Robert L. Hettich

BioSciences Division, Oak Ridge National Laboratory

Affiliated withOak Ridge National Laboratory

Research Area

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JoVE Journal Publications

ArticleTotal : 1	Year
$Liquid Chromatography Coupled to Refractive Index or Mass Spectrometric Detection for Metabolite Profiling in Lysate-based Cell-free Systems$ Publication title Cited by 6	2021

Other Publications

Article	Year
Formation and characterization of iron-oligonucleotide complexes with matrix-assisted laser desorption/ionization fourier transform ion cyclotron resonance mass spectrometry. Journal of the American Society for Mass Spectrometry\| PubMed ID: 10497807	1999
Intact protein analysis for site-directed mutagenesis overexpression products: plasmid-encoded R67 dihydrofolate reductase. Analytical biochemistry\| PubMed ID: 12018947	2002
Protein surface mapping by chemical oxidation: structural analysis by mass spectrometry. Analytical biochemistry\| PubMed ID: 12605858	2003
Integrating 'top-down" and "bottom-up" mass spectrometric approaches for proteomic analysis of Shewanella oneidensis. Journal of proteome research\| PubMed ID: 12645901	2002
Analysis of protein solvent accessible surfaces by photochemical oxidation and mass spectrometry. Analytical chemistry\| PubMed ID: 14750862	2004
A computational method for assessing peptide- identification reliability in tandem mass spectrometry analysis with SEQUEST. Proteomics\| PubMed ID: 15048978	2004
Characterization of the 70S Ribosome from Rhodopseudomonas palustris using an integrated "top-down" and "bottom-up" mass spectrometric approach. Journal of proteome research\| PubMed ID: 15473684	2004
Transcriptomic and proteomic characterization of the Fur modulon in the metal-reducing bacterium Shewanella oneidensis. Journal of bacteriology\| PubMed ID: 15576789	2004
DBDigger: reorganized proteomic database identification that improves flexibility and speed. Analytical chemistry\| PubMed ID: 15828782	2005
Photochemical surface mapping of C14S-Sml1p for constrained computational modeling of protein structure. Analytical biochemistry\| PubMed ID: 15840492	2005
Multipole-storage-assisted dissociation for the characterization of large proteins and simple protein mixtures by ESI-FTICR-MS. Analytical chemistry\| PubMed ID: 15889895	2005
53rd American Society for Mass Spectrometry Conference. 5-9 June, 2005, Henry B Gonzalez Conference Center, San Antonio, TX, USA. Expert review of proteomics\| PubMed ID: 16097880	2005
MASPIC: intensity-based tandem mass spectrometry scoring scheme that improves peptide identification at high confidence. Analytical chemistry\| PubMed ID: 16316165	2005
Determination and comparison of the baseline proteomes of the versatile microbe Rhodopseudomonas palustris under its major metabolic states. Journal of proteome research\| PubMed ID: 16457594	2006
Molecular dynamics of the Shewanella oneidensis response to chromate stress. Molecular & cellular proteomics : MCP\| PubMed ID: 16524964	2006
Determination of peptide and protein ion charge states by Fourier transformation of isotope-resolved mass spectra. Journal of the American Society for Mass Spectrometry\| PubMed ID: 16713712	2006
Characterization of pII family (GlnK1, GlnK2, and GlnB) protein uridylylation in response to nitrogen availability for Rhodopseudomonas palustris. Analytical biochemistry\| PubMed ID: 16860774	2006
Global molecular and morphological effects of 24-hour chromium(VI) exposure on Shewanella oneidensis MR-1. Applied and environmental microbiology\| PubMed ID: 16957260	2006
Robust estimation of peptide abundance ratios and rigorous scoring of their variability and bias in quantitative shotgun proteomics. Analytical chemistry\| PubMed ID: 17037910	2006
ProRata: A quantitative proteomics program for accurate protein abundance ratio estimation with confidence interval evaluation. Analytical chemistry\| PubMed ID: 17037911	2006
Detecting differential and correlated protein expression in label-free shotgun proteomics. Journal of proteome research\| PubMed ID: 17081042	2006
Dosage-dependent proteome response of Shewanella oneidensis MR-1 to acute chromate challenge. Journal of proteome research\| PubMed ID: 17385904	2007
Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics. Molecular & cellular proteomics : MCP\| PubMed ID: 18156135	2008
Systematic assessment of the benefits and caveats in mining microbial post-translational modifications from shotgun proteomic data: the response of Shewanella oneidensis to chromate exposure... Journal of proteome research\| PubMed ID: 18171020	2008
Development of an electrochemical oxidation method for probing higher order protein structure with mass spectrometry. Analytical chemistry\| PubMed ID: 18351783	2008
Characterization of cytochrome 579, an unusual cytochrome isolated from an iron-oxidizing microbial community. Applied and environmental microbiology\| PubMed ID: 18469132	2008
Shotgun metaproteomics of the human distal gut microbiota. The ISME journal\| PubMed ID: 18971961	2009
Experimental approach for deep proteome measurements from small-scale microbial biomass samples. Analytical chemistry\| PubMed ID: 19072265	2008
Comparative temporal proteomics of a response regulator (SO2426)-deficient strain and wild-type Shewanella oneidensis MR-1 during chromate transformation. Journal of proteome research\| PubMed ID: 19118451	2009
Systems biology: Functional analysis of natural microbial consortia using community proteomics. Nature reviews. Microbiology\| PubMed ID: 19219053	2009
Phenotype fingerprinting suggests the involvement of single-genotype consortia in degradation of aromatic compounds by Rhodopseudomonas palustris. PloS one\| PubMed ID: 19242537	2009
Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19321416	2009
Differential accumulation of form I RubisCO in Rhodopseudomonas palustris CGA010 under Photoheterotrophic growth conditions with reduced carbon sources. Journal of bacteriology\| PubMed ID: 19376869	2009
Community genomic and proteomic analyses of chemoautotrophic iron-oxidizing "Leptospirillum rubarum" (Group II) and "Leptospirillum ferrodiazotrophum" (Group III) bacteria in acid mine drain... Applied and environmental microbiology\| PubMed ID: 19429552	2009
Proteogenomic monitoring of Geobacter physiology during stimulated uranium bioremediation. Applied and environmental microbiology\| PubMed ID: 19717633	2009
PTMSearchPlus: software tool for automated protein identification and post-translational modification characterization by integrating accurate intact protein mass and bottom-up mass spectrom... Analytical chemistry\| PubMed ID: 19775152	2009
A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry. BMC bioinformatics\| PubMed ID: 20205730	2010
Enigmatic, ultrasmall, uncultivated Archaea. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 20421484	2010
Proteomics reveals a core molecular response of Pseudomonas putida F1 to acute chromate challenge. BMC genomics\| PubMed ID: 20482812	2010
Ecological distribution and population physiology defined by proteomics in a natural microbial community. Molecular systems biology\| PubMed ID: 20531404	2010
Direct cellular lysis/protein extraction protocol for soil metaproteomics. Journal of proteome research\| PubMed ID: 20954746	2010
Metabolome-proteome differentiation coupled to microbial divergence. mBio\| PubMed ID: 20978538	2010
Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions. The ISME journal\| PubMed ID: 21228889	2011
Quantitative tracking of isotope flows in proteomes of microbial communities. Molecular & cellular proteomics : MCP\| PubMed ID: 21285414	2011
Discovery and annotation of small proteins using genomics, proteomics, and computational approaches. Genome research\| PubMed ID: 21367939	2011
Use of label-free quantitative proteomics to distinguish the secreted cellulolytic systems of Caldicellulosiruptor bescii and Caldicellulosiruptor obsidiansis. Applied and environmental microbiology\| PubMed ID: 21498747	2011
Identification of biofilm matrix-associated proteins from an acid mine drainage microbial community. Applied and environmental microbiology\| PubMed ID: 21685158	2011
Proteomic characterization of cellular and molecular processes that enable the Nanoarchaeum equitans--Ignicoccus hospitalis relationship. PloS one\| PubMed ID: 21826220	2011
Label-free quantitative proteomics for the extremely thermophilic bacterium Caldicellulosiruptor obsidiansis reveal distinct abundance patterns upon growth on cellobiose, crystalline cellulo... Journal of proteome research\| PubMed ID: 21988591	2011
