4.7 Article

Genome-scale metabolic modeling underscores the potential of Cutaneotrichosporon oleaginosus ATCC 20509 as a cell factory for biofuel production

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0

Laurent Heirendt et al.

NATURE PROTOCOLS (2019)

Review Biotechnology & Applied Microbiology

Oleaginous yeasts for sustainable lipid production-from biodiesel to surf boards, a wide range of green applications

Bruno Vasconcelos et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2019)

Article Multidisciplinary Sciences

The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation

Jesse C. J. van Dam et al.

SCIENTIFIC DATA (2019)

Article Biotechnology & Applied Microbiology

Multi-Factorial-Guided Media Optimization for Enhanced Biomass and Lipid Formation by the Oleaginous Yeast Cutaneotrichosporon oleaginosus

Dania Awad et al.

FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY (2019)

Article Mathematical & Computational Biology

Genome-scale model-driven strain design for dicarboxylic acid production in Yarrowia lipolytica

Pranjul Mishra et al.

BMC SYSTEMS BIOLOGY (2018)

Article Biochemical Research Methods

SAPP: functional genome annotation and analysis through a semantic framework using FAIR principles

Jasper J. Koehorst et al.

BIOINFORMATICS (2018)

Article Biotechnology & Applied Microbiology

Lipid production in Yarrowia lipolytica is maximized by engineering cytosolic redox metabolism

Kangjian Qiao et al.

NATURE BIOTECHNOLOGY (2017)

Article Biochemical Research Methods

Erroneous energy-generating cycles in published genome scale metabolic networks: Identification and removal

Claus Jonathan Fritzemeier et al.

PLOS COMPUTATIONAL BIOLOGY (2017)

Review Microbiology

Metabolic Engineering of Oleaginous Yeasts for Production of Fuels and Chemicals

Shuobo Shi et al.

FRONTIERS IN MICROBIOLOGY (2017)

Article Biochemical Research Methods

Standardizing biomass reactions and ensuring complete mass balance in genome-scale metabolic models

Siu H. J. Chan et al.

BIOINFORMATICS (2017)

Article Materials Science, Paper & Wood

Feasibility of Lipid Production from Waste Paper by the Oleaginous Yeast Cryptococcus curvatus

Wenting Zhou et al.

BIORESOURCES (2017)

Review Microbiology

New kids on the block: emerging oleaginous yeast of biotechnological importance

Allison Yaguchi et al.

AIMS MICROBIOLOGY (2017)

Article Biochemical Research Methods

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS

Katharina J. Hoff et al.

BIOINFORMATICS (2016)

Article Mathematical & Computational Biology

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica

Eduard J. Kerkhoven et al.

NPJ SYSTEMS BIOLOGY AND APPLICATIONS (2016)

Article Mathematical & Computational Biology

Optimization of lipid production with a genome-scale model of Yarrowia lipolytica

Martin Kavscek et al.

BMC SYSTEMS BIOLOGY (2015)

Article Endocrinology & Metabolism

Biomass composition: the elephant in the room of metabolic modelling

Duygu Dikicioglu et al.

METABOLOMICS (2015)

Article Biochemical Research Methods

HISAT: a fast spliced aligner with low memory requirements

Daehwan Kim et al.

NATURE METHODS (2015)

Article Mycology

Towards an integrated phylogenetic classification of the Tremellomycetes

X. -Z. Liu et al.

STUDIES IN MYCOLOGY (2015)

Article Biochemical Research Methods

EnzDP: Improved enzyme annotation for metabolic network reconstruction based on domain composition profiles

Nam-Ninh Nguyen et al.

JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY (2015)

Article Food Science & Technology

Oleaginous yeast Cryptococcus curvatus exhibits interplay between biosynthesis of intracellular sugars and lipids

Sidoine Sadjeu Tchakouteu et al.

EUROPEAN JOURNAL OF LIPID SCIENCE AND TECHNOLOGY (2015)

Article Biochemistry & Molecular Biology

BioModels: ten-year anniversary

Vijayalakshmi Chelliah et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Agricultural Engineering

Co-utilization of glucose, xylose and cellobiose by the oleaginous yeast Cryptococcus curvatus

Xiaochen Yu et al.

