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(2022) Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica.
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(2022) EnZymClass: Substrate specificity prediction tool of plant acyl-ACP thioesterases based on ensemble learning.
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(2022) Expanding the genomic encyclopedia of Actinobacteria with 824 isolate reference genomes.
Cell Genomics 2(12), 100213.
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(2022) Structural characterization of a soil viral auxiliary metabolic gene product – a functional chitosanase.
Nature Communications 13(1), 5485.
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(2022) Comparative transcriptomics and metabolomics reveal specialized metabolite drought stress responses in switchgrass (Panicum virgatum).
New Phytologist 236(4), 1393-1408.
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(2022) Chromosomal integration of complex DNA constructs using CRAGE and CRAGE-Duet systems.
STAR Protocols 3(3), 101546.
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(2022) Cas9-Based Metabolic Engineering of Issatchenkia orientalis for Enhanced Utilization of Cellulosic Hydrolysates.
Journal of Agricultural and Food Chemistry 70(38), 12085-12094.
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(2022) Cellular assays identify barriers impeding iron-sulfur enzyme activity in a non-native prokaryotic host.
eLife 11, e70936.
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(2022) pHBMT1, a BAHD-family monolignol acyltransferase, mediates lignin acylation in poplar.
Plant Physiology 188(2), 1014-1027.
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(2022) Intersubunit Coupling Enables Fast CO2‑Fixation by Reductive Carboxylases.
ACS Central Science 8(8), 1091-1101.
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(2022) A cryptic third active site in cyanophycin synthetase creates primers for polymerization.
Nature Communications 13(1), 3923.
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(2022) Applying Promiscuous RiPP Enzymes to Peptide Backbone N‑Methylation Chemistry.
ACS Chemical Biology 17(8), 2165-2178.
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(2022) Biochemical characterization of plant aromatic aminotransferases.
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(2022) Genome‐wide CRISPR‐Cas9 screen reveals a persistent null‐hyphal phenotype that maintains high carotenoid production in Yarrowia lipolytica.
Biotechnology and Bioengineering .
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(2022) Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes.
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(2022) Development of platforms for functional characterization and production of phenazines using a multi-chassis approach via CRAGE.
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(2022) Novel Viral DNA Polymerases From Metagenomes Suggest Genomic Sources of Strand-Displacing Biochemical Phenotypes.
Frontiers in Microbiology 13, 858366.
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(2022) Evolutionary Origin and Functional Diversification of Aminotransferases.
Journal of Biological Chemistry 298(8), 102122.
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(2022) Controlling selectivity of modular microbial biosynthesis of butyryl-CoA-derived designer esters.
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(2022) Directed Evolution of Flavin-Dependent Halogenases for Site- and Atroposelective Halogenation of 3‑Aryl-4(3H)‑Quinazolinones via Kinetic or Dynamic Kinetic Resolution.
Journal of the American Chemical Society 144(36), 16676-16682.
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(2022) A Synthetic Gene Library Yields a Previously Unknown Glycoside Phosphorylase That Degrades and Assembles Poly-β-1,3-GlcNAc, Completing the Suite of β‑Linked GlcNAc Polysaccharides.
ACS Central Science .
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(2022) Protocol for condition-dependent metabolite yield prediction using the TRIMER pipeline.
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(2022) Zng1 is a GTP-dependent zinc transferase needed for activation of methionine aminopeptidase.
Cell Reports 39(7), 110834.
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(2022) Development of a Freeze-Dried CRISPR-Cas12 Sensor for Detecting Wolbachia in the Secondary Science Classroom.
ACS Synthetic Biology 11(2), 835-842.
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(2022) Spacer2PAM: A computational framework to guide experimental determination of functional CRISPR-Cas system PAM sequences.
Nucleic Acids Research 50(6), 3523-3534.
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(2022) Metabolic engineering for valorization of macroalgae biomass.
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(2022) Proteome reallocation enables the selective de novo biosynthesis of non-linear, branched-chain acetate esters.