Defining the boundaries and characterizing the landscape of functional genome expression in vascular tissues of Populus using shotgun proteomics. Journal of proteome research\| PubMed ID: 22003893	2012
Comparative shotgun proteomic analysis of Clostridium acetobutylicum from butanol fermentation using glucose and xylose. Proteome science\| PubMed ID: 22008648	2011
Microbes in thawing permafrost: the unknown variable in the climate change equation. The ISME journal\| PubMed ID: 22094350	2012
Strategies for metagenomic-guided whole-community proteomics of complex microbial environments. PloS one\| PubMed ID: 22132090	2011
Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos. Journal of proteome research\| PubMed ID: 22188275	2012
Microbial metaproteomics: identifying the repertoire of proteins that microorganisms use to compete and cooperate in complex environmental communities. Current opinion in microbiology\| PubMed ID: 22632760	2012
Caldicellulosiruptor core and pangenomes reveal determinants for noncellulosomal thermophilic deconstruction of plant biomass. Journal of bacteriology\| PubMed ID: 22636774	2012
Phage-induced expression of CRISPR-associated proteins is revealed by shotgun proteomics in Streptococcus thermophilus. PloS one\| PubMed ID: 22666452	2012
Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress. BMC genomics\| PubMed ID: 22823947	2012
Putting the pieces together: high-performance LC-MS/MS provides network-, pathway-, and protein-level perspectives in Populus. Molecular & cellular proteomics : MCP\| PubMed ID: 23073815	2013
Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community. The ISME journal\| PubMed ID: 23190730	2012
Role of the CipA scaffoldin protein in cellulose solubilization, as determined by targeted gene deletion and complementation in Clostridium thermocellum. Journal of bacteriology\| PubMed ID: 23204466	2013
Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease. PloS one\| PubMed ID: 23209564	2012
Experimental approach to controllably vary protein oxidation while minimizing electrode adsorption for boron-doped diamond electrochemical surface mapping applications. Analytical chemistry\| PubMed ID: 23210708	2013
Characterizing the range of extracellular protein post-translational modifications in a cellulose-degrading bacteria using a multiple proteolyic digestion/peptide fragmentation approach. Analytical chemistry\| PubMed ID: 23406086	2013
Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities. Analytical chemistry\| PubMed ID: 23469896	2013
New group in the Leptospirillum clade: cultivation-independent community genomics, proteomics, and transcriptomics of the new species "Leptospirillum group IV UBA BS". Applied and environmental microbiology\| PubMed ID: 23645189	2013
Insights into the structure and metabolic function of microbes that shape pelagic iron-rich aggregates ("iron snow"). Applied and environmental microbiology\| PubMed ID: 23645202	2013
Comparative informatics analysis to evaluate site-specific protein oxidation in multidimensional LC-MS/MS data. Journal of proteome research\| PubMed ID: 23827042	2013
Isolation and chemical analysis of nanoparticles from English ivy (Hedera helix L.). Journal of the Royal Society, Interface / the Royal Society\| PubMed ID: 23883948	2013
Environmental proteomics reveals early microbial community responses to biostimulation at a uranium- and nitrate-contaminated site. Proteomics\| PubMed ID: 23894087	2013
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS biology\| PubMed ID: 23976882	2013
Identification and environmental distribution of dcpA, which encodes the reductive dehalogenase catalyzing the dichloroelimination of 1,2-dichloropropane to propene in organohalide-respiring... Applied and environmental microbiology\| PubMed ID: 24242248	2014
Development of a multipoint quantitation method to simultaneously measure enzymatic and structural components of the Clostridium thermocellum cellulosome protein complex. Journal of proteome research\| PubMed ID: 24274857	2014
Recoding of the stop codon UGA to glycine by a BD1-5/SN-2 bacterium and niche partitioning between Alpha- and Gammaproteobacteria in a tidal sediment microbial community naturally selected i... Frontiers in microbiology\| PubMed ID: 24904545	2014
