(2022) Microbial colonization and persistence in deep fractured shales is guided by metabolic exchanges and viral predation.
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(2022) Do Genetic Drift and Gene Flow Affect the Geographic Distribution of Female Plants in Gynodioecious Lobelia siphilitica?.
Plants 11(6), 825.
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(2022) Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica.
Nature Communications 13(1), 922.
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(2022) EnZymClass: Substrate specificity prediction tool of plant acyl-ACP thioesterases based on ensemble learning.
Current Research in Biotechnology 4, 1-9.
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(2022) Exploring the roles of microbes in facilitating plant adaptation to climate change.
Biochemical Journal 479(3), 327-335.
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(2022) Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA.
Plant physiology .
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(2022) EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon.
Frontiers in Plant Science 12, 769194.
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(2022) Phenotype to genotype in Neurospora crassa: Association of the scumbo phenotype with mutations in the gene encoding ceramide C9-methyltransferase.
Current Research in Microbial Sciences 3, 100117.
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(2022) Enemy or ally: a genomic approach to elucidate the lifestyle of Phyllosticta citrichinaensis.
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(2022) Habitat‐adapted microbial communities mediate Sphagnum peatmoss resilience to warming.
New Phytologist .
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(2022) Comparative genomics reveals electron transfer and syntrophic mechanisms differentiating methanotrophic and methanogenic archaea.
PLoS Biology 20(1), e3001508.
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(2022) Genome and proteome analyses show the gaseous alkane degrader Desulfosarcina sp. strain BuS5 as an extreme metabolic specialist.
Environmental Microbiology .
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(2022) Detailed analysis of the D-galactose catabolic pathways in Aspergillus niger reveals complexity at both metabolic and regulatory level.
Fungal Genetics and Biology 159, 103670.
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(2022) Protocol for single-cell isolation and genome amplification of environmental microbial eukaryotes for genomic analysis.
STAR Protocols 3(1), 100968.
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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) Methylphosphonate Degradation and Salt-Tolerance Genes of Two Novel Halophilic Marivita Metagenome-Assembled Genomes from Unrestored Solar Salterns.
Genes 13(1), 148.
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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) DNA Methylation in Ensifer Species during Free-Living Growth and during Nitrogen-Fixing Symbiosis with Medicago spp.
mSystems 7(1), e01092-21.
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(2022) Soil compartments (bulk soil, litter, root and rhizosphere) as main drivers of soil protistan communities distribution in forests with different nitrogen deposition.
Soil Biology and Biochemistry 168, 108628.
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(2022) Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes.
New Phytologist 233(3), 1317-1330.
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(2022) Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression.
Molecular Ecology .
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(2022) Unraveling the regulation of sugar beet pulp utilization in the industrially relevant fungus Aspergillus niger.
iScience 25(4), 104065.
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(2022) Adapted laboratory evolution of Thermotoga sp. strain RQ7 under carbon starvation.
BMC Research Notes 15(1), 99.
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(2022) Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales).
Microbiology Resource Announcements 11(2), e00995-21.
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(2022) Abscisic acid supports colonization of Eucalyptus grandis roots by the mutualistic ectomycorrhizal fungus Pisolithus microcarpus.
New Phytologist 233(2), 966-982.
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(2022) Characterization of Streptomyces nymphaeiformis sp. nov., and its taxonomic relatedness to other polyhydroxybutyrate-degrading streptomycetes.
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(2022) Elucidating Drought-Tolerance Mechanisms in Plant Roots through 1H NMR Metabolomics in Parallel with MALDI-MS, and NanoSIMS Imaging Techniques.
Environmental Science & Technology 56(3), 2021-2032.
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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) Defining the Sphagnum Core Microbiome across the North American Continent Reveals a Central Role for Diazotrophic Methanotrophs in the Nitrogen and Carbon Cycles of Boreal Peatland Ecosystems.
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(2022) Bioenergy sorghum’s deep roots: A key to sustainable biomass production on annual cropland.
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(2022) A Single Nucleotide Change in the polC DNA Polymerase III in Clostridium thermocellum Is Sufficient To Create a Hypermutator Phenotype.
Applied and Environmental Microbiology 88(1), e01531-21.
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(2022) Controlling selectivity of modular microbial biosynthesis of butyryl-CoA-derived designer esters.
Metabolic Engineering 69, 262-274.
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(2022) Soil pH influences the structure of virus communities at local and global scales.
