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• Article

  A computational framework to explore large-scale biosynthetic diversity

  Navarro-Muñoz, J. C., Selem-Mojica, N., Mullowney, M. W., Kautsar, S. A., Tryon, J. H., Parkinson, E. I., De Los Santos, E. L. C., Yeong, M., Cruz-Morales, P., Abubucker, S., Roeters, A., Lokhorst, W., Fernandez-Guerra, A., Cappelini, L. T. D., Goering, A. W., Thomson, R. J., Metcalf, W. W., Kelleher, N. L., Barona-Gomez, F. & Medema, M. H., Jan 1 2020, In: Nature chemical biology. 16, 1, p. 60-68 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Multigene Family
  • Biological Products
  • Cluster Analysis
  • Genome
  • Metabolomics

• Biochemical characterization of the methylmercaptopropionate: Cob(I)alamin Methyltransferase from Methanosarcina acetivorans

  Fu, H., Goettge, M. N. & Metcalf, W. W., 2019, In: Journal of bacteriology. 201, 12, e00130-19.

  Research output: Contribution to journal › Article › peer-review

  • methyl coenzyme M
  • Methanosarcina
  • Corrinoids
  • Methyltransferases
  • Proteins

• Conserved biosynthetic pathways for phosalacine, bialaphos and newly discovered phosphonic acid natural products

  Blodgett, J. A., Zhang, J. K., Yu, X. & Metcalf, W. W., Jan 1 2016, In: Journal of Antibiotics. 69, 1, p. 15-25 11 p.

  Research output: Contribution to journal › Article › peer-review

  • bialaphos
  • phosphinothricin
  • phosphonic acid
  • Streptomyces
  • Biosynthetic Pathways

• Discovery of the Tyrobetaine Natural Products and Their Biosynthetic Gene Cluster via Metabologenomics

  Parkinson, E. I., Tryon, J. H., Goering, A. W., Ju, K. S., McClure, R. A., Kemball, J. D., Zhukovsky, S., Labeda, D. P., Thomson, R. J., Kelleher, N. L. & Metcalf, W. W., Apr 20 2018, In: ACS chemical biology. 13, 4, p. 1029-1037 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Multigene Family
  • Biological Products
  • Genes
  • Metabolomics
  • Gene expression

• Elucidating the Rimosamide-Detoxin Natural Product Families and Their Biosynthesis Using Metabolite/Gene Cluster Correlations

  McClure, R. A., Goering, A. W., Ju, K. S., Baccile, J. A., Schroeder, F. C., Metcalf, W. W., Thomson, R. J. & Kelleher, N. L., Dec 16 2016, In: ACS chemical biology. 11, 12, p. 3452-3460 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Biosynthesis
  • Metabolites
  • Multigene Family
  • Biological Products
  • Genes

• Energy conservation via hydrogen cycling in the methanogenic archaeon Methanosarcina barkeri

  Kulkarni, G., Mand, T. D. & Metcalf, W. W., Jul 1 2018, In: mBio. 9, 4, e01256-18.

  Research output: Contribution to journal › Article › peer-review

  • Methanosarcina barkeri
  • Hydrogenase
  • Archaea
  • Hydrogen
  • Adenosine Triphosphate

• Fosmidomycin biosynthesis diverges from related phosphonate natural products

  Parkinson, E. I., Erb, A., Eliot, A. C., Ju, K. S. & Metcalf, W. W., Nov 1 2019, In: Nature chemical biology. 15, 11, p. 1049-1056 8 p.

  Research output: Contribution to journal › Article › peer-review

  • fosmidomycin
  • Organophosphonates
  • Biological Products
  • Biosynthetic Pathways
  • 3-(N-acetyl-N-hydroxy)aminopropylphosphonic acid

• Functional interactions between posttranslationally modified amino acids of methyl-coenzyme M reductase in Methanosarcina acetivorans

  Nayak, D. D., Liu, A., Agrawal, N., Rodriguez-Carerro, R., Dong, S. H., Mitchell, D. A., Nair, S. K. & Metcalf, W. W., Feb 2020, In: PLoS biology. 18, 2, e3000507.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • methyl coenzyme M reductase
  • Methanosarcina
  • Methanosarcina acetivorans
  • coenzyme-B sulfoethylthiotransferase
  • S-methylcysteine

• GDGT cyclization proteins identify the dominant archaeal sources of tetraether lipids in the ocean

  Zeng, Z., Liu, X. L., Farley, K. R., Wei, J. H., Metcalf, W. W., Summons, R. E. & Welander, P. V., Nov 5 2019, In: Proceedings of the National Academy of Sciences of the United States of America. 116, 45, p. 22505-22511 7 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Cyclization
  • Oceans and Seas
  • Glycerol
  • Lipids
  • Proteins

• Genetic, biochemical, and molecular characterization of methanosarcina barkeri mutants lacking three distinct classes of hydrogenase

  Mand, T. D., Kulkarni, G. & Metcalf, W. W., Oct 1 2018, In: Journal of bacteriology. 200, 20, e00342.

  Research output: Contribution to journal › Article › peer-review

  • Methanosarcina barkeri
  • Hydrogenase
  • Molecular Biology
  • Methanol
  • Methane

• Genome mining and metabolomics uncover a rare D-capreomycidine containing natural product and its biosynthetic gene cluster

  Kelleher, N. L., Thomson, R. J., Tryon, J. H., Rote, J. C., Chen, L., Robey, M. T., Vega, M. M., Phua, W. C., Metcalf, W. W. & Ju, K. S., Nov 20 2020, In: ACS chemical biology. 15, 11, p. 3013-3020 8 p.

  Research output: Contribution to journal › Article › peer-review

  • capreomycidine
  • Metabolomics
  • Multigene Family
  • Biological Products
  • Genes

• Genome-wide gene expression and RNA half-life measurements allow predictions of regulation and metabolic behavior in Methanosarcina acetivorans

  Peterson, J. R., Thor, S. S., Kohler, L., Kohler, P. R. A., Metcalf, W. W. & Luthey-Schulten, Z., Nov 16 2016, In: BMC genomics. 17, 1, 924.

  Research output: Contribution to journal › Article › peer-review

  • Methanosarcina
  • Half-Life
  • RNA
  • Genome
  • Gene Expression

• Metabologenomics: Correlation of microbial gene clusters with metabolites drives discovery of a nonribosomal peptide with an unusual amino acid monomer

  Goering, A. W., McClure, R. A., Doroghazi, J. R., Albright, J. C., Haverland, N. A., Zhang, Y., Ju, K. S., Thomson, R. J., Metcalf, W. W. & Kelleher, N. L., Feb 24 2016, In: ACS Central Science. 2, 2, p. 99-108 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Metabolites
  • Peptides
  • Amino acids
  • Monomers
  • Biological Products

• Methylamine-specific methyltransferase paralogs in Methanosarcina are functionally distinct despite frequent gene conversion

  Nayak, D. D. & Metcalf, W. W., Sep 1 2019, In: ISME Journal. 13, 9, p. 2173-2182 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Methanosarcina
  