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(2022) Structure and Function of the β‑Asp-Arg Polymerase Cyanophycin Synthetase 2.
ACS Chemical Biology 17(3), 670-679.
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(2022) Cell-free prototyping enables implementation of optimized reverse β-oxidation pathways in heterotrophic and autotrophic bacteria.
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(2022) A TXTL-Based Assay to Rapidly Identify PAMs for CRISPR-Cas Systems with Multi-Protein Effector Complexes.
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(2022) Considering Strain Variation and Non-Type Strains for Yeast Metabolic Engineering Applications.
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(2022) Discovering untapped biochemistry in microorganisms from hidden corners.
Nature Reviews Microbiology 20(11), 639-639.
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2021
(2021) Three mutations repurpose a plant karrikin receptor to a strigolactone receptor.
Proceedings of the National Academy of Sciences of the United States of America 118(30).
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(2021) Editorial: Cell Free Biocatalysis for the Production of Bioproducts.
Frontiers in Energy Research 9, 781552.
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(2021) Sorting for secreted molecule production using a biosensor-in-microdroplet approach.
Proceedings of the National Academy of Sciences of the United States of America 118(36).
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(2021) An orthogonal metabolic framework for one-carbon utilization.
Nature Metabolism 3(10), 1385-1399.
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(2021) Intracellular pathways for lignin catabolism in white-rot fungi.
Proceedings of the National Academy of Sciences of the United States of America 118(9), 10.
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(2021) Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus.
Scientific Reports 11(1), 22849.
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(2021) Kinetic variation in grass phosphoenolpyruvate carboxylases provides opportunity to enhance C-4 photosynthetic efficiency.
Plant Journal 105(6), 1677-1688.
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(2021) Stepping on the Gas to a Circular Economy: Accelerating Development of Carbon-Negative Chemical Production from Gas Fermentation.
Annual Review of Chemical and Biomolecular Engineering 12, 439-470.
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(2021) Transcriptional control of Clostridium autoethanogenum using CRISPRi.
Synthetic Biology 6(1).
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(2021) Omics analyses and biochemical study of Phlebiopsis gigantea elucidate its degradation strategy of wood extractives.
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(2021) Microfabrication of a chamber for high-resolution, in situ imaging of the whole root for plant–microbe interactions.
International Journal of Molecular Sciences 22(15).
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(2021) Microbiome Engineering: Synthetic Biology of Plant-Associated Microbiomes in Sustainable Agriculture.
Trends in Biotechnology 39(3), 244-261.
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(2021) CRAGE-CRISPR facilitates rapid activation of secondary metabolite biosynthetic gene clusters in bacteria.
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(2021) A plant host, Nicotiana benthamiana, enables the production and study of fungal lignin-degrading enzymes.
Communications Biology 4(1).
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(2021) Probing specificities of alcohol acyltransferases for designer ester biosynthesis with a high-throughput microbial screening platform.
Biotechnology and Bioengineering .
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(2021) Flavin-dependent halogenases catalyze enantioselective olefin halocyclization.
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(2021) TRIMER: Transcription Regulation Integrated with Metabolic Regulation.
iScience 24(11), 103218.
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(2021) An integrated in vivo/in vitro framework to enhance cell-free biosynthesis with metabolically rewired yeast extracts.
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(2021) Toward sustainable, cell-free biomanufacturing.
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(2021) A new-to-nature carboxylation module to improve natural and synthetic CO2 fixation.
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(2021) Dissolved inorganic carbon accumulating complexes from autotrophic bacteria from extreme environments.
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(2021) Engineering promiscuity of chloramphenicol acetyltransferase for microbial designer ester biosynthesis.
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(2021) Structures and function of the amino acid polymerase cyanophycin synthetase.
Nature Chemical Biology 17(10), 1101-1110.
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(2021) p-Nitrophenyl esters provide new insights and applications for the thiolase enzyme OleA.
Computational and Structural Biotechnology Journal 19, 3087-3096.
