Paperbase

Neha Garg

Garg Neha

ORCID: 0000-0002-2760-7123

Creating a 3D microbial and chemical snapshot of a human habitat 10.1038/s41598-018-21541-4

Dereplication of peptidic natural products through database search of mass spectra 10.1038/nchembio.2219

Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae 10.7554/eLife.24214

Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules 10.1128/mSystems.00058-17

Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment 10.1128/mSystems.00016-17

Natural products as mediators of disease 10.1039/c6np00063k

Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung 10.1016/j.chom.2017.10.001

Two Flavoenzymes Catalyze the Post-Translational Generation of 5-Chlorotryptophan and 2-Aminovinyl-Cysteine during NAI-107 Biosynthesis 10.1021/acschembio.6b01031

Characterization of the Stereochemical Configuration of Lanthionines Formed by the Lanthipeptide Synthetase GeoM 10.1002/bip.22876

Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats 10.1021/acs.analchem.6b03456

Microbial, host and xenobiotic diversity in the cystic fibrosis sputum metabolome 10.1038/ismej.2015.207

Microbiome-wide association studies link dynamic microbial consortia to disease 10.1038/nature18850

Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen 10.1128/mSystems.00139-16

Chemoenzymatic Synthesis of Acyl Coenzyme A Substrates Enables in Situ Labeling of Small Molecules and Proteins 10.1021/acs.orglett.5b02113

Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures 10.1016/j.ijms.2014.06.005

Chemical Rescue and Inhibition Studies to Determine the Role of Arg301 in Phosphite Dehydrogenase 10.1371/journal.pone.0087134

Mass spectrometry of natural products: current, emerging and future technologies 10.1039/c4np00044g

Mode of action and structure-activity relationship studies of geobacillin I 10.1038/ja.2013.112

Specialized Metabolites from the Microbiome in Health and Disease 10.1016/j.cmet.2014.10.016

Substrate Specificity of the Lanthipeptide Peptidase ElxP and the Oxidoreductase ElxO 10.1021/cb5002526

The Intestinal Metabolome: An Intersection Between Microbiota and Host 10.1053/j.gastro.2014.03.001

In vitro activity of the nisin dehydratase NisB 10.1073/pnas.1222488110

Cloning, sequence analysis, expression of Cyathus bulleri laccase in Pichia pastoris and characterization of recombinant laccase 10.1186/1472-6750-12-75

Lantibiotics from Geobacillus thermodenitrificans 10.1073/pnas.1116815109

Production of Lantipeptides in Escherichia coli 10.1021/ja109044r

Mass Spectrometry-Based Integration and Expansion of the Chemical Diversity Harbored Within a Marine Sponge. 10.1007/s13361-019-02207-5

The chemical topology of a bacterial swarm. 10.1074/jbc.H118.003178

Chemoenzymatic Synthesis of Starting Materials and Characterization of Halogenases Requiring Acyl Carrier Protein-Tethered Substrates. 10.1016/bs.mie.2018.01.028

Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis 10.1128/msystems.00375-19

Feature-based molecular networking in the GNPS analysis environment. 10.1038/s41592-020-0933-6

Multi-Omic Profiling of Melophlus Sponges Reveals Diverse Metabolomic and Microbiome Architectures that Are Non-overlapping with Ecological Neighbors. 10.3390/md18020124

Global chemical effects of the microbiome include new bile-acid conjugations. 10.1038/s41586-020-2047-9

Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim. 10.1021/acsinfecdis.9b00513

Precursor-Guided Mining of Marine Sponge Metabolomes Lends Insight into Biosynthesis of Pyrrole-Imidazole Alkaloids. 10.1021/acschembio.0c00375

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Presence of Bromotyrosine Alkaloids in Marine Sponges Is Independent of Metabolomic and Microbiome Architectures. 10.1128/msystems.01387-20

LanCLs add glutathione to dehydroamino acids generated at phosphorylated sites in the proteome. 10.1016/j.cell.2021.04.001

Raquel Castelo Branco

Castelo Branco Raquel

ORCID: 0000-0001-6627-0140

First record of toxins associated with cyanobacterial blooms in oligotrophic North Patagonian lakes of Chile-a genomic approach 10.1002/iroh.201401780

Bacterial community characterization and biogeochemistry of sediments from a tropical upwelling system (Cabo Frio, Southeastern Brazil) 10.1016/j.csr.2016.10.001

Cyanobacterial Diversity in Microbial Mats from the Hypersaline Lagoon System of Araruama, Brazil: An In-depth Polyphasic Study 10.3389/fmicb.2017.01233

Cyanobacterial diversity held in microbial biological resource centers as a biotechnological asset: the case study of the newly established LEGE culture collection 10.1007/s10811-017-1369-y

Morphological and molecular characterization of cyanobacterial isolates from the mouth of the amazon river 10.11646/phytotaxa.387.4.1

GST transcriptional changes induced by a toxic Microcystis aeruginosa strain in two bivalve species during exposure and recovery phases 10.1007/s10646-018-1980-y

Structure of hierridin c, synthesis of hierridins b and c, and evidence for prevalent alkylresorcinol biosynthesis in picocyanobacteria 10.1021/acs.jnatprod.8b01038

