Design principles for synthetic control systems to engineer plants

Programmable mammalian translational modulators by CRISPR-associated proteins

(2023) Shunsuke Kawasaki et al.   Nature Communications

Synthetic memory circuits for stable cell reprogramming in plants

(2022) James P. B. Lloyd et al.   NATURE BIOTECHNOLOGY

Synthetic genetic circuits as a means of reprogramming plant roots

(2022) Jennifer A. N. Brophy et al.   SCIENCE

Combining QTL mapping and RNA-Seq Unravels candidate genes for Alfalfa (Medicago sativa L.) leaf development

(2022) Xueqian Jiang et al.   BMC PLANT BIOLOGY

eQTLs play critical roles in regulating gene expression and identifying key regulators in rice

(2022) Chang Liu et al.   PLANT BIOTECHNOLOGY JOURNAL

A superior gene allele involved in abscisic acid signaling enhances drought tolerance and yield in chickpea

(2022) Virevol Thakro et al.   PLANT PHYSIOLOGY

Rational design and testing of abiotic stress inducible synthetic promoters from poplar cis ‐regulatory elements

(2021) Yongil Yang et al.   PLANT BIOTECHNOLOGY JOURNAL

CRISPR‐Cas9 mediated OsMIR168a knockout reveals its pleiotropy in rice

(2021) Jianping Zhou et al.   PLANT BIOTECHNOLOGY JOURNAL

A memory switch for plant synthetic biology based on the phage ϕC31 integration system

(2020) Joan Miquel Bernabé-Orts et al.   NUCLEIC ACIDS RESEARCH

Design of orthogonal regulatory systems for modulating gene expression in plants

(2020) Michael S. Belcher et al.   Nature Chemical Biology

Engineering the Plant Secretory Pathway for the Production of Next-Generation Pharmaceuticals

(2020) Emmanuel A. Margolin et al.   TRENDS IN BIOTECHNOLOGY

Controlling spatiotemporal pattern formation in a concentration gradient with a synthetic toggle switch

(2020) Içvara Barbier et al.   Molecular Systems Biology

Optogenetic control of gene expression in plants in the presence of ambient white light

(2020) Rocio Ochoa-Fernandez et al.   NATURE METHODS

Rational design of minimal synthetic promoters for plants

(2020) Yao-Min Cai et al.   NUCLEIC ACIDS RESEARCH

Plant stem-cell organization and differentiation at single-cell resolution

(2020) James W. Satterlee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A gene expression map of shoot domains reveals regulatory mechanisms

(2019) Caihuan Tian et al.   Nature Communications

Efficient induction of heritable inversions in plant genomes using the CRISPR /Cas system

(2019) Carla Schmidt et al.   PLANT JOURNAL

Strong gene activation in plants with genome‐wide specificity using a new orthogonal CRISPR /Cas9‐based programmable transcriptional activator

(2019) Sara Selma et al.   PLANT BIOTECHNOLOGY JOURNAL

Organization and regulation of gene transcription

(2019) Patrick Cramer   NATURE

Revolutions in agriculture chart a course for targeted breeding of old and new crops

(2019) Yuval Eshed et al.   SCIENCE

An efficient and reproducible Agrobacterium-mediated transformation method for hexaploid wheat (Triticum aestivum L.)

(2019) Sadiye Hayta et al.   Plant Methods

Mapping developmental QTL for plant height in soybean [Glycine max (L.) Merr.] using a four-way recombinant inbred line population

(2019) Hong Xue et al.   PLoS One

Tbx20 Is Required in Mid-Gestation Cardiomyocytes and Plays a Central Role in Atrial Development

(2018) Cornelis J Boogerd et al.   CIRCULATION RESEARCH

The Expression of CARK1 or RCAR11 Driven by Synthetic Promoters Increases Drought Tolerance in Arabidopsis thaliana

(2018) Hu Ge et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Robust Transcriptional Activation in Plants Using Multiplexed CRISPR-Act2.0 and mTALE-Act Systems

(2018) Levi G. Lowder et al.   Molecular Plant

QTL mapping and GWAS reveal candidate genes controlling capsaicinoid content in Capsicum

(2018) Koeun Han et al.   PLANT BIOTECHNOLOGY JOURNAL

Transgenic creeping bentgrass overexpressing Osa-miR393a exhibits altered plant development and improved multiple stress tolerance