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(2021) Evaluation of inducible promoter–riboswitch constructs for heterologous protein expression in the cyanobacterial species Anabaena sp. PCC 7120.
Synthetic Biology 6(1), ysab019.
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(2021) Biochemistry-Guided Prediction of the Absolute Configuration of Fungal Reduced Polyketides.
Angewandte Chemie - International Edition 60(43), 23403-23411.
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(2021) Enzyme engineering and in vivo testing of a formate reduction pathway.
Synthetic Biology 6(1), ysab020.
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(2021) Aerobic bacterial methane synthesis.
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(2021) Editorial overview: Energy biotechnology.
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2020
(2020) Genome-scale metabolic rewiring improves titers rates and yields of the non-native product indigoidine at scale.
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(2020) Bidirectional titration of yeast gene expression using a pooled CRISPR guide RNA approach.
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(2020) A genetic toolbox for metabolic engineering of Issatchenkia orientalis.
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(2020) Genetic elucidation of interconnected antibiotic pathways mediating maize innate immunity.
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(2020) Modular cell-free expression plasmids to accelerate biological design in cells.
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(2020) The foxtail millet (Setaria italica) terpene synthase gene family.
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(2020) Bacterial genome editing by coupling Cre-lox and CRISPR-Cas9 systems.
PLoS One 15(11), e0241867.
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(2020) Sequence-based bioprospecting of myo-inositol oxygenase (Miox) reveals new homologues that increase glucaric acid production in Saccharomyces cerevisiae.
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(2020) Sequence-based bioprospecting of myo-inositol oxygenase (Miox) reveals new homologues that increase glucaric acid production in Saccharomyces cerevisiae.
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(2020) Construction of lactic acid overproducing Clostridium thermocellum through enhancement of lactate dehydrogenase expression.
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2019
(2019) Systematic Screening of Synthetic Gene-Encoded Enzymes for Synthesis of Modified Glycosides.
ACS Catalysis 9(4), 3219-3227.
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(2019) Awakening the Sleeping Carboxylase Function of Enzymes: Engineering the Natural CO2-Binding Potential of Reductases.
J Am Chem Soc 141(25), 9778-9782.
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(2019) Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis.
Mol Microbiol 112(6), 1784-1797.
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(2019) Multiple genes recruited from hormone pathways partition maize diterpenoid defences.
Nature Plants 5(10), 1043-1056.
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(2019) Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere.
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(2019) Cell-free biosynthesis of limonene using enzyme-enriched Escherichia coli lysates.
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(2019) Expression of Phosphofructokinase Is Not Sufficient to Enable Embden-Meyerhof-Parnas Glycolysis in Zymomonas mobilis ZM4.
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(2019) Site-Selective C-H Halogenation Using Flavin-Dependent Halogenases Identified via Family-Wide Activity Profiling.
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(2019) Flexizyme-Enabled Benchtop Biosynthesis of Thiopeptides.
J Am Chem Soc 141(2), 758-762.
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(2019) Extent and Origins of Functional Diversity in a Subfamily of Glycoside Hydrolases.
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(2019) Rare earth element alcohol dehydrogenases widely occur among globally distributed, numerically abundant and environmentally important microbes.
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(2019) A Standardized Synthetic Eucalyptus Transcription Factor and Promoter Panel for Re-engineering Secondary Cell Wall Regulation in Biomass and Bioenergy Crops.
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(2019) Terpene Synthases as Metabolic Gatekeepers in the Evolution of Plant Terpenoid Chemical Diversity.
Front Plant Sci 10, 1166.
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(2019) Multi-chassis engineering for heterologous production of microbial natural products.
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(2019) New voyages to explore the natural product galaxy.
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(2019) Biosynthesis and Emission of Stress-Induced Volatile Terpenes in Roots and Leaves of Switchgrass (Panicum virgatum L.).
Front Plant Sci 10, 1144.
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(2019) A Customizable Approach for the Enzymatic Production and Purification of Diterpenoid Natural Products.