Metaproteomics: extracting and mining proteome information to characterize metabolic activities in microbial communities. Current protocols in bioinformatics\| PubMed ID: 24939130	2014
Life on the edge: functional genomic response of Ignicoccus hospitalis to the presence of Nanoarchaeum equitans. The ISME journal\| PubMed ID: 25012904	2015
Elevated temperature alters proteomic responses of individual organisms within a biofilm community. The ISME journal\| PubMed ID: 25050524	2015
Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community. Nature communications\| PubMed ID: 25059763	2014
Nitrogen cycling. The environmental controls that govern the end product of bacterial nitrate respiration. Science (New York, N.Y.)\| PubMed ID: 25104387	2014
Development of an enhanced metaproteomic approach for deepening the microbiome characterization of the human infant gut. Journal of proteome research\| PubMed ID: 25350865	2015
A comparative multidimensional LC-MS proteomic analysis reveals mechanisms for furan aldehyde detoxification in Thermoanaerobacter pseudethanolicus 39E. Biotechnology for biofuels\| PubMed ID: 25506391	2014
Discrete and structurally unique proteins (tāpirins) mediate attachment of extremely thermophilic Caldicellulosiruptor species to cellulose. The Journal of biological chemistry\| PubMed ID: 25720489	2015
Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota. Proteomics\| PubMed ID: 25914197	2015
Metagenome sequencing of a coastal marine microbial community from monterey bay, california. Genome announcements\| PubMed ID: 25931598	2015
Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages. Environmental microbiology\| PubMed ID: 26033198	2016
Metaproteomics reveals functional shifts in microbial and human proteins during a preterm infant gut colonization case. Proteomics\| PubMed ID: 26077811	2015
Rescuing Those Left Behind: Recovering and Characterizing Underdigested Membrane and Hydrophobic Proteins To Enhance Proteome Measurement Depth. Analytical chemistry\| PubMed ID: 26110888	2015
A roadmap for research on crassulacean acid metabolism (CAM) to enhance sustainable food and bioenergy production in a hotter, drier world. The New phytologist\| PubMed ID: 26153373	2015
Strain-resolved microbial community proteomics reveals simultaneous aerobic and anaerobic function during gastrointestinal tract colonization of a preterm infant. Frontiers in microbiology\| PubMed ID: 26191049	2015
Untargeted metabolomics studies employing NMR and LC-MS reveal metabolic coupling between and its archaeal host . Metabolomics : Official journal of the Metabolomic Society\| PubMed ID: 26273237	2015
Integrating mRNA and Protein Sequencing Enables the Detection and Quantitative Profiling of Natural Protein Sequence Variants of Populus trichocarpa. Journal of proteome research\| PubMed ID: 26483142	2015
Draft Genome Sequence of Streptomyces vitaminophilus ATCC 31673, a Producer of Pyrrolomycin Antibiotics, Some of Which Contain a Nitro Group. Genome announcements\| PubMed ID: 26798098	2016
Characterization of Fatty Acids in Crenarchaeota by GC-MS and NMR. Archaea (Vancouver, B.C.)\| PubMed ID: 26880868	2015
Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage. Frontiers in microbiology\| PubMed ID: 26973616	2016
Dramatic performance of Clostridium thermocellum explained by its wide range of cellulase modalities. Science advances\| PubMed ID: 26989779	2016
Proteomic Stable Isotope Probing Reveals Biosynthesis Dynamics of Slow Growing Methane Based Microbial Communities. Frontiers in microbiology\| PubMed ID: 27199908	2016
Simultaneous achievement of high ethanol yield and titer in Clostridium thermocellum. Biotechnology for biofuels\| PubMed ID: 27257435	2016
Genomics-informed isolation and characterization of a symbiotic Nanoarchaeota system from a terrestrial geothermal environment. Nature communications\| PubMed ID: 27378076	2016
Metabolic Regulation as a Consequence of Anaerobic 5-Methylthioadenosine Recycling in Rhodospirillum rubrum. mBio\| PubMed ID: 27406564	2016
Global Proteome Response to Deletion of Genes Related to Mercury Methylation and Dissimilatory Metal Reduction Reveals Changes in Respiratory Metabolism in Geobacter sulfurreducens PCA. Journal of proteome research\| PubMed ID: 27463218	2016
Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock. Nature communications\| PubMed ID: 27739431	2016
Proteomic Stable Isotope Probing Reveals Taxonomically Distinct Patterns in Amino Acid Assimilation by Coastal Marine Bacterioplankton. mSystems\| PubMed ID: 27822523	2016
Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone. PeerJ\| PubMed ID: 27843720	2016
Transcript, protein and metabolite temporal dynamics in the CAM plant Agave. Nature plants\| PubMed ID: 27869799	2016
Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis. BMC genomics\| PubMed ID: 27871231	2016
Improved growth rate in hydrogenase mutant via perturbed sulfur metabolism. Biotechnology for biofuels\| PubMed ID: 28053665	2017
Impacts of chemical gradients on microbial community structure. The ISME journal\| PubMed ID: 28094795	2017
The protein and neutral lipid composition of lipid droplets isolated from the fission yeast, Schizosaccharomyces pombe. Journal of microbiology (Seoul, Korea)\| PubMed ID: 28120187	2017
Genome-Resolved Meta-Omics Ties Microbial Dynamics to Process Performance in Biotechnology for Thiocyanate Degradation. Environmental science & technology\| PubMed ID: 28139919	2017
Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum. Scientific reports\| PubMed ID: 28230109	2017
Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells. Scientific reports\| PubMed ID: 28240279	2017
The effects of micronutrient deficiencies on bacterial species from the human gut microbiota. Science translational medicine\| PubMed ID: 28515336	2017
Optimized Extraction Method To Remove Humic Acid Interferences from Soil Samples Prior to Microbial Proteome Measurements. Journal of proteome research\| PubMed ID: 28537741	2017
Multi-omics analysis provides insight to the Ignicoccus hospitalis-Nanoarchaeum equitans association. Biochimica et biophysica acta. General subjects\| PubMed ID: 28591626	2017
Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life. Microbiome\| PubMed ID: 28693612	2017
Methane-Fueled Syntrophy through Extracellular Electron Transfer: Uncovering the Genomic Traits Conserved within Diverse Bacterial Partners of Anaerobic Methanotrophic Archaea. mBio\| PubMed ID: 28765215	2017
Phylogenetically conserved resource partitioning in the coastal microbial loop. The ISME journal\| PubMed ID: 28800138	2017
Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes. The ISME journal\| PubMed ID: 28809851	2017
Mechanisms of subzero growth in the cryophile Planococcus halocryophilus determined through proteomic analysis. Environmental microbiology\| PubMed ID: 28834033	2017
Erratum for Skennerton et al., "Methane-Fueled Syntrophy through Extracellular Electron Transfer: Uncovering the Genomic Traits Conserved within Diverse Bacterial Partners of Anaerobic Metha... mBio\| PubMed ID: 28974619	2017
Functional Analysis of the Glucan Degradation Locus in Caldicellulosiruptor bescii Reveals Essential Roles of Component Glycoside Hydrolases in Plant Biomass Deconstruction. Applied and environmental microbiology\| PubMed ID: 28986379	2017
Identification of peptide-binding sites within BSA using rapid, laser-induced covalent cross-linking combined with high-performance mass spectrometry. Journal of molecular recognition : JMR\| PubMed ID: 28994207	2018
Maternal consumption of fish oil programs reduced adiposity in broiler chicks. Scientific reports\| PubMed ID: 29030616	2017
Development of a plasmid-based expression system in and its use to screen heterologous expression of bifunctional alcohol dehydrogenases (s). Metabolic engineering communications\| PubMed ID: 29142822	2016
Eliminating a global regulator of carbon catabolite repression enhances the conversion of aromatic lignin monomers to muconate in KT2440. Metabolic engineering communications\| PubMed ID: 29188181	2017
The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism. Nature communications\| PubMed ID: 29196618	2017
Deletion of the gene increases ethanol production in and several other thermophilic anaerobic bacteria. Biotechnology for biofuels\| PubMed ID: 29213322	2017
Phosphorylation of Ribosomal Protein RPS6 Integrates Light Signals and Circadian Clock Signals. Frontiers in plant science\| PubMed ID: 29403507	2017
Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves. PloS one\| PubMed ID: 29447168	2018