Effects of two toxic cyanobacterial crude extracts containing microcystin-LR and cylindrospermopsin on the growth and photosynthetic capacity of the microalga Parachlorella kessleri 10.1016/j.algal.2018.07.016

Inhibition of bacterial and fungal biofilm formation by 675 extracts from microalgae and cyanobacteria 10.3390/antibiotics8020077

The Extremophile Endolithella mcmurdoensis gen. et sp. nov. (Trebouxiophyceae, Chlorellaceae), A New Chlorella-like Endolithic Alga From Antarctica 10.1111/jpy.12940

First detection of microcystin-lr in the amazon river at the drinking water treatment plant of the municipality of Macapá, Brazil 10.3390/toxins11110669

Distribution and diversity of dimetal-carboxylate halogenases in cyanobacteria 10.1101/2021.01.05.425448

Biosynthesis of Chlorinated Lactylates in Sphaerospermopsis sp. LEGE 00249 10.1021/acs.jnatprod.0c00950

Chlorosphaerolactylates A−D: Natural lactylates of chlorinated fatty acids isolated from the cyanobacterium sphaerospermopsis sp. Lege 00249 10.1021/acs.jnatprod.0c00072

Absence of cyanotoxins in llayta, edible nostocaceae colonies from the andes highlands 10.3390/toxins12060382

The phylogenetic placement of Temnogametum (Zygnemataceae) and description of Temnogametum iztacalense sp. nov., from a tropical high mountain lake in Mexico 10.1080/09670262.2020.1789226

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Raphael Reher

Reher Raphael

ORCID: 0000-0002-5858-1173

A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria 10.3390/md19010020

Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra 10.1038/s41587-020-0740-8

Heterologous Expression of Cryptomaldamide in a Cyanobacterial Host 10.1021/acssynbio.0c00431

Cell‐permeable high‐affinity tracers for G q proteins provide structural insights, reveal distinct binding kinetics and identify small molecule inhibitors 10.1111/bph.14960

A Convolutional Neural Network-Based Approach for the Rapid Annotation of Molecularly Diverse Natural Products 10.1021/jacs.9b13786

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Design of Gallinamide A Analogs as Potent Inhibitors of the Cysteine Proteases Human Cathepsin L and Trypanosoma cruzi Cruzain 10.1021/acs.jmedchem.9b00294

Structural and Dynamical Basis of G Protein Inhibition by YM-254890 and FR900359: An Inhibitor in Action 10.1021/acs.jcim.9b00433

Direct targeting of Gαq and Gα11 oncoproteins in cancer cells 10.1126/scisignal.aau5948

Rational design of a heterotrimeric G protein α subunit with artificial inhibitor sensitivity 10.1074/jbc.ra118.007250

Heterologous Expression, Biosynthetic Studies, and Ecological Function of the Selective Gq‐Signaling Inhibitor FR900359 10.1002/anie.201707996

Applying Molecular Networking for the Detection of Natural Sources and Analogues of the Selective Gq Protein Inhibitor FR900359 10.1021/acs.jnatprod.8b00222

Deciphering Specificity Determinants for FR900359-Derived Gqα Inhibitors Based on Computational and Structure-Activity Studies 10.1002/cmdc.201800304

Lack of beta-arrestin signaling in the absence of active G proteins 10.1038/s41467-017-02661-3

The genome analysis of C andidatus Burkholderia crenata reveals that secondary metabolism may be a key function of the A rdisia crenata leaf nodule symbiosis 10.1111/1462-2920.13184

Shaurya Chanana

Chanana Shaurya

ORCID: 0000-0002-3021-2210

hcapca: Automated Hierarchical Clustering and Principal Component Analysis of Large Metabolomic Datasets in R 10.3390/metabo10070297

Natural Product Discovery Using Planes of Principal Component Analysis in R (PoPCAR) 10.3390/metabo7030034

Nanogel-DFO conjugates as a model to investigate pharmacokinetics, biodistribution, and iron chelation in vivo 10.1016/j.ijpharm.2018.01.004

Brackish habitat dictates cultivable Actinobacterial diversity from marine sponges 10.1371/journal.pone.0176968

MS-Derived Isotopic Fine Structure Reveals Forazoline A as a Thioketone-Containing Marine-Derived Natural Product 10.1021/acs.orglett.9b04535

Phallusialides A–E, Pyrrole-Derived Alkaloids Discovered from a Marine-Derived Micromonospora sp. Bacterium Using MS-Based Metabolomics Approaches 10.1021/acs.jnatprod.9b00808

A marine microbiome antifungal targets urgent-threat drug-resistant fungi 10.1126/science.abd6919

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Emily Pierce

Pierce Emily / Emily C. Pierce

ORCID: 0000-0002-9960-0270

Ketocarotenoid Production in Soybean Seeds through Metabolic Engineering 10.1371/journal.pone.0138196

Changes in the genetic requirements for microbial interactions with increasing community complexity 10.7554/elife.37072

BLANKA: an Algorithm for Blank Subtraction in Mass Spectrometry of Complex Biological Samples 10.1007/s13361-019-02185-8