(2018) Junming Zhao et al.   PLANT BIOTECHNOLOGY JOURNAL

The 6xABRE synthetic promoter enables the spatiotemporal analysis of ABA-mediated transcriptional regulation

(2018) Rui Wu et al.   PLANT PHYSIOLOGY

A B-ARR-mediated cytokinin transcriptional network directs hormone cross-regulation and shoot development

(2018) Mingtang Xie et al.   Nature Communications

Data-Driven Modeling of Intracellular Auxin Fluxes Indicates a Dominant Role of the ER in Controlling Nuclear Auxin Uptake

(2018) Alistair M. Middleton et al.   Cell Reports

Synthetic hormone-responsive transcription factors can monitor and re-program plant development

(2018) Arjun Khakhar et al.   eLife

Overexpression of 9-cis-Epoxycarotenoid Dioxygenase Cisgene in Grapevine Increases Drought Tolerance and Results in Pleiotropic Effects

(2018) Rongrong He et al.   Frontiers in Plant Science

A synthetic oxygen sensor for plants based on animal hypoxia signalling

(2018) Sergio Iacopino et al.   PLANT PHYSIOLOGY

A common genetic mechanism underlies morphological diversity in fruits and other plant organs

(2018) Shan Wu et al.   Nature Communications

Biofuel production: Challenges and opportunities

(2017) M.V. Rodionova et al.   INTERNATIONAL JOURNAL OF HYDROGEN ENERGY

RNA targeting with CRISPR–Cas13

(2017) Omar O. Abudayyeh et al.   NATURE

Large-scale design of robust genetic circuits with multiple inputs and outputs for mammalian cells

(2017) Benjamin H Weinberg et al.   NATURE BIOTECHNOLOGY

The BABY BOOM transcription factor activates the LEC1-ABI3-FUS3-LEC2 network to induce somatic embryogenesis

(2017) Anneke Horstman et al.   PLANT PHYSIOLOGY

High-Throughput Phenotyping and QTL Mapping Reveals the Genetic Architecture of Maize Plant Growth

(2017) Xuehai Zhang et al.   PLANT PHYSIOLOGY

RD26 mediates crosstalk between drought and brassinosteroid signalling pathways

(2017) Huaxun Ye et al.   Nature Communications

Pathogen-induced expression of chimeric chitinase gene containing synthetic promoter confers antifungal resistance in transgenic canola

(2016) Mehdi Moradyar et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

The WUSCHEL Related Homeobox Protein WOX7 Regulates the Sugar Response of Lateral Root Development in Arabidopsis thaliana

(2016) Danyu Kong et al.   Molecular Plant

Post-transcriptional gene regulation by mRNA modifications

(2016) Boxuan Simen Zhao et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The intricate dance of post-translational modifications in the rhythm of life

(2016) Arisa Hirano et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Overexpression of OsHox32 Results in Pleiotropic Effects on Plant Type Architecture and Leaf Development in Rice

(2016) Ying-ying Li et al.   Rice

The intricate dance of post-translational modifications in the rhythm of life

(2016) Arisa Hirano et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A stochastic multicellular model identifies biological watermarks from disorders in self-organized patterns of phyllotaxis

(2016) Yassin Refahi et al.   eLife

Engineering Complex Synthetic Transcriptional Programs with CRISPR RNA Scaffolds

(2015) Jesse G. Zalatan et al.   CELL

Perspectives for Genomic Selection Applications and Research in Plants

(2015) Nicolas Heslot et al.   CROP SCIENCE

Growth-Regulating Factors (GRFs): A Small Transcription Factor Family with Important Functions in Plant Biology

(2015) Mohammad Amin Omidbakhshfard et al.   Molecular Plant

Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex

(2015) Silvana Konermann et al.   NATURE

A light-inducible CRISPR-Cas9 system for control of endogenous gene activation

(2015) Lauren R Polstein et al.   Nature Chemical Biology

Quantitative characterization of genetic parts and circuits for plant synthetic biology

(2015) Katherine A Schaumberg et al.   NATURE METHODS

Cas9 gRNA engineering for genome editing, activation and repression

(2015) Samira Kiani et al.   NATURE METHODS

A CRISPR/Cas9 Toolbox for Multiplexed Plant Genome Editing and Transcriptional Regulation

(2015) Levi G. Lowder et al.   PLANT PHYSIOLOGY

Detection of QTL for metabolic and agronomic traits in wheat with adjustments for variation at genetic loci that affect plant phenology

