Road to the future of systems biotechnology: CRISPR-Cas-mediated metabolic engineering for recombinant protein production

Improving expression of recombinant human IGF-1 using IGF-1R knockout CHO cell lines

(2016) Sandrine Romand et al.   BIOTECHNOLOGY AND BIOENGINEERING

Overcoming substrate limitations for improved production of ethylene in E. coli

(2016) Sean Lynch et al.   Biotechnology for Biofuels

Genome Editing in Human Pluripotent Stem Cells: Approaches, Pitfalls, and Solutions

(2016) William T. Hendriks et al.   Cell Stem Cell

Studying the features of 57 confirmed CRISPR loci in 29 strains ofEscherichia coli

(2016) Seyyed Soheil Rahmatabadi et al.   JOURNAL OF BASIC MICROBIOLOGY

Metabolic engineering of Saccharomyces cerevisiae for the overproduction of short branched-chain fatty acids

(2016) Ai-Qun Yu et al.   METABOLIC ENGINEERING

Unknown

(2016)   YEAST

Multigene Editing in the Escherichia coli Genome via the CRISPR-Cas9 System

(2015) Yu Jiang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The CRISPR-Cas immune system: Biology, mechanisms and applications

(2015) Devashish Rath et al.   BIOCHIMIE

Metabolic engineering of Saccharomyces cerevisiae for linalool production

(2015) Pegah Amiri et al.   BIOTECHNOLOGY LETTERS

Metabolic engineering of Saccharomyces cerevisiae for production of butanol isomers

(2015) Wesley Cardoso Generoso et al.   CURRENT OPINION IN BIOTECHNOLOGY

A CRISPR/Cas9 Vector System for Tissue-Specific Gene Disruption in Zebrafish

(2015) Julien Ablain et al.   DEVELOPMENTAL CELL

Unknown

(2015)   GENESIS

Engineering the supply chain for protein production/secretion in yeasts and mammalian cells

(2015) Tobias Klein et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Metabolic engineering ofPichia pastoristo produce ricinoleic acid, a hydroxy fatty acid of industrial importance

(2015) Dauenpen Meesapyodsuk et al.   JOURNAL OF LIPID RESEARCH

Regulating malonyl-CoA metabolism via synthetic antisense RNAs for enhanced biosynthesis of natural products

(2015) Yaping Yang et al.   METABOLIC ENGINEERING

Metabolic engineering of Escherichia coli using CRISPR–Cas9 meditated genome editing

(2015) Yifan Li et al.   METABOLIC ENGINEERING

Multiplex metabolic pathway engineering using CRISPR/Cas9 in Saccharomyces cerevisiae

(2015) Tadas Jakočiūnas et al.   METABOLIC ENGINEERING

Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells

(2015) Jing Liao et al.   NATURE GENETICS

Applications of CRISPR–Cas systems in neuroscience

(2015) Matthias Heidenreich et al.   NATURE REVIEWS NEUROSCIENCE

Comparison of CRISPR/Cas9 expression constructs for efficient targeted mutagenesis in rice

(2015) Masafumi Mikami et al.   PLANT MOLECULAR BIOLOGY

Generation of knock-in primary human T cells using Cas9 ribonucleoproteins

(2015) Kathrin Schumann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-yield hydrogen production from biomass by in vitro metabolic engineering: Mixed sugars coutilization and kinetic modeling

(2015) Joseph A. Rollin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efficient gene-targeting in rat embryonic stem cells by CRISPR/Cas and generation of human kynurenine aminotransferase II (KAT II) knock-in rat

(2015) Satoshi Yamamoto et al.   TRANSGENIC RESEARCH

Designing a bacterial biosensor for detection of mercury in water solutions

(2015) Amir ROOINTAN et al.   TURKISH JOURNAL OF BIOLOGY

Metabolic engineering of Escherichia coli for the production of 1,3-diaminopropane, a three carbon diamine

(2015) Tong Un Chae et al.   Scientific Reports

Efficient CRISPR-Cas9-Mediated Generation of Knockin Human Pluripotent Stem Cells Lacking Undesired Mutations at the Targeted Locus

(2015) Florian T. Merkle et al.   Cell Reports

Targeted Germline Modifications in Rats Using CRISPR/Cas9 and Spermatogonial Stem Cells

(2015) Karen M. Chapman et al.   Cell Reports

Metabolic engineering toward enhanced LC-PUFA biosynthesis in Nannochloropsis oceanica : Overexpression of endogenous Δ12 desaturase driven by stress-inducible promoter leads to enhanced deposition of polyunsaturated fatty acids in TAG

(2015) Yuval Kaye et al.   Algal Research-Biomass Biofuels and Bioproducts

Cloning-free CRISPR/Cas system facilitates functional cassette knock-in in mice

(2015) Tomomi Aida et al.   GENOME BIOLOGY

A CRISPR/Cas-Mediated Selection-free Knockin Strategy in Human Embryonic Stem Cells

(2015) Zengrong Zhu et al.   Stem Cell Reports

Metabolic engineering for the high-yield production of isoprenoid-based C5 alcohols in E. coli