Bacterial–fungal interactions revealed by genome-wide analysis of bacterial mutant fitness 10.1038/s41564-020-00800-z

High-throughput interaction screens illuminate the role of c-di-AMP in cyanobacterial nighttime survival 10.1371/journal.pgen.1007301

American Gut: an Open Platform for Citizen Science Microbiome Research. 10.1128/msystems.00031-18

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Diego Francisco Romero Hinojosa

Romero Hinojosa Diego Francisco / Romero, Diego

ORCID: 0000-0002-2052-6515

https://www.bacbiolab.com

The Podosphaera xanthii haustorium, the fungal Trojan horse of cucurbit-powdery mildew interactions 10.1016/j.fgb.2014.08.006

Functional analysis of the accessory protein TapA in Bacillus subtilis amyloid fiber assembly 10.1128/JB.01363-13

Surfactin triggers biofilm formation of Bacillus subtilis in melon phylloplane and contributes to the biocontrol activity 10.1111/1462-2920.12271

Functional amyloids in bacteria 10.2436/20.1501.01.208

Evaluation of the effectiveness of biocontrol bacteria against avocado white root rot occurring under commercial greenhouse plant production conditions 10.1016/j.biocontrol.2013.08.009

Bacterial determinants of the social behavior of Bacillus subtilis 10.1016/j.resmic.2013.06.004

Isolation, characterization, and aggregation of a structured bacterial matrix precursor 10.1074/jbc.M113.453605

The antagonistic strain Bacillus subtilisUMAF6639 also confers protection to melon plants against cucurbit powdery mildew by activation of jasmonate- and salicylic acid-dependent defence responses 10.1111/1751-7915.12028

Biofilm inhibitors that target amyloid proteins 10.1016/j.chembiol.2012.10.021

Calcium causes multimerization of the large adhesin LapF and modulates biofilm formation by Pseudomonas putida 10.1128/JB.01094-12

Isolation and selection of plant growth-promoting rhizobacteria as inducers of systemic resistance in melon 10.1007/s11104-012-1173-z

The iturin-like lipopeptides are essential components in the biological control arsenal of Bacillus subtilis against bacterial diseases of cucurbits 10.1094/MPMI-06-11-0162

Antibiotics as signal molecules 10.1021/cr2000509

Will biofilm disassembly agents make it to market? 10.1016/j.tim.2011.03.003

An accessory protein required for anchoring and assembly of amyloid fibres in B-subtilis biofilms 10.1111/j.1365-2958.2011.07653.x

Plant protection and growth stimulation by microorganisms: Biotechnological applications of Bacilli in agriculture 10.1016/j.copbio.2010.12.003

Sensitivities to DMI fungicides in populations of podosphaera fusca in south central Spain 10.1002/ps.1948

D-Amino acids trigger biofilm disassembly 10.1126/science.1188628

Amyloid fibers provide structural integrity to Bacillus subtilis biofilms 10.1073/pnas.0910560107

The powdery mildew fungus Podosphaera fusca (synonym Podosphaera xanthii), a constant threat to cucurbits 10.1111/j.1364-3703.2008.00527.x

Comparative histochemical analyses of oxidative burst and cell wall reinforcement in compatible and incompatible melon-powdery mildew (Podosphaera fusca) interactions 10.1016/j.jplph.2008.04.020

Evaluation of biological control agents for managing cucurbit powdery mildew on greenhouse-grown melon 10.1111/j.1365-3059.2007.01684.x

Isolation and characterization of antagonistic Bacillus subtilis strains from the avocado rhizoplane displaying biocontrol activity 10.1111/j.1365-2672.2007.03433.x

Effect of lipopeptides of antagonistic strains of Bacillus subtilis on the morphology and ultrastructure of the cucurbit fungal pathogen Podosphaera fusca 10.1111/j.1365-2672.2007.03323.x

A nonribosomal peptide synthetase gene (mgoA) of Pseudomonas syringae pv. syringae is involved in mangotoxin biosynthesis and is required for full virulence 10.1094/MPMI-20-5-0500

The iturin and fengycin families of lipopeptides are key factors in antagonism of Bacillus subtilis toward Podosphaera fusca 10.1094/MPMI-20-4-0430

Transformation of undomesticated strains of Bacillus subtilis by protoplast electroporation 10.1016/j.mimet.2006.01.005

Occurrence and distribution of resistance to QoI fungicides in populations of Podosphaera fusca in south central Spain 10.1007/s10658-006-9014-7

Long-term preservation of Podosphaera fusca using silica gel 10.1111/j.1439-0434.2006.01086.x

Isolation and evaluation of antagonistic bacteria towards the cucurbit powdery mildew fungus Podosphaera fusca 10.1007/s00253-003-1439-8

Effect of mycoparasitic fungi on the development of Sphaerotheca fusca in melon leaves 10.1017/S0953756202006974

A genomic region involved in the formation of adhesin fibers in Bacillus cereus biofilms 10.3389/fmicb.2014.00745

Comparative genomics within the bacillus genus reveal the singularities of two robust bacillus amyloliquefaciens biocontrol strains 10.1094/MPMI-02-15-0023-R