The diversity and specificity of the extracellular proteome in the cellulolytic bacterium is driven by the nature of the cellulosic growth substrate. Biotechnology for biofuels\| PubMed ID: 29588665	2018
Hospitalized Premature Infants Are Colonized by Related Bacterial Strains with Distinct Proteomic Profiles. mBio\| PubMed ID: 29636439	2018
Quantitative Proteomic Analysis of Biological Processes and Responses of the Bacterium Desulfovibrio desulfuricans ND132 upon Deletion of Its Mercury Methylation Genes. Proteomics\| PubMed ID: 30009483	2018
Author Correction: Maternal consumption of fish oil programs reduced adiposity in broiler chicks. Scientific reports\| PubMed ID: 30054506	2018
Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave. BMC genomics\| PubMed ID: 30081833	2018
Transcriptomic and proteomic changes from medium supplementation and strain evolution in high-yielding Clostridium thermocellum strains. Journal of industrial microbiology & biotechnology\| PubMed ID: 30187243	2018
Biogeochemical Cycling by a Low-Diversity Microbial Community in Deep Groundwater. Frontiers in microbiology\| PubMed ID: 30245678	2018
Utilization of a Detergent-Based Method for Direct Microbial Cellular Lysis/Proteome Extraction from Soil Samples for Metaproteomics Studies. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 30259494	2018
Quantifying codon usage in signal peptides: Gene expression and amino acid usage explain apparent selection for inefficient codons. Biochimica et biophysica acta. Biomembranes\| PubMed ID: 30279149	2018
Comparative Genomics and Proteomic Analysis of Assimilatory Sulfate Reduction Pathways in Anaerobic Methanotrophic Archaea. Frontiers in microbiology\| PubMed ID: 30559729	2018
Proteogenomics Reveals Novel Reductive Dehalogenases and Methyltransferases Expressed during Anaerobic Dichloromethane Metabolism. Applied and environmental microbiology\| PubMed ID: 30658979	2019
Progress and Challenges in Ocean Metaproteomics and Proposed Best Practices for Data Sharing. Journal of proteome research\| PubMed ID: 30702898	2019
Metaproteomics reveals persistent and phylum-redundant metabolic functional stability in adult human gut microbiomes of Crohn's remission patients despite temporal variations in microbial ta... Microbiome\| PubMed ID: 30744677	2019
Evaluation of an untargeted nano-liquid chromatography-mass spectrometry approach to expand coverage of low molecular weight dissolved organic matter in Arctic soil. Scientific reports\| PubMed ID: 30967565	2019
Scavenging organic nitrogen and remodelling lipid metabolism are key survival strategies adopted by the endophytic fungi, Serendipita vermifera and Serendipita bescii to alleviate nitrogen a... Environmental microbiology reports\| PubMed ID: 30970176	2019
Correction to: Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave. BMC genomics\| PubMed ID: 30971209	2019
Exploiting the Dynamic Relationship between Peptide Separation Quality and Peptide Coisolation in a Multiple-Peptide Matches-per-Spectrum Approach Offers a Strategy To Optimize Bottom-Up Pro... Analytical chemistry\| PubMed ID: 31075198	2019
One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation. PloS one\| PubMed ID: 31211785	2019
Effects of microbiota-directed foods in gnotobiotic animals and undernourished children. Science (New York, N.Y.)\| PubMed ID: 31296738	2019
Targeted detection of Dehalococcoides mccartyi microbial protein biomarkers as indicators of reductive dechlorination activity in contaminated groundwater. Scientific reports\| PubMed ID: 31332202	2019
Surface Water Microbial Community Response to the Biocide 2,2-Dibromo-3-Nitrilopropionamide, Used in Unconventional Oil and Gas Extraction. Applied and environmental microbiology\| PubMed ID: 31444200	2019
Interspecies Competition Impacts Targeted Manipulation of Human Gut Bacteria by Fiber-Derived Glycans. Cell\| PubMed ID: 31539500	2019
Bioremediation of a Common Product of Food Processing by a Human Gut Bacterium. Cell host & microbe\| PubMed ID: 31585844	2019
Impact of Fixed Nitrogen Availability on Reductive Dechlorination Activity. Environmental science & technology\| PubMed ID: 31693350	2019
Comparing DNA, RNA and protein levels for measuring microbial dynamics in soil microcosms amended with nitrogen fertilizer. Scientific reports\| PubMed ID: 31772206	2019