(2015) Kevin W. George et al.   Scientific Reports

Engineering of Protein Folding and Secretion—Strategies to Overcome Bottlenecks for Efficient Production of Recombinant Proteins

(2014) Marizela Delic et al.   ANTIOXIDANTS & REDOX SIGNALING

Metabolic engineering for improved production of ethanol by Corynebacterium glutamicum

(2014) Toru Jojima et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Use of the CRISPR/Cas9 System to Produce Genetically Engineered Pigs from In Vitro-Derived Oocytes and Embryos1

(2014) Kristin M. Whitworth et al.   BIOLOGY OF REPRODUCTION

One-step generation of knockout pigs by zygote injection of CRISPR/Cas system

(2014) Tang Hai et al.   CELL RESEARCH

Highly Specific and Efficient CRISPR/Cas9-Catalyzed Homology-Directed Repair inDrosophila

(2014) Scott J. Gratz et al.   GENETICS

Genome engineering for improved recombinant protein expression in Escherichia coli

(2014) Shubhashree Mahalik et al.   Microbial Cell Factories

CRISPR-Cas systems for editing, regulating and targeting genomes

(2014) Jeffry D Sander et al.   NATURE BIOTECHNOLOGY

Efficient genome modification by CRISPR-Cas9 nickase with minimal off-target effects

(2014) Bin Shen et al.   NATURE METHODS

Evolution of adaptive immunity from transposable elements combined with innate immune systems

(2014) Eugene V. Koonin et al.   NATURE REVIEWS GENETICS

CRISPR–Cas9-assisted recombineering in Lactobacillus reuteri

(2014) Jee-Hwan Oh et al.   NUCLEIC ACIDS RESEARCH

Classification and evolution of type II CRISPR-Cas systems

(2014) Krzysztof Chylinski et al.   NUCLEIC ACIDS RESEARCH

Antisense suppression ofLOX3gene expression in rice endosperm enhances seed longevity

(2014) Huibin Xu et al.   PLANT BIOTECHNOLOGY JOURNAL

Optimized CRISPR/Cas tools for efficient germline and somatic genome engineering in Drosophila

(2014) F. Port et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Codon Compression Algorithms for Saturation Mutagenesis

(2014) Gur Pines et al.   ACS Synthetic Biology

Homology-Integrated CRISPR–Cas (HI-CRISPR) System for One-Step Multigene Disruption in Saccharomyces cerevisiae

(2014) Zehua Bao et al.   ACS Synthetic Biology

Selection of chromosomal DNA libraries using a multiplex CRISPR system

(2014) Owen W Ryan et al.   eLife

Creation of targeted genomic deletions using TALEN or CRISPR/Cas nuclease pairs in one-cell mouse embryos

(2014) Christina Brandl et al.   FEBS Open Bio

EnhancingE. coliisobutanol tolerance through engineering its global transcription factor cAMP receptor protein (CRP)

(2013) Huiqing Chong et al.   BIOTECHNOLOGY AND BIOENGINEERING

One-Step Generation of Mice Carrying Mutations in Multiple Genes by CRISPR/Cas-Mediated Genome Engineering

(2013) Haoyi Wang et al.   CELL

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

Genome editing with RNA-guided Cas9 nuclease in Zebrafish embryos

(2013) Nannan Chang et al.   CELL RESEARCH

Efficient genome editing in plants using a CRISPR/Cas system

(2013) Zhengyan Feng et al.   CELL RESEARCH

Targeted mutagenesis in rice using CRISPR-Cas system

(2013) Jin Miao et al.   CELL RESEARCH

Efficient CRISPR/Cas9 genome editing with low off-target effects in zebrafish

(2013) A. Hruscha et al.   DEVELOPMENT

A simplified and efficient germline-specific CRISPR/Cas9 system forDrosophilagenomic engineering

(2013) Zachary L Sebo et al.   FLY

CRISPR/Cas9 and Genome Editing in Drosophila

(2013) Andrew R. Bassett et al.   Journal of Genetics and Genomics

Targeted Mutagenesis in Zea mays Using TALENs and the CRISPR/Cas System

(2013) Zhen Liang et al.   Journal of Genetics and Genomics

Structure of the CRISPR Interference Complex CSM Reveals Key Similarities with Cascade

(2013) Christophe Rouillon et al.   MOLECULAR CELL

Application of the CRISPR–Cas System for Efficient Genome Engineering in Plants

(2013) Yanfei Mao et al.   Molecular Plant

RNA-Guided Genome Editing in Plants Using a CRISPR–Cas System

(2013) Kabin Xie et al.   Molecular Plant

Genome-scale engineering for systems and synthetic biology

(2013) K. M. Esvelt et al.   Molecular Systems Biology

Rewriting a genome

(2013) Emmanuelle Charpentier et al.   NATURE

Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs

(2013) Dokyun Na et al.   NATURE BIOTECHNOLOGY

Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease

(2013) Seung Woo Cho et al.   NATURE BIOTECHNOLOGY

Simultaneous generation and germline transmission of multiple gene mutations in rat using CRISPR-Cas systems