Transient transformation of Podosphaera xanthii by electroporation of conidia 10.1186/s12866-014-0338-8

Transformation of the cucurbit powdery mildew pathogen Podosphaera xanthii by Agrobacterium tumefaciens 10.1111/nph.14297

Unicellular but not asocial. Life in community of a bacterium 10.2436/20.1501.01.266

Analysis of β-tubulin-carbendazim interaction reveals that binding site for MBC fungicides does not include residues involved in fungicide resistance 10.1038/s41598-018-25336-5

Functional Amyloids in Health and Disease 10.1016/j.jmb.2018.07.024

Aflatoxin degradation by Bacillus subtilis UTB1 is based on production of an oxidoreductase involved in bacilysin biosynthesis 10.1016/j.foodcont.2018.03.002

Transformation by growth onto agro-infiltrated tissues (TGAT), a simple and efficient alternative for transient transformation of the cucurbit powdery mildew pathogen Podosphaera xanthii 10.1111/mpp.12722

The race for antimicrobials in the multidrug resistance era 10.1111/1751-7915.12884

Beyond the expected: the structural and functional diversity of bacterial amyloids 10.1080/1040841X.2018.1491527

The functional characterization of podosphaera xanthii candidate effector genes reveals novel target functions for fungal pathogenicity 10.1094/MPMI-12-17-0318-R

The extracellular matrix protects Bacillus subtilis colonies from Pseudomonas invasion and modulates plant co-colonization 10.1038/s41467-019-09944-x

Molecular architecture of bacterial amyloids in Bacillus biofilms. 10.1096/fj.201900831r

Biofilm formation displays intrinsic offensive and defensive features of Bacillus cereus 10.1038/s41522-019-0112-7

Two genomic regions encoding exopolysaccharide production systems have complementary functions in B. cereus multicellularity and host interaction 10.1038/s41598-020-57970-3

Dual functionality of the amyloid protein TasA in Bacillus physiology and fitness on the phylloplane 10.1038/s41467-020-15758-z

The extracellular matrix protein TasA is a developmental cue that maintains a motile subpopulation within Bacillus subtilis biofilms. 10.1126/scisignal.aaw8905

More than words: the chemistry behind the interactions in the plant holobiont 10.1111/1462-2920.15197

Biological Control of Phytopathogenic Fungi by Aerobic Endospore-Formers 10.1007/978-3-642-19577-8_8

Multifunctional Amyloids in the Biology of Gram-Positive Bacteria 10.3390/microorganisms8122020

Sporulation is dispensable for the vegetable-associated life cycle of the human pathogen Bacillus cereus 10.1101/2021.01.15.426836

Whole Genome Sequencing and Root Colonization Studies Reveal Novel Insights in the Biocontrol Potential and Growth Promotion by Bacillus subtilis MBI 600 on Cucumber. 10.3389/fmicb.2020.600393

A Hybrid Genome Assembly Resource for Podosphaera xanthii, the Main Causal Agent of Powdery Mildew Disease in Cucurbits. 10.1094/mpmi-08-20-0237-a

Effectors with chitinase activity (EWCAs), a family of conserved, secreted fungal chitinases that suppress chitin-triggered immunity 10.1093/plcell/koab011

Sporulation is dispensable for the vegetable‐associated life cycle of the human pathogen Bacillus cereus 10.1111/1751-7915.13816

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Christian Martin H.

Martin H. Christian

ORCID: 0000-0002-9604-6737

Viscosin-like lipopeptides from frog skin bacteria inhibit Aspergillus fumigatus and Batrachochytrium dendrobatidis detected by imaging mass spectrometry and molecular networking 10.1038/s41598-019-39583-7

Fungus-Growing Ant's Microbial Interaction of Streptomyces sp. and Escovopsis sp. through Molecular Networking and MALDI Imaging 10.1177/1934578x1901400117

Genome Mining, Microbial Interactions, and Molecular Networking Reveals New Dibromoalterochromides from Strains of Pseudoalteromonas of Coiba National Park-Panama 10.3390/md18090456

Metabolites from Microbes Isolated from the Skin of the Panamanian Rocket Frog Colostethus panamansis (Anura: Dendrobatidae) 10.3390/metabo10100406

Feature-based molecular networking in the GNPS analysis environment 10.1038/s41592-020-0933-6

Reproducible molecular networking of untargeted mass spectrometry data using GNPS 10.1038/s41596-020-0317-5

Metabolomic signatures of coral bleaching history. 10.1038/s41559-020-01388-7

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Gajender Aleti

Aleti Gajender

ORCID: 0000-0002-1867-9758

Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease 10.1128/mbio.00321-19

Secondary metabolite genes encoded by potato rhizosphere microbiomes in the Andean highlands are diverse and vary with sampling site and vegetation stage 10.1038/s41598-017-02314-x

Microbe and plant assisted-remediation of organic xenobiotics and its enhancement by genetically modified organisms and recombinant technology: A review 10.1016/j.scitotenv.2018.02.037