BIOMASS & BIOENERGY (2014)

Article Agricultural Engineering

Effect of feeding strategies on lipid production by Lipomyces starkeyi

Andreia Anschau et al.

BIORESOURCE TECHNOLOGY (2014)

Review Biotechnology & Applied Microbiology

Yeast lipid metabolism at a glance

Lisa Klug et al.

FEMS YEAST RESEARCH (2014)

Article Biotechnology & Applied Microbiology

Enhanced lipid accumulation in the yeast Yarrowia lipolytica by over-expression of ATP:citrate lyase from Mus musculus

Huaiyuan Zhang et al.

JOURNAL OF BIOTECHNOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin et al.

BIOINFORMATICS (2013)

Article Mathematical & Computational Biology

A genome-scale metabolic model of the lipid-accumulating yeast Yarrowia lipolytica

Nicolas Loira et al.

BMC SYSTEMS BIOLOGY (2012)

Review Biotechnology & Applied Microbiology

An overview of lipid metabolism in yeasts and its impact on biotechnological processes

Athanasios Beopoulos et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2011)

Review Biotechnology & Applied Microbiology

Oily yeasts as oleaginous cell factories

Jose Manuel Ageitos et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2011)

Article Agricultural Engineering

Microbial lipid production by Rhodosporidium toruloides under sulfate-limited conditions

Siguo Wu et al.

BIORESOURCE TECHNOLOGY (2011)

Article Biochemical Research Methods

Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

Jan Schellenberger et al.

NATURE PROTOCOLS (2011)

Review Biochemistry & Molecular Biology

Revisiting the TCA cycle: signaling to tumor formation

Nuno Raimundo et al.

TRENDS IN MOLECULAR MEDICINE (2011)

Article Agricultural Engineering

Converting crude glycerol derived from yellow grease to lipids through yeast fermentation

Yanna Liang et al.

BIORESOURCE TECHNOLOGY (2010)

Article Biochemical Research Methods

Sampling the Solution Space in Genome-Scale Metabolic Networks Reveals Transcriptional Regulation in Key Enzymes

Sergio Bordel et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Review Biochemistry & Molecular Biology

Use of Randomized Sampling for Analysis of Metabolic Networks

Jan Schellenberger et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2009)

Review Green & Sustainable Science & Technology

Biodiesel production from oleaginous microorganisms

Xin Meng et al.

RENEWABLE ENERGY (2009)

Article Mathematical & Computational Biology

The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation:: a scaffold to query lipid metabolism

Intawat Nookaew et al.

BMC SYSTEMS BIOLOGY (2008)

Article Biotechnology & Applied Microbiology

High-density cultivation of oleaginous yeast Rhodosporidium toruloides Y4 in fed-batch culture

Yonghong Li et al.

ENZYME AND MICROBIAL TECHNOLOGY (2007)

Review Biochemistry & Molecular Biology

Phospholipid synthesis in yeast: regulation by phosphorylation

GM Carman et al.

BIOCHEMISTRY AND CELL BIOLOGY (2004)

Article Biotechnology & Applied Microbiology

An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)

JL Reed et al.

GENOME BIOLOGY (2003)

Article Biochemistry & Molecular Biology

Regulation of lipid accumulation in oleaginous micro-organisms

C Ratledge

BIOCHEMICAL SOCIETY TRANSACTIONS (2002)

Article Agricultural Engineering

Lipid production by Yarrowia lipolytica growing on industrial glycerol in a single-stage continuous culture

S Papanikolaou et al.

BIORESOURCE TECHNOLOGY (2002)

Article Biochemical Research Methods

InterProScan - an integration platform for the signature-recognition methods in InterPro

EM Zdobnov et al.

BIOINFORMATICS (2001)

Article Microbiology

Biodiversity and systematics of basidiomycetous yeasts as determined by large-subunit rDNA D1/D2 domain sequence analysis

JW Fell et al.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2000)

Article Biochemistry & Molecular Biology

KEGG: Kyoto Encyclopedia of Genes and Genomes

M Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2000)

Review Biochemistry & Molecular Biology

Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry

B Teusink et al.

EUROPEAN JOURNAL OF BIOCHEMISTRY (2000)