(2015) Camilla B. Hill et al.   PLANT SCIENCE

Synthetic promoters in planta

(2015) Nrisingha Dey et al.   PLANTA

Autotaxin Overexpression Causes Embryonic Lethality and Vascular Defects

(2015) Hiroshi Yukiura et al.   PLoS One

A Protein-Tagging System for Signal Amplification in Gene Expression and Fluorescence Imaging

(2014) Marvin E. Tanenbaum et al.   CELL

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation

(2014) Luke A. Gilbert et al.   CELL

The synthetic biology toolbox for tuning gene expression in yeast

(2014) Heidi Redden et al.   FEMS YEAST RESEARCH

An increase in melatonin in transgenic rice causes pleiotropic phenotypes, including enhanced seedling growth, delayed flowering, and low grain yield

(2014) Yeong Byeon et al.   JOURNAL OF PINEAL RESEARCH

A red light-controlled synthetic gene expression switch for plant systems

(2014) Konrad Müller et al.   Molecular BioSystems

Multiplexed and Programmable Regulation of Gene Networks with an Integrated RNA and CRISPR/Cas Toolkit in Human Cells

(2014) Lior Nissim et al.   MOLECULAR CELL

RNA-guided transcriptional regulationin plantavia synthetic dCas9-based transcription factors

(2014) Agnieszka Piatek et al.   PLANT BIOTECHNOLOGY JOURNAL

Post-transcriptional control ofGRFtranscription factors by microRNA miR396 and GIF co-activator affects leaf size and longevity

(2014) Juan M. Debernardi et al.   PLANT JOURNAL

The origins of multicellular organisms

(2013) Karl J. Niklas et al.   EVOLUTION & DEVELOPMENT

Self-processing of ribozyme-flanked RNAs into guide RNAsin vitroandin vivofor CRISPR-mediated genome editing

(2013) Yangbin Gao et al.   Journal of Integrative Plant Biology

Characterization of 582 natural and synthetic terminators and quantification of their design constraints

(2013) Ying-Ja Chen et al.   NATURE METHODS

Efficient chimeric plant promoters derived from plant infecting viral promoter sequences

(2013) Sefali Acharya et al.   PLANTA

A quantitative ratiometric sensor for time-resolved analysis of auxin dynamics

(2013) Sabrina Wend et al.   Scientific Reports

Effects of Genetic Variation on the E. coli Host-Circuit Interface

(2013) Stefano Cardinale et al.   Cell Reports

Genetic programs constructed from layered logic gates in single cells

(2012) Tae Seok Moon et al.   NATURE

Modeling Regulatory Networks to Understand Plant Development: Small Is Beautiful

(2012) Alistair M. Middleton et al.   PLANT CELL

Transcription Activator-Like Effector Nucleases Enable Efficient Plant Genome Engineering

(2012) Y. Zhang et al.   PLANT PHYSIOLOGY

Visual Tracking of Plant Virus Infection and Movement Using a Reporter MYB Transcription Factor That Activates Anthocyanin Biosynthesis

(2012) L. C. Bedoya et al.   PLANT PHYSIOLOGY

Intersectional Cre Driver Lines Generated Using Split-Intein Mediated Split-Cre Reconstitution

(2012) Ping Wang et al.   Scientific Reports

Transcription activator-like effector hybrids for conditional control and rewiring of chromosomal transgene expression

(2012) Yi Li et al.   Scientific Reports

The construction of a library of synthetic promoters revealed some specific features of strong Streptomyces promoters

(2011) Nicolas Seghezzi et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

The Molecular Mechanism and Evolution of the GA–GID1–DELLA Signaling Module in Plants

(2011) Tai-ping Sun   CURRENT BIOLOGY

Virus-induced gene silencing (VIGS) of genes expressed in root, leaf, and meiotic tissues of wheat

(2011) Harvinder S. Bennypaul et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Programmable Ligand Detection System in Plants through a Synthetic Signal Transduction Pathway

(2011) Mauricio S. Antunes et al.   PLoS One

Metabolism, cell growth and the bacterial cell cycle

(2009) Jue D. Wang et al.   NATURE REVIEWS MICROBIOLOGY

Split-Cre Complementation Indicates Coincident Activity of Different Genes In Vivo

(2009) Johannes Hirrlinger et al.   PLoS One