The draft genome sequence of Paenibacillus polymyxa strain CCI-25 encompasses high potential for secondary metabolite production 10.1128/genomeA.00366-16

Wake-up-call, a lin-52 paralogue, and Always early, a lin-9 homologue physically interact, but have opposing functions in regulating testis-specific gene expression 10.1016/j.ydbio.2011.04.030

Host-Microbial Interactions in Systemic Lupus Erythematosus and Periodontitis 10.3389/fimmu.2019.02602

Untargeted mass spectrometry-based metabolomics approach unveils molecular changes in raw and processed foods and beverages 10.1016/j.foodchem.2019.125290

Qualitative analysis of biosurfactants from Bacillus species exhibiting antifungal activity 10.1371/journal.pone.0198107

Surfactin variants mediate species-specific biofilm formation and root colonization in Bacillus 10.1111/1462-2920.13405

Differing salivary microbiome diversity, community and diurnal rhythmicity in association with affective state and peripheral inflammation in adults 10.1016/j.bbi.2020.02.004

Correction: Qualitative analysis of biosurfactants from Bacillus species exhibiting antifungal activity(PLoS ONE (2018) 13:6 (e0198107) DOI: 10.1371/journal.pone.0198107) 10.1371/journal.pone.0201624

Genome mining: Prediction of lipopeptides and polyketides from Bacillus and related Firmicutes 10.1016/j.csbj.2015.03.003

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Oral Microbial Species and Virulence Factors Associated with Oral Squamous Cell Carcinoma. 10.1007/s00248-020-01596-5

ReDU: a framework to find and reanalyze public mass spectrometry data. 10.1038/s41592-020-0916-7

Salivary bacterial signatures in depression-obesity comorbidity are associated with neurotransmitters and neuroactive dipeptides 10.1101/2021.08.10.21255754

Anna Edlund

Edlund Anna

ORCID: 0000-0002-3394-4804

https://www.linkedin.com/in/anna-edlund-7ba5646/

Discovery of a Novel Periodontal Disease-Associated Bacterium 10.1007/s00248-018-1200-6

Uncovering complex microbiome activities via metatranscriptomics during 24 hours of oral biofilm assembly and maturation 10.1186/s40168-018-0591-4

Establishing microbial composition measurement standards with reference frames. 10.1038/s41467-019-10656-5

Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease. 10.1128/mBio.00321-19

Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota. 10.1073/pnas.1820594116

Quorum Sensing Modulates the Epibiotic-Parasitic Relationship Between Actinomyces odontolyticus and Its Saccharibacteria epibiont, a Nanosynbacter lyticus Strain, TM7x. 10.3389/fmicb.2018.02049

Exploiting the Oral Microbiome to Prevent Tooth Decay: Has Evolution Already Provided the Best Tools? 10.3389/fmicb.2018.03323

Correction for Morton et al., "Uncovering the Horseshoe Effect in Microbial Analyses". 10.1128/mSystems.00006-18

Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. 10.1128/mSystems.00058-17

Uncovering the Horseshoe Effect in Microbial Analyses. 10.1128/mSystems.00166-16

The Denture-Associated Oral Microbiome in Health and Stomatitis. 10.1128/mSphere.00215-16

Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen. 10.1128/mSystems.00139-16

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking. 10.1038/nbt.3597

Metagenome and Metatranscriptome Analyses Using Protein Family Profiles. 10.1371/journal.pcbi.1004991

High-Quality Draft Genome Sequence of Low-pH-Active Veillonella parvula Strain SHI-1, Isolated from Human Saliva within an In Vitro Oral Biofilm Model. 10.1128/genomeA.01684-15

Draft Genome Sequence of "Candidatus Bacteroides periocalifornicus," a New Member of the Bacteriodetes Phylum Found within the Oral Microbiome of Periodontitis Patients. 10.1128/genomeA.01485-15

Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism. 10.1038/ismej.2015.72

Bacteria-mediated effects of antibiotics on Daphnia nutrition. 10.1021/acs.est.5b00833

Bacteriophage and their potential roles in the human oral cavity. 10.3402/jom.v7.27423

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle. 10.1073/pnas.1419038112

An in vitro biofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome. 10.1186/2049-2618-1-25

Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum. 10.1073/pnas.1219809110

Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform. 10.1101/gr.150433.112

Observing the invisible through imaging mass spectrometry, a window into the metabolic exchange patterns of microbes. 10.1016/j.jprot.2012.05.036

Antibiotic-induced change of bacterial communities associated with the copepod Nitocra spinipes. 10.1371/journal.pone.0033107

Microdiversity and evidence for high dispersal rates in the marine actinomycete 'Salinispora pacifica'. 10.1111/j.1462-2920.2011.02641.x

Geographic distribution of secondary metabolite genes in the marine actinomycete Salinispora arenicola. 10.1128/AEM.00611-11

Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments. 10.1111/j.1574-6941.2008.00513.x

Active bacterial community structure along vertical redox gradients in Baltic Sea sediment. 10.1111/j.1462-2920.2008.01624.x

Changes in active bacterial communities before and after dredging of highly polluted Baltic Sea sediments. 10.1128/AEM.00971-06