(2013) Wei Li et al.   NATURE BIOTECHNOLOGY

Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease

(2013) Vladimir Nekrasov et al.   NATURE BIOTECHNOLOGY

Efficient genome editing in zebrafish using a CRISPR-Cas system

(2013) Woong Y Hwang et al.   NATURE BIOTECHNOLOGY

High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity

(2013) Vikram Pattanayak et al.   NATURE BIOTECHNOLOGY

Heritable gene targeting in the mouse and rat using a CRISPR-Cas system

(2013) Dali Li et al.   NATURE BIOTECHNOLOGY

Targeted genome modification of crop plants using a CRISPR-Cas system

(2013) Qiwei Shan et al.   NATURE BIOTECHNOLOGY

RNA-guided editing of bacterial genomes using CRISPR-Cas systems

(2013) Wenyan Jiang et al.   NATURE BIOTECHNOLOGY

Design and use of synthetic regulatory small RNAs to control gene expression in Escherichia coli

(2013) Seung Min Yoo et al.   Nature Protocols

Demonstration of CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco, sorghum and rice

(2013) Wenzhi Jiang et al.   NUCLEIC ACIDS RESEARCH

Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems

(2013) James E. DiCarlo et al.   NUCLEIC ACIDS RESEARCH

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

Harnessing the CRISPR/Cas9 system to disrupt latent HIV-1 provirus

(2013) Hirotaka Ebina et al.   Scientific Reports

Highly Efficient Targeted Mutagenesis of Drosophila with the CRISPR/Cas9 System

(2013) Andrew R. Bassett et al.   Cell Reports

RNA-programmed genome editing in human cells

(2013) Martin Jinek et al.   eLife

Dynamic control of gene expression in Saccharomyces cerevisiae engineered for the production of plant sesquitepene α-santalene in a fed-batch mode

(2012) Gionata Scalcinati et al.   METABOLIC ENGINEERING

A dynamic metabolite valve for the control of central carbon metabolism

(2012) Kevin V. Solomon et al.   METABOLIC ENGINEERING

Isobutyraldehyde production from Escherichia coli by removing aldehyde reductase activity

(2012) Gabriel M Rodriguez et al.   Microbial Cell Factories

RNA-guided genetic silencing systems in bacteria and archaea

(2012) Blake Wiedenheft et al.   NATURE

Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli

(2012) Ido Yosef et al.   NUCLEIC ACIDS RESEARCH

CRISPR Interference Directs Strand Specific Spacer Acquisition

(2012) Daan C. Swarts et al.   PLoS One

Enhancing E. coli Tolerance towards Oxidative Stress via Engineering Its Global Regulator cAMP Receptor Protein (CRP)

(2012) Souvik Basak et al.   PLoS One

Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

(2012) G. Gasiunas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network

(2012) J. Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation

(2011) Devaki Bhaya et al.   Annual Review of Genetics

Subtyping Salmonella enterica Serovar Enteritidis Isolates from Different Sources by Using Sequence Typing Based on Virulence Genes and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs)

(2011) Fenyun Liu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Quercetin treatment changes fluxes in the primary metabolism and increases culture longevity and recombinant α1-antitrypsin production in human AGE1.HN cells

(2011) Jens Niklas et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems

(2011) Kira S Makarova et al.   Biology Direct

Small RNA RyhB as a potential tool used for metabolic engineering in Escherichia coli

(2011) Zhen Kang et al.   BIOTECHNOLOGY LETTERS

CRISPR-based adaptive immune systems

(2011) Michael P Terns et al.   CURRENT OPINION IN MICROBIOLOGY

Cas3 is a single-stranded DNA nuclease and ATP-dependent helicase in the CRISPR/Cas immune system

(2011) Tomas Sinkunas et al.   EMBO JOURNAL

Metabolic Engineering of Bacteria

(2011) Ravi R. Kumar et al.   INDIAN JOURNAL OF MICROBIOLOGY

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

(2011) Elitza Deltcheva et al.   NATURE

Evolution and classification of the CRISPR–Cas systems

(2011) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Metabolic engineering for ethylene production by inserting the ethylene-forming enzyme gene (efe) at the 16S rDNA sites of Pseudomonas putida KT2440

(2010) Jian-Ping Wang et al.   BIORESOURCE TECHNOLOGY

Metabolic engineering of Escherichia coli for the production of succinate from glycerol

(2010) Matthew D. Blankschien et al.   METABOLIC ENGINEERING

CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea

(2010) Luciano A. Marraffini et al.   NATURE REVIEWS GENETICS

CRISPR/Cas, the Immune System of Bacteria and Archaea

(2010) P. Horvath et al.   SCIENCE

Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels

(2008) Shota Atsumi et al.   NATURE

Phenotypic engineering by reprogramming gene transcription using novel artificial transcription factors in Escherichia coli

(2008) J. Y. Lee et al.   NUCLEIC ACIDS RESEARCH

Insight into Microevolution of Yersinia pestis by Clustered Regularly Interspaced Short Palindromic Repeats

(2008) Yujun Cui et al.   PLoS One