oxidation of Cytosolic NADH by Saccharomyces cerevisiae Mitochondria
journal, May 2000

Lipid particles/droplets of the yeast Saccharomyces cerevisiae revisited: Lipidome meets Proteome
journal, December 2011

FSP27 contributes to efficient energy storage in murine white adipocytes by promoting the formation of unilocular lipid droplets
journal, July 2008

Concomitant Production of Lipids and Carotenoids in Rhodosporidium toruloides under Osmotic Stress Using Response Surface Methodology
journal, October 2016

Cloning and disruption of a gene required for growth on acetate but not on ethanol: The acetyl-coenzyme a synthetase gene ofSaccharmoyces cerevisiae
journal, December 1992

Phylogenetic diversity of stress signaling pathways in fungi
journal, January 2009

14-3-3 Proteins Are Essential for RAS/MAPK Cascade Signaling during Pseudohyphal Development in S. cerevisiae
journal, June 1997

The lipodystrophy protein seipin is found at endoplasmic reticulum lipid droplet junctions and is important for droplet morphology
journal, December 2007

The MAP1-LC3 conjugation system is involved in lipid droplet formation
journal, May 2009

Origins of Cell-to-Cell Bioprocessing Diversity and Implications of the Extracellular Environment Revealed at the Single-Cell Level
journal, December 2015

Human disorders of peroxisome metabolism and biogenesis
journal, May 2016

UV-resistant yeasts isolated from a high-altitude volcanic area on the Atacama Desert as eukaryotic models for astrobiology
journal, July 2015

Identification of ATP-NADH kinase isozymes and their contribution to supply of NADP(H) in Saccharomyces cerevisiae: Saccharomyces cerevisiae NADH kinases
journal, June 2005

The cAMP/protein kinase A signaling pathway in pathogenic basidiomycete fungi: Connections with iron homeostasis
journal, August 2015

Functional profiling of the Saccharomyces cerevisiae genome
journal, July 2002

Lipid droplets maintain lipid homeostasis during anaphase for efficient cell separation in budding yeast
journal, August 2016

Emergence and Spread of New Races of Wheat Stem Rust Fungus: Continued Threat to Food Security and Prospects of Genetic Control
journal, July 2015

Effects of biomass hydrolysis by-products on oleaginous yeast Rhodosporidium toruloides
journal, October 2009

Lipid Droplet Protein LID-1 Mediates ATGL-1-Dependent Lipolysis during Fasting in Caenorhabditis elegans
journal, September 2014

A simple technique for the preparation and storage of sucrose gradients
journal, November 1983

14-3-3 proteins: potential roles in vesicular transport and Ras signaling in Saccharomyces cerevisiae.
journal, December 1995

Seipin regulates ER –lipid droplet contacts and cargo delivery
journal, October 2016

Regulation of lipid droplet dynamics in Saccharomyces cerevisiae depends on the Rab7-like Ypt7p, HOPS complex and V1-ATPase
journal, May 2015

Identification of Genes Affecting Lipid Content Using Transposon Mutagenesis in Saccharomyces cerevisiae
journal, January 2006

A critical assessment of Agrobacterium tumefaciens-mediated transformation as a tool for pathogenicity gene discovery in the phytopathogenic fungus Leptosphaeria maculans
journal, February 2007

“Density equilibrium” method for the quantitative and rapid in situ determination of lipid, hydrocarbon, or biopolymer content in microorganisms
journal, April 2009

Highly efficient transformation system for Malassezia furfur and Malassezia pachydermatis using Agrobacterium tumefaciens-mediated transformation
journal, March 2017

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica
journal, March 2016

Identification of 23 complementation groups required for post-translational events in the yeast secretory pathway
journal, August 1980

Involvement of Rad52 in T-DNA circle formation during A grobacterium tumefaciens -mediated transformation of S accharomyces cerevisiae : Involvement of Rad52 in T-DNA circle formation
journal, February 2014

Lipid droplet autophagy in the yeast Saccharomyces cerevisiae
journal, January 2014

High-throughput fluorescence-activated cell sorting for lipid hyperaccumulating Chlamydomonas reinhardtii mutants
journal, April 2014

Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13 804 T-DNA flanking sequences from an enhancer-trap mutant library: T-DNA flanking sequence tags in rice
journal, February 2007

Genetic and dietary regulation of lipid droplet expansion in Caenorhabditis elegans
journal, February 2010

Lipid production in batch and fed-batch cultures of Rhodosporidium toruloidesfrom 5 and 6 carbon carbohydrates
journal, May 2012

Genome-wide analysis of T-DNA integration into the chromosomes of Magnaporthe oryzae
journal, October 2007

tRNA thiolation links translation to stress responses in Saccharomyces cerevisiae
journal, January 2015

Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
journal, January 2006

Metabolic engineering of the oleaginous yeast Rhodosporidium toruloides IFO0880 for lipid overproduction during high-density fermentation
journal, September 2016

Metabolomic Profiling of Rhodosporidium toruloides Grown on Glycerol for Carotenoid Production during Different Growth Phases
journal, October 2014

Seipin is required for converting nascent to mature lipid droplets
journal, August 2016

A Role for Phosphatidic Acid in the Formation of “Supersized” Lipid Droplets
journal, July 2011

Genome-Wide Localization Study of Yeast Pex11 Identifies Peroxisome–Mitochondria Interactions through the ERMES Complex
journal, June 2015

Signaling pathways for stress responses and adaptation in Aspergillus species: stress biology in the post-genomic era
journal, February 2016

Insertional mutagenesis in yeasts using T-DNA fromAgrobacterium tumefaciens
journal, January 2002

Culture strategies for lipid production using acetic acid as sole carbon source by Rhodosporidium toruloides
journal, April 2016

Gene Ontology: tool for the unification of biology
journal, May 2000

The yeast p24 complex regulates GPI-anchored protein transport and quality control by monitoring anchor remodeling
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