Microbial community structure in polluted Baltic Sea sediments. 10.1111/j.1462-2920.2005.00887.x

Cariogenic Streptococcus mutans Produces Tetramic Acid Strain-Specific Antibiotics That Impair Commensal Colonization 10.1021/acsinfecdis.9b00365

Caries-Associated Biosynthetic Gene Clusters in Streptococcus mutans 10.1177/0022034520914519

Commensal Oral Rothia mucilaginosa Produces Enterobactin, a Metal-Chelating Siderophore 10.1128/mSystems.00161-20

Composite Long- and Short-Read Sequencing Delivers a Complete Genome Sequence of B04Sm5, a Reutericyclin- and Mutanocyclin-Producing Strain of Streptococcus mutans 10.1128/MRA.01067-20

Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules 10.1101/gr.265645.120

The Oral Host–Microbial Interactome: An Ecological Chronometer of Health? 10.1016/j.tim.2020.11.004

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Ellis O'Neill

O'Neill Ellis / Ellis C. O'Neill

ORCID: 0000-0002-5941-2806

https://drellisoneill.wixsite.com/website-1

Expression and characterization of 4-α-glucanotransferase genes from Manihot esculenta Crantz and Arabidopsis thaliana and their use for the production of cycloamyloses 10.1016/j.procbio.2013.10.009

Sugar-coated sensor chip and nanoparticle surfaces for the in vitro enzymatic synthesis of starch-like materials 10.1039/c3sc51829a

A one-pot enzymatic approach to the O-fluoroglucoside of N-methylanthranilate 10.1016/j.bmc.2013.05.057

Antibiotics: Blocking bacterial defences 10.1038/nchem.1718

An expedient enzymatic route to isomeric 2-, 3- and 6-monodeoxy-monofluoro- maltose derivatives 10.1016/j.carres.2012.05.026

Enzymatic synthesis of nucleobase-modified UDP-sugars: Scope and limitations 10.1016/j.carres.2014.12.005

Enzymatic synthesis using glycoside phosphorylases 10.1016/j.carres.2014.06.010

Crystal structure of a novel two domain GH78 family α-rhamnosidase from Klebsiella oxytoca with rhamnose bound 10.1002/prot.24807

The transcriptome of Euglena gracilis reveals unexpected metabolic capabilities for carbohydrate and natural product biochemistry 10.1039/C5MB00319A

Underpinning Starch Biology with in vitro Studies on Carbohydrate-Active Enzymes and Biosynthetic Glycomaterials. 10.3389/fbioe.2015.00136

Euglena in time: Evolution, control of central metabolic processes and multi-domain proteins in carbohydrate and natural product biochemistry 10.1016/j.pisc.2015.07.002

Gene Discovery for Synthetic Biology: Exploring the Novel Natural Product Biosynthetic Capacity of Eukaryotic Microalgae 10.1016/bs.mie.2016.03.005

Engineering biosynthesis of high-value compounds in photosynthetic organisms 10.1080/07388551.2016.1237467

Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols 10.1021/acs.jnatprod.6b00722

Fluorescent mannosides serve as acceptor substrates for glycosyltransferase and sugar-1-phosphate transferase activities in Euglena gracilis membranes. 10.1016/j.carres.2016.11.017

Cellodextrin phosphorylase from Ruminiclostridium thermocellum : X-ray crystal structure and substrate specificity analysis 10.1016/j.carres.2017.07.005

Biomolecular Engineering of Microorganisms for Natural Products Production 10.1016/b978-0-12-409547-2.12791-x

Exploring the Glycans of Euglena Gracilis 10.20944/preprints201711.0051.v1

An Alternative Strategy for Trypanosome Survival in the Mammalian Bloodstream Revealed through Genome and Transcriptome Analysis of the Ubiquitous Bovine Parasite Trypanosoma (Megatrypanum) theileri 10.1093/gbe/evx152

Targeted antibiotic discovery through biosynthesis-associated resistance determinants: target directed genome mining 10.1080/1040841X.2019.1590307

Transcriptome, proteome and draft genome of Euglena gracilis 10.1186/s12915-019-0626-8

Insights into toxic Prymnesium parvum blooms: the role of sugars and algal viruses 10.1042/bst20170393

Euglena Central Metabolic Pathways and Their Subcellular Locations 10.20944/preprints201905.0020.v1

Euglena Central Metabolic Pathways and Their Subcellular Locations 10.3390/metabo9060115

Exploring the Glycans of Euglena gracilis 10.3390/biology6040045

Exploring the Glycans of Euglena gracilis 10.20944/preprints201711.0051.v2

Proteome of the secondary plastid of Euglena gracilis reveals metabolic quirks and colourful history 10.1242/prelights.9503

Mining Natural Product Biosynthesis in Eukaryotic Algae 10.3390/md18020090

Using new techniques to study old favorites: A case study of Euglena 10.1016/b978-0-12-818305-2.00010-3

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Deepa Acharya

Acharya Deepa

ORCID: 0000-0001-6627-5865

GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser 10.1101/2021.04.05.438475

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Chemically informed analyses of metabolomics mass spectrometry data with Qemistree 10.1038/s41589-020-00677-3