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(2019) ManiNetCluster: a novel manifold learning approach to reveal the functional links between gene networks.
BMC Genomics 20(Suppl 12), 1003.
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(2019) A toolset of constitutive promoters for metabolic engineering of Rhodosporidium toruloides.
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(2019) Diterpene Synthase-Catalyzed Biosynthesis of Distinct Clerodane Stereoisomers.
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(2019) Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica.
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(2019) Engineered root bacteria release plant-available phosphate from phytate.
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(2019) Four amino acids define the CO2 binding pocket of enoyl-CoA carboxylases/reductases.
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(2019) Chemical synthesis rewriting of a bacterial genome to achieve design flexibility and biological functionality.
Proc Natl Acad Sci U S A 116(16), 8070-8079.
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(2019) Rational Reprogramming of O-Methylation Regioselectivity for Combinatorial Biosynthetic Tailoring of Benzenediol Lactone Scaffolds.
J Am Chem Soc 141(10), 4355-4364.
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2018
(2018) The multicatalytic compartment of propionyl-CoA synthase sequesters a toxic metabolite.
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(2018) An integrated workflow for phenazine-modifying enzyme characterization.
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(2018) Chemiluminescent Biosensors for Detection of Second Messenger Cyclic di-GMP.
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(2018) Ecosystem Fabrication (EcoFAB) Protocols for The Construction of Laboratory Ecosystems Designed to Study Plant-microbe Interactions.
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(2018) Natural Variation in the Multidrug Efflux Pump SGE1 Underlies Ionic Liquid Tolerance in Yeast.
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(2018) Repeated cis-regulatory tuning of a metabolic bottleneck gene during evolution.
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(2018) Overexpression of a rice BAHD acyltransferase gene in switchgrass (Panicum virgatum L.) enhances saccharification.
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(2018) Discovery, Biosynthesis and Stress-Related Accumulation of Dolabradiene-Derived Defenses in Maize.
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(2018) Functional Characterization of Two Class II Diterpene Synthases Indicates Additional Specialized Diterpenoid Pathways in Maize (Zea mays).
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(2018) Functional Diversity of Diterpene Synthases in the Biofuel Crop Switchgrass.
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(2018) Combining Promiscuous Acyl-CoA Oxidase and Enoyl-CoA Carboxylase/Reductases for Atypical Polyketide Extender Unit Biosynthesis.
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(2018) Methylglucosylation of aromatic amino and phenolic moieties of drug-like biosynthons by combinatorial biosynthesis.
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2017
(2017) Glycosyl Cations versus Allylic Cations in Spontaneous and Enzymatic Hydrolysis.
Journal of the American Chemical Society 139(31), 10629-10632.
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(2017) Selinene Volatiles Are Essential Precursors for Maize Defense Promoting Fungal Pathogen Resistance.
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(2017) 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.
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2016
(2016) Analysis of Amino Acid Substitutions in AraC Variants that Respond to Triacetic Acid Lactone.
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(2016) A Droplet Microfluidic Platform for Automating Genetic Engineering.
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(2016) Investigation of Proposed Ladderane Biosynthetic Genes from Anammox Bacteria by Heterologous Expression in E. coli.
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(2016) A synthetic pathway for the fixation of carbon dioxide in vitro.
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(2016) SAR11 bacteria linked to ocean anoxia and nitrogen loss.
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2015
(2015) Active site and laminarin binding in glycoside hydrolase family 55.
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(2015) Development of a High Throughput Platform for Screening Glycoside Hydrolases Based on Oxime-NIMS.
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2014
(2014) Phylogenomically Guided Identification of Industrially Relevant GH1 beta-Glucosidases through DNA Synthesis and Nanostructure-Initiator Mass Spectrometry.
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Eucalyptus grandis AUX/INDOLE-3-ACETIC ACID 13 (EgrIAA13) is a novel transcriptional regulator of xylogenesis.
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Carbon-negative production of acetone and isopropanol by gas fermentation at industrial pilot scale.
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