Synthetic gene design-The rationale for codon optimization and implications for molecular pharming in plants

Development of phytase-expressing chlamydomonas reinhardtii for monogastric animal nutrition

(2016) Fernanda Erpel et al.   BMC BIOTECHNOLOGY

Genetic engineering of Synechocystis PCC6803 for the photoautotrophic production of the sweetener erythritol

(2016) Aniek D. van der Woude et al.   Microbial Cell Factories

Transcriptome-enabled discovery and functional characterization of enzymes related to (2S)-pinocembrin biosynthesis from Ornithogalum caudatum and their application for metabolic engineering

(2016) Lei Guo et al.   Microbial Cell Factories

Characterization of an Sf-rhabdovirus-negative Spodoptera frugiperda cell line as an alternative host for recombinant protein production in the baculovirus-insect cell system

(2016) Ajay B. Maghodia et al.   PROTEIN EXPRESSION AND PURIFICATION

A novel peptide with potent and broad-spectrum antiviral activities against multiple respiratory viruses

(2016) Hanjun Zhao et al.   Scientific Reports

Comparative assessment of native and heterologous 2-oxo acid decarboxylases for application in isobutanol production by Saccharomyces cerevisiae

(2015) N. Milne et al.   Biotechnology for Biofuels

ATGme: Open-source web application for rare codon identification and custom DNA sequence optimization

(2015) Edward Daniel et al.   BMC BIOINFORMATICS

Biosynthesis of Essential Polyunsaturated Fatty Acids in Wheat Triggered by Expression of Artificial Gene

(2015) Daniel Mihálik et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Engineering β1,4-galactosyltransferase I to reduce secretion and enhance N-glycan elongation in insect cells

(2015) Christoph Geisler et al.   JOURNAL OF BIOTECHNOLOGY

Synonymous Codon Usage Affects the Expression of Wild Type and F508del CFTR

(2015) Kalpit Shah et al.   JOURNAL OF MOLECULAR BIOLOGY

Transgenic tobacco plants with improved cyanobacterial Rubisco expression but no extra assembly factors grow at near wild-type rates if provided with elevated CO2

(2015) Alessandro Occhialini et al.   PLANT JOURNAL

A Heteromeric Membrane-Bound Prenyltransferase Complex from Hop Catalyzes Three Sequential Aromatic Prenylations in the Bitter Acid Pathway

(2015) Haoxun Li et al.   PLANT PHYSIOLOGY

Recombinant Pvs48/45 Antigen Expressed in E. coli Generates Antibodies that Block Malaria Transmission in Anopheles albimanus Mosquitoes

(2015) Myriam Arévalo-Herrera et al.   PLoS One

Plant Molecular Pharming for the Treatment of Chronic and Infectious Diseases

(2014) Eva Stoger et al.   Annual Review of Plant Biology

Codon Optimization OnLine (COOL): a web-based multi-objective optimization platform for synthetic gene design

(2014) Ju Xin Chin et al.   BIOINFORMATICS

D-Tailor: automated analysis and design of DNA sequences

(2014) Joao C. Guimaraes et al.   BIOINFORMATICS

A condition-specific codon optimization approach for improved heterologous gene expression in Saccharomyces cerevisiae

(2014) Amanda M Lanza et al.   BMC Systems Biology

Emerging roles of tRNA in adaptive translation, signalling dynamics and disease

(2014) Sebastian Kirchner et al.   NATURE REVIEWS GENETICS

The multidrug ABC transporter BmrC/BmrD of Bacillus subtilis is regulated via a ribosome-mediated transcriptional attenuation mechanism

(2014) Ewoud Reilman et al.   NUCLEIC ACIDS RESEARCH

Improved expression of recombinant plant-made hEGF

(2014) David Rhys Thomas et al.   PLANT CELL REPORTS

A Modular Plasmid Assembly Kit for Multigene Expression, Gene Silencing and Silencing Rescue in Plants

(2014) Andreas Binder et al.   PLoS One

Refining the Balance of Attenuation and Immunogenicity of Respiratory Syncytial Virus by Targeted Codon Deoptimization of Virulence Genes

(2014) J. Meng et al.   mBio

The Effects of Codon Context on In Vivo Translation Speed

(2014) Fabienne F. V. Chevance et al.   PLoS Genetics

Production of Lycopene in the Non-Carotenoid-Producing Yeast Yarrowia lipolytica

(2013) Falk Matthäus et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evaluation of Phytate-Degrading Lactobacillus Culture Administration to Broiler Chickens

(2013) Tyler E. Askelson et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Benchmarking Various Green Fluorescent Protein Variants in Bacillus subtilis, Streptococcus pneumoniae, and Lactococcus lactis for Live Cell Imaging

(2013) Wout Overkamp et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Carbon dioxide fixation by Calvin-Cycle enzymes improves ethanol yield in yeast

(2013) Víctor Guadalupe-Medina et al.   Biotechnology for Biofuels

Transcriptional pathways associated with the slow growth phenotype of transformed Anaplasma marginale

(2013) Sebastián Aguilar Pierlé et al.   BMC GENOMICS

Target Product Selection - Where Can Molecular Pharming Make the Difference?

