JGI publications for calendar year 2024 appear below, listed alphabetically by author.
(2024) Characterization of UbiA terpene synthases with a precursor overproduction system in Escherichia coli.
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10.1016/bs.mie.2024.02.001
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(2024) Judicial Opinion 129..
International Journal of Systematic and Evolutionary Microbiology 74(2).
10.1099/ijsem.0.006064
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(2024) ContScout: sensitive detection and removal of contamination from annotated genomes.
Nature Communications 15(1), 936.
10.1038/s41467-024-45024-5
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(2024) Oxygenation influences xylose fermentation and gene expression in the yeast genera Spathaspora and Scheffersomyces.
Biotechnology for Biofuels and Bioproducts 17(1), 20.
10.1186/s13068-024-02467-8
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(2024) Genome sequencing of Porostereum spadiceum to study the degradation of levofloxacin.
Ecotoxicology and Environmental Safety 270, 115808.
10.1016/j.ecoenv.2023.115808
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(2024) Mapping the microbiome milieu.
Nature Reviews Microbiology 22(4), 190-190.
10.1038/s41579-024-01019-z
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(2024) Phylometagenomics of cycad coralloid roots reveals shared symbiotic signals.
Microbial Genomics 10(3), 001207.
10.1099/mgen.0.001207
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(2024) Biocatalytic Stereoselective Oxidation of 2‑Arylindoles.
Journal of the American Chemical Society 146(4), 2728-2735.
10.1021/jacs.3c12393
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(2024) Metagenomics untangles potential adaptations of Antarctic endolithic bacteria at the fringe of habitability.
The Science of The Total Environment 917, 170290.
10.1016/j.scitotenv.2024.170290
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(2024) Supercharging Carbohydrate Binding Module Alone Enhances Endocellulase Thermostability, Binding, and Activity on Cellulosic Biomass.
ACS Sustainable Chemistry & Engineering 12(9), 3500-3516.
10.1021/acssuschemeng.3c06266
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(2024) Targeted hypermutation of putative antigen sensors in multicellular bacteria.
Proceedings of the National Academy of Sciences of the United States of America 121(9), e2316469121.
10.1073/pnas.2316469121
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(2024) Dominant nitrogen metabolisms of a warm, seasonally anoxic freshwater ecosystem revealed using genome resolved metatranscriptomics.
mSystems 9(2), e01059-23.
10.1128/msystems.01059-23
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(2024) The Exometabolome of Xylella fastidiosa in Contact with Paraburkholderia phytofirmans Supernatant Reveals Changes in Nicotinamide, Amino Acids, Biotin, and Plant Hormones.
Metabolites 14(2), 82.
10.3390/metabo14020082
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(2024) Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics.
The Plant Cell 36(4), 812-828.
10.1093/plcell/koae003
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(2024) Multiple microbial guilds mediate soil methane cycling along a wetland salinity gradient.
mSystems 9(1), e00936-23.
10.1128/msystems.00936-23
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(2024) The complex polyploid genome architecture of sugarcane.
Nature , 1-7.
10.1038/s41586-024-07231-4
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(2024) Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives.
Plants 13(5), 691.
10.3390/plants13050691
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(2024) Environment-specific virocell metabolic reprogramming.
The ISME Journal: Multidisciplinary Journal of Microbial Ecology , wrae055.
10.1093/ismejo/wrae055
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(2024) On the origin of bird’s nest fungi: Phylogenomic analyses of fungi in the Nidulariaceae (Agaricales, Basidiomycota).
Molecular Phylogenetics and Evolution 193, 108010.
10.1016/j.ympev.2024.108010
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(2024) Draft genome sequences of Arthrobacter sp. AZCC_0090 and Mycobacterium sp. AZCC_0083 isolated from oligotrophic subsurface forest soil in the Santa Catalina mountains of Southern Arizona.
Microbiology Resource Announcements 13(3), e01089-23.
10.1128/mra.01089-23
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(2024) Self-Buffering system for Cost-Effective production of lactic acid from glucose and xylose using Acid-Tolerant Issatchenkia orientalis.
Bioresource Technology 399, 130641.
10.1016/j.biortech.2024.130641
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(2024) Extraordinary preservation of gene collinearity over three hundred million years revealed in homosporous lycophytes.
Proceedings of the National Academy of Sciences of the United States of America 121(4), e2312607121.
10.1073/pnas.2312607121
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(2024) Biosynthesis of Cytosporones in Leotiomycetous Filamentous Fungi.
Journal of the American Chemical Society 146(9), 6189-6198.