Omics Technologies to Understand Activation of a Biosynthetic Gene Cluster in Micromonospora sp. WMMB235: Deciphering Keyicin Biosynthesis 10.1021/acschembio.9b00223

Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery 10.1038/s41467-021-23502-4

Draft Genome Sequence of Micromonospora sp. Strain WMMA1996, a Marine Sponge-Associated Bacterium 10.1128/genomea.00077-18

Marianna Iorio

Iorio Marianna

ORCID: 0000-0001-8669-5875

Multi-omics Study of Planobispora rosea, Producer of the Thiopeptide Antibiotic GE2270A. 10.1128/msystems.00341-21

Antibacterial Paramagnetic Quinones from Actinoallomurus 10.1021/acs.jnatprod.6b00654

Antibacterial Aromatic Polyketides Incorporating the Unusual Amino Acid Enduracididine 10.1021/acs.jnatprod.8b00354

Novel Polyethers from Screening Actinoallomurus spp. 10.3390/antibiotics7020047

A glycosylated, labionin-containing lanthipeptide with marked antinociceptive activity 10.1016/j.chembiol.2018.02.008.

A glycosylated, labionin-containing lanthipeptide with marked antinociceptive activity 10.1021/cb400692w.

Brominated Variant of the Lantibiotic NAI-107 with Enhanced Antibacterial Potency. 10.1021/acs.jnatprod.5b00576

Capturing linear intermediates and C-terminal variants during maturation of the thiopeptide GE2270. 10.1016/j.chembiol.2013.07.005

Chrolactomycins from the Actinomycete Actinospica 10.1021/np300470f

Discovering new bioactive molecules from microbial sources 10.1111/1751-7915.12123

Characterization of madurastatin C1, a novel siderophore from Actinomadura sp. 10.1038/ja.2012.10

Characterization of the Congeners in the Lantibiotic NAI-107 Complex 10.1021/np400702t

Sorption of phenanthrene by dissolved organic matter and its complex with aluminum oxide nanoparticles 10.1016/j.envpol.2008.05.003

Remediation of waters contaminated with ionic herbicides by sorption on polymerin 10.1016/j.watres.2007.08.015

Comparative Study on the Sorption Capacity of Cyhalofop Acid on Polymerin, Ferrihydrite, and on a Ferrihydrite−Polymerin Complex 10.1021/jf900573f

Synthesis, Characterization, and Sorption Capacity of Layered Double Hydroxides and Their Complexes with Polymerin 10.1021/jf904092n

Sustainable sorption strategies for removing Cr3+ from tannery process wastewater 10.1016/j.chemosphere.2013.03.051

Removal of 4-chloro-2-methylphenoxyacetic acid from water by sorption on carbon nanotubes and metal oxide nanoparticles 10.1039/c2ra00038e

Detoxification of olive mill wastewaters by zinc–aluminium layered double hydroxides 10.1016/j.clay.2011.07.003

Planomonospora: A Metabolomics Perspective on an Underexplored Actinobacteria Genus 10.1021/acs.jnatprod.0c00807

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Blocks in the pseudouridimycin pathway unlock hidden metabolites in the Streptomyces producer strain. 10.1038/s41598-021-84833-2

Effective approaches to discover new microbial metabolites in a large strain library. 10.1093/jimb/kuab017

Synthetic biology approaches to actinomycete strain improvement 10.1093/femsle/fnab060

Tam Dang

Dang Tam

ORCID: 0000-0002-3602-1917

Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats 10.1021/acs.analchem.6b03456

Total Synthesis and Biological Assessment of Novel Albicidins Discovered by Mass Spectrometric Networking 10.1002/chem.201704074

Bioactive Peptide Natural Products as Lead Structures for Medicinal Use 10.1021/acs.accounts.7b00159

Feature-based molecular networking in the GNPS analysis environment 10.1038/s41592-020-0933-6

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

Andrew McAvoy

McAvoy Andrew

ORCID: 0000-0002-3647-3956

HIV Maintains an Evolving and Dispersed Population in Multiple Tissues during Suppressive Combined Antiretroviral Therapy in Individuals with Cancer. 10.1128/jvi.00684-16

Immunogenicity and Efficacy of a Novel Multi-Antigenic Peptide Vaccine Based on Cross-Reactivity between Feline and Human Immunodeficiency Viruses. 10.3390/v11020136

Utilization of Feline ELISpot to Evaluate the Immunogenicity of a T Cell-Based FIV MAP Vaccine 10.1007/978-1-4939-8567-8_18

Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis. 10.1128/msystems.00375-19

Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim. 10.1021/acsinfecdis.9b00513

A community resource for paired genomic and metabolomic data mining. 10.1038/s41589-020-00724-z

Laura Sanchez

Sanchez Laura

ORCID: 0000-0001-9223-7977

http://www.sanchezlab.science/

Biofilm Formation and Detachment in Gram-Negative Pathogens Is Modulated by Select Bile Acids 10.1371/journal.pone.0149603

Microbiota of Healthy Corals Are Active against Fungi in a Light-Dependent Manner 10.1021/cb500432j