Integrated Proteomics and Lipidomics Reveal That the Swarming Motility of Is Characterized by Phospholipid Modification, Surfactant Deployment, and Flagellar Specialization Relative to Swim... Frontiers in microbiology\| PubMed ID: 31798553	2019
Genome-Resolved Proteomic Stable Isotope Probing of Soil Microbial Communities Using CO and C-Methanol. Frontiers in microbiology\| PubMed ID: 31866955	2019
Active sulfur cycling in the terrestrial deep subsurface. The ISME journal\| PubMed ID: 32047278	2020
Gene targets for engineering osmotolerance in . Biotechnology for biofuels\| PubMed ID: 32190115	2020
Outer membrane vesicles catabolize lignin-derived aromatic compounds in KT2440. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 32245809	2020
Impact of Fatty-Acid Labeling of Membranes on the Cellular Lipidome and Proteome. Frontiers in microbiology\| PubMed ID: 32499768	2020
A Viable New Strategy for the Discovery of Peptide Proteolytic Cleavage Products in Plant-Microbe Interactions. Molecular plant-microbe interactions : MPMI\| PubMed ID: 32597696	2020
Biogeography of microbial bile acid transformations along the murine gut. Journal of lipid research\| PubMed ID: 32661017	2020
Characterizing Intracellular Proteomes for Microbes: An Experimental Approach Using Label-Free Protein Quantitation. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 32720148	2020
Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics. Proteomics\| PubMed ID: 32846035	2020
A nitrogenase-like enzyme system catalyzes methionine, ethylene, and methane biogenesis. Science (New York, N.Y.)\| PubMed ID: 32855335	2020
A carotenoid-deficient mutant of the plant-associated microbe Pantoea sp. YR343 displays an altered membrane proteome. Scientific reports\| PubMed ID: 32917935	2020
Structural and Proteomic Studies of the Virus Demonstrate a Global Distribution of Virus-Encoded Carbohydrate Processing. Frontiers in microbiology\| PubMed ID: 33013751	2020
Targeted Growth Medium Dropouts Promote Aromatic Compound Synthesis in Crude Cell-Free Systems. ACS synthetic biology\| PubMed ID: 33044063	2020
Coculture with hemicellulose-fermenting microbes reverses inhibition of corn fiber solubilization by Clostridium thermocellum at elevated solids loadings. Biotechnology for biofuels\| PubMed ID: 33461608	2021
A lysate proteome engineering strategy for enhancing cell-free metabolite production. Metabolic engineering communications\| PubMed ID: 33552897	2021
The Core Chemotaxis Proteins CheA1 and CheA4 Link Chemotaxis Signaling with Nitrogen Metabolism. mSystems\| PubMed ID: 33594007	2021
Five key aspects of metaproteomics as a tool to understand functional interactions in host-associated microbiomes. PLoS pathogens\| PubMed ID: 33630960	2021
Respiratory Vinyl Chloride Reductive Dechlorination to Ethene in TceA-Expressing . Environmental science & technology\| PubMed ID: 33683880	2021
Microbiota functional activity biosensors for characterizing nutrient metabolism in vivo. eLife\| PubMed ID: 33684031	2021
Metabolism of syringyl lignin-derived compounds in Pseudomonas putida enables convergent production of 2-pyrone-4,6-dicarboxylic acid. Metabolic engineering\| PubMed ID: 33741529	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\| PubMed ID: 33872517	2021
Anaerobic Microbial Metabolism of Dichloroacetate. mBio\| PubMed ID: 33906923	2021
Identification and characterization of proteins of unknown function (PUFs) in Clostridium thermocellum DSM 1313 strains as potential genetic engineering targets. Biotechnology for biofuels\| PubMed ID: 33971924	2021
Formation, characterization and modeling of emergent synthetic microbial communities. Computational and structural biotechnology journal\| PubMed ID: 33995895	2021
Genomic reconstruction of fossil and living microorganisms in ancient Siberian permafrost. Microbiome\| PubMed ID: 34001281	2021
Genetic and behavioral adaptation of Candida parapsilosis to the microbiome of hospitalized infants revealed by in situ genomics, transcriptomics, and proteomics. Microbiome\| PubMed ID: 34154658	2021
Towards engineering ectomycorrhization into switchgrass bioenergy crops via a lectin receptor-like kinase. Plant biotechnology journal\| PubMed ID: 34272801	2021