10.1021/jacs.3c14066
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(2024) Genomic profiles of four novel cyanobacteria MAGs from Lake Vanda, Antarctica: insights into photosynthesis, cold tolerance, and the circadian clock.
Frontiers in Microbiology 14, 1330602.
10.3389/fmicb.2023.1330602
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(2024) Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment.
Nature Plants 10(2), 240-255.
10.1038/s41477-023-01608-5
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(2024) Postzygotic barriers persist despite ongoing introgression in hybridizing Mimulus species.
Molecular Ecology 33(4), e17261.
10.1111/mec.17261
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(2024) Metabolic model predictions enable targeted microbiome manipulation through precision prebiotics..
Microbiology Spectrum 12(2), e0114423.
10.1128/spectrum.01144-23
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(2024) Cynipid wasps systematically reprogram host metabolism and restructure cell walls in developing galls.
Plant Physiology , kiae001.
10.1093/plphys/kiae001
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(2024) Populus MYC2 orchestrates root transcriptional reprogramming of defence pathway to impair Laccaria bicolor ectomycorrhizal development.
New Phytologist 242(2), 658-674.
10.1111/nph.19609
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(2024) Multilevel analysis between Physcomitrium patens and Mortierellaceae endophytes explores potential long‐standing interaction among land plants and fungi.
The Plant Journal 118(2), 304-323.
10.1111/tpj.16605
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(2024) Novel spore-forming species exhibiting intrinsic resistance to third- and fourth-generation cephalosporins and description of Tigheibacillus jepli gen. nov., sp. nov..
mBio 15(4), e00181-24.
10.1128/mbio.00181-24
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(2024) Constraining the oxygen requirements for modern microbial eukaryote diversity.
Proceedings of the National Academy of Sciences of the United States of America 121(2), e2303754120.
10.1073/pnas.2303754120
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(2024) Draft genome sequencing and assembly of Favolaschia claudopus CIRM-BRFM 2984 isolated from oak limbs.
Journal of Genomics 12, 44-46.
10.7150/jgen.92255
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(2024) Soil microbiome feedbacks during disturbance-driven forest ecosystem conversion.
The ISME Journal: Multidisciplinary Journal of Microbial Ecology 18(1), wrae047.
10.1093/ismejo/wrae047
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(2024) Metatranscriptomes of two biological soil crust types from the Mojave desert in response to wetting.
Microbiology Resource Announcements 13(2), e01080-23.
10.1128/mra.01080-23
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(2024) Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert.
Microbiology Resource Announcements 13(3), e00980-23.
10.1128/mra.00980-23
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(2024) Potential for functional divergence in ectomycorrhizal fungal communities across a precipitation gradient.
ISME Communications 4(1), ycae031.
10.1093/ismeco/ycae031
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(2024) Transcriptional response of the white-rot fungus Dichomitus squalens to polysaccharides reveals a co-expression network of plant biomass conversion related genes.
Current Research in Biotechnology 7, 100198.
10.1016/j.crbiot.2024.100198
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(2024) Water aging and the quality of organic carbon sources drive niche partitioning of the active bathypelagic prokaryotic microbiome.
Limnology and Oceanography 69(3), 562-575.
10.1002/lno.12505
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(2024) Mitochondrial ATP generation is more proteome efficient than glycolysis.
Nature Chemical Biology , 1-10.
10.1038/s41589-024-01571-y
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(2024) Distinct function of Chlamydomonas CTRA-CTR transporters in Cu assimilation and intracellular mobilization.
Metallomics 16(3), mfae013.
10.1093/mtomcs/mfae013
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(2024) Transposition of HOPPLA in siRNA-deficient plants suggests a limited effect of the environment on retrotransposon mobility in Brachypodium distachyon.
PLOS Genetics 20(3), e1011200.
10.1371/journal.pgen.1011200
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(2024) Methanolobus use unspecific methyltransferases to produce methane from dimethylsulphide in Baltic Sea sediments.
Microbiome 12(1), 3.
10.1186/s40168-023-01720-w
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(2024) Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products.
Natural Product Reports .
10.1039/d3np00050h
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(2024) Identification of synthetic consortia from a set of plant‐beneficial bacteria.
Microbial Biotechnology 17(2), e14330.
10.1111/1751-7915.14330
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(2024) Major impacts of widespread structural variation on sorghum..
Genome Research 34(2), 286-299.
10.1101/gr.278396.123
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(2024) Viral potential to modulate microbial methane metabolism varies by habitat.
Nature Communications 15(1), 1857.
10.1038/s41467-024-46109-x
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