Mass spectrometry of natural products: current, emerging and future technologies 10.1039/c4np00044g

Versatile Method for the Detection of Covalently Bound Substrates on Solid Supports by DART Mass Spectrometry 10.1021/ol201404v

Almiramides A−C: Discovery and Development of a New Class of Leishmaniasis Lead Compounds 10.1021/jm100265s

Examination of the Mode of Action of the Almiramide Family of Natural Products against the Kinetoplastid Parasite Trypanosoma brucei 10.1021/np300834q

Molecular Networking as a Dereplication Strategy 10.1021/np400413s

Examining the Fish Microbiome: Vertebrate-Derived Bacteria as an Environmental Niche for the Discovery of Unique Marine Natural Products 10.1371/journal.pone.0035398

Analytical chemistry: Virulence caught green-handed 10.1038/nchem.1583

Ralstonia solanacearum lipopeptide induces chlamydospore development in fungi and facilitates bacterial entry into fungal tissues 10.1038/ismej.2016.32

Real-Time Metabolomics on Living Microorganisms Using Ambient Electrospray Ionization Flow-Probe 10.1021/ac401613x

An Integrated Metabolomic and Genomic Mining Workflow To Uncover the Biosynthetic Potential of Bacteria 10.1128/msystems.00028-15

Pyrroloacridine Alkaloids from Plakortis quasiamphiaster : Structures and Bioactivity 10.1021/np060585w

Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides 10.1038/nmicrobiol.2016.197

Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen 10.1128/msystems.00139-16

Calling All Hosts: Bacterial Communication In Situ 10.1016/j.chempr.2017.02.001

Coproporphyrin III Produced by the Bacterium Glutamicibacter arilaitensis Binds Zinc and Is Upregulated by Fungi in Cheese Rinds. 10.1128/mSystems.00036-18

Imaging Mass Spectrometry Reveals Crosstalk between the Fallopian Tube and the Ovary that Drives Primary Metastasis of Ovarian Cancer. 10.1021/acscentsci.8b00405

Whole Cell MALDI Fingerprinting Is a Robust Tool for Differential Profiling of Two-Component Mammalian Cell Mixtures. 10.1007/s13361-018-2088-6

Capturing Small Molecule Communication Between Tissues and Cells Using Imaging Mass Spectrometry. 10.3791/59490

BLANKA: an Algorithm for Blank Subtraction in Mass Spectrometry of Complex Biological Samples. 10.1007/s13361-019-02185-8

Using the Open-Source MALDI TOF-MS IDBac Pipeline for Analysis of Microbial Protein and Specialized Metabolite Data. 10.3791/59219

Staring into the void: demystifying microbial metabolomics. 10.1093/femsle/fnz135

Minimizing Taxonomic and Natural Product Redundancy in Microbial Libraries Using MALDI-TOF MS and the Bioinformatics Pipeline IDBac. 10.1021/acs.jnatprod.9b00168

Optimization of a minimal sample preparation protocol for imaging mass spectrometry of unsectioned juvenile invertebrates 10.1002/jms.4458

Chemically transformed monolayers on acene thin films for improved metal/organic interfaces 10.1039/c9cc07234a

The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery 10.1021/acscentsci.9b00806

Biofilm Inhibitor Taurolithocholic Acid Alters Colony Morphology, Specialized Metabolism, and Virulence of Pseudomonas aeruginosa 10.1021/acsinfecdis.9b00424

Detection of Ovarian Cancer Using Samples Sourced from the Vaginal Microenvironment 10.1021/acs.jproteome.9b00694

A Call to Action: the Need for Standardization in Developing Open-Source Mass Spectrometry-Based Methods for Microbial Subspecies Discrimination 10.1128/msystems.00813-19

Addition of insoluble fiber to isolation media allows for increased metabolite diversity of lab-cultivable microbes derived from zebrafish gut samples 10.1080/19490976.2020.1740073

Imaging mass spectrometry for natural products discovery: a review of ionization methods 10.1039/c9np00038k

Evaluation of Data Analysis Platforms and Compatibility with MALDI-TOF Imaging Mass Spectrometry Data Sets 10.1021/jasms.0c00039

The neurotransmitter receptor Gabbr1 regulates proliferation and function of hematopoietic stem and progenitor cells 10.1182/blood.2019004415

Bacterial–fungal interactions revealed by genome-wide analysis of bacterial mutant fitness 10.1038/s41564-020-00800-z

Fallopian Tube-Derived Tumor Cells Induce Testosterone Secretion from the Ovary, Increasing Epithelial Proliferation and Invasion 10.3390/cancers13081925

A Family of Nonribosomal Peptides Modulate Collective Behavior in Pseudovibrio Bacteria Isolated from Marine Sponges** 10.1002/anie.202017320

A community resource for paired genomic and metabolomic data mining 10.1038/s41589-020-00724-z

A Small Molecule Coordinates Symbiotic Behaviors in a Host Organ 10.1128/mbio.03637-20

Models for measuring metabolic chemical changes in the metastasis of high grade serous ovarian cancer: fallopian tube, ovary, and omentum 10.1039/d1mo00074h