Soil Biology and Biochemistry 166, 108569.
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(2022) The Earth BioGenome Project 2020: Starting the clock.
Proceedings of the National Academy of Sciences 119(4), e2115635118.
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(2022) Silencing of Dicer‐like protein 2a restores the resistance phenotype in the rice mutant, sxi4 (suppressor of Xa21‐mediated immunity 4).
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(2022) Evolutionary transition to the ectomycorrhizal habit in the genomes of a hyperdiverse lineage of mushroom‐forming fungi.
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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.
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(2022) Adaptive laboratory evolution for improved tolerance of isobutyl acetate in Escherichia coli.
Metabolic Engineering 69, 50-58.
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(2022) In vivo evolution of lactic acid hyper-tolerant Clostridium thermocellum.
New Biotechnology 67, 12-22.
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(2022) GalR, GalX and AraR co‐regulate d‐galactose and l‐arabinose utilization in Aspergillus nidulans.
Microbial Biotechnology .
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(2022) The recent evolutionary rescue of a staple crop depended on over half a century of global germplasm exchange.
Science advances 8(6), eabj4633.
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(2022) Protocol for condition-dependent metabolite yield prediction using the TRIMER pipeline.
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(2022) Genome Sequence and Analysis of the Flavinogenic Yeast Candida membranifaciens IST 626.
Journal of Fungi 8(3), 254.
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(2022) Genomic Signatures of a Major Adaptive Event in the Pathogenic Fungus Melampsora larici-populina.
Genome Biology and Evolution 14(1), evab279.
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(2022) Diverse events have transferred genes for edible seaweed digestion from marine to human gut bacteria.
Cell Host & Microbe 30(3), 314-328.e11.
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(2022) Genome-Resolved Metagenomic Insights into Massive Seasonal Ammonia-Oxidizing Archaea Blooms in San Francisco Bay.
mSystems 7(1), e01270-21.
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(2022) Metagenomes and Metagenome-Assembled Genomes from Substrate-Amended Hot Spring Sediment Incubations from Yellowstone National Park.
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(2022) A Genomic Perspective Across Earth’s Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.
Frontiers in Microbiology 12, 761869.
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(2022) ORT: A workflow linking genome-scale metabolic models with reactive transport codes.
Bioinformatics (Oxford, England) 38(3), 778-784.
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(2022) GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring.
Frontiers in Microbiology 12, 787651.
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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) Metagenome-Assembled Genomes from a Microbiome Converting Xylose to Medium-Chain Carboxylic Acids.
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(2022) Subsurface hydrocarbon degradation strategies in low- and high-sulfate coal seam communities identified with activity-based metagenomics.
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(2022) Weakened resilience of benthic microbial communities in the face of climate change.
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(2022) A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants.
Developmental Cell 57(4), 543-560.e9.
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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) Population genomics of a forest fungus reveals high gene flow and climate adaptation signatures.
Molecular Ecology 31(7), 1963-1979.
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(2022) An optimized ChIP‐Seq framework for profiling histone modifications in Chromochloris zofingiensis.
Plant Direct 6(3), e392.
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(2022) Phylogenomics and Comparative Genomics Highlight Specific Genetic Features in Ganoderma Species.
Journal of Fungi 8(3), 311.
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(2022) On Single-Cell Enzyme Assays in Marine Microbial Ecology and Biogeochemistry.
Frontiers in Marine Science 9.
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(2022) Membrane Bioreactor Pretreatment of High-Salinity O&G Produced Water.
ACS ES&T Water 2(3), 484-494.
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(2022) Examining the Relationship Between the Testate Amoeba Hyalosphenia papilio (Arcellinida, Amoebozoa) and its Associated Intracellular Microalgae Using Molecular and Microscopic Methods.
Protist 173(1), 125853.
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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) Rapid cell-free characterization of multi-subunit CRISPR effectors and transposons.
Molecular Cell 82(6), 1210-1224.e6.
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(2022) Kingdom-Wide Analysis of Fungal Protein-Coding and tRNA Genes Reveals Conserved Patterns of Adaptive Evolution.
Molecular Biology and Evolution 39(2), msab372.
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(2022) The ectomycorrhizal fungus Pisolithus microcarpus encodes a microRNA involved in cross-kingdom gene silencing during symbiosis.
Proceedings of the National Academy of Sciences 119(3), e2103527119.
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(2022) Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales.
New Phytologist 233(3), 1383-1400.
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