(2013) Mathew Paul et al.   CURRENT PHARMACEUTICAL DESIGN

COStar: A D-star Lite-based dynamic search algorithm for codon optimization

(2013) Xiaowu Liu et al.   JOURNAL OF THEORETICAL BIOLOGY

Broad host range vectors for expression of proteins with (Twin-) Strep-tag, His-tag and engineered, export optimized yellow fluorescent protein

(2013) Thorben Dammeyer et al.   Microbial Cell Factories

Engineering glutathione biosynthesis of Saccharomyces cerevisiae increases robustness to inhibitors in pretreated lignocellulosic materials

(2013) Magnus Ask et al.   Microbial Cell Factories

Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity

(2013) S. A. Shabalina et al.   NUCLEIC ACIDS RESEARCH

Suppression of Amber Codons in Caulobacter crescentus by the Orthogonal Escherichia coli Histidyl-tRNA Synthetase/tRNAHis Pair

(2013) Jae-hyeong Ko et al.   PLoS One

EuGene: maximizing synthetic gene design for heterologous expression

(2012) P. Gaspar et al.   BIOINFORMATICS

amdSYM, a new dominant recyclable marker cassette forSaccharomyces cerevisiae

(2012) Daniel Solis-Escalante et al.   FEMS YEAST RESEARCH

Manganese uptake in marine bacteria; the novel MntX transporter is widespread in Roseobacters, Vibrios, Alteromonadales and the SAR11 and SAR116 clades

(2012) Robert T Green et al.   ISME Journal

Engineering genes for predictable protein expression

(2012) Claes Gustafsson et al.   PROTEIN EXPRESSION AND PURIFICATION

Plant-made pharmaceuticals: Leading products and production platforms

(2011) Matthew Paul et al.   BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY

Codon usage: Nature's roadmap to expression and folding of proteins

(2011) Evelina Angov   Biotechnology Journal

Enhancement of Cancer Vaccine Therapy by Systemic Delivery of a Tumor-Targeting Salmonella-Based STAT3 shRNA Suppresses the Growth of Established Melanoma Tumors

(2011) E. R. Manuel et al.   CANCER RESEARCH

Vaccine farming in Cape Town

(2011) Edward P. Rybicki et al.   Human vaccines & immunotherapeutics

Efficient production of soluble recombinant single chain Fv fragments by a Pseudomonas putida strain KT2440 cell factory

(2011) Thorben Dammeyer et al.   Microbial Cell Factories

Multiparameter RNA and Codon Optimization: A Standardized Tool to Assess and Enhance Autologous Mammalian Gene Expression

(2011) Stephan Fath et al.   PLoS One

Species-Specific Codon Context Rules Unveil Non-Neutrality Effects of Synonymous Mutations

(2011) Gabriela R. Moura et al.   PLoS One

Production of heterologous proteins in plants: Strategies for optimal expression

(2010) Priti N Desai et al.   BIOTECHNOLOGY ADVANCES

How the Sequence of a Gene Can Tune Its Translation

(2010) Kurt Fredrick et al.   CELL

An Evolutionarily Conserved Mechanism for Controlling the Efficiency of Protein Translation

(2010) Tamir Tuller et al.   CELL

A Role for Codon Order in Translation Dynamics

(2010) Gina Cannarozzi et al.   CELL

Live attenuated influenza virus vaccines by computer-aided rational design

(2010) Steffen Mueller et al.   NATURE BIOTECHNOLOGY

Synonymous but not the same: the causes and consequences of codon bias

(2010) Joshua B. Plotkin et al.   NATURE REVIEWS GENETICS

Forces that influence the evolution of codon bias

(2010) P. M. Sharp et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Dynamic Organization of Aminoacyl-tRNA Synthetase Complexes in the Cytoplasm of Human Cells

(2009) Monika Kaminska et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

You're one in a googol: optimizing genes for protein expression

(2009) M. Welch et al.   Journal of the Royal Society Interface

Translationally Optimal Codons Associate with Structurally Sensitive Sites in Proteins

(2009) T. Zhou et al.   MOLECULAR BIOLOGY AND EVOLUTION

Design Parameters to Control Synthetic Gene Expression in Escherichia coli

(2009) Mark Welch et al.   PLoS One

Increased levels of recombinant human proteins with the Escherichia coli strain Rosetta(DE3)

(2009) Hanna Tegel et al.   PROTEIN EXPRESSION AND PURIFICATION

Coding-Sequence Determinants of Gene Expression in Escherichia coli

(2009) G. Kudla et al.   SCIENCE

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

Selection on Codon Bias

(2008) Ruth Hershberg et al.   Annual Review of Genetics

Cytosine Deaminase as a Negative Selection Marker for Gene Disruption and Replacement in the Genus Streptomyces and Other Actinobacteria

(2008) M.-P. Dubeau et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution

(2008) D. Allan Drummond et al.   CELL

An Important Role for the Multienzyme Aminoacyl-tRNA Synthetase Complex in Mammalian Translation and Cell Growth

(2008) Sophia V. Kyriacou et al.   MOLECULAR CELL

Heterologous Protein Expression Is Enhanced by Harmonizing the Codon Usage Frequencies of the Target Gene with those of the Expression Host

(2008) Evelina Angov et al.   PLoS One

Virus Attenuation by Genome-Scale Changes in Codon Pair Bias

(2008) J. R. Coleman et al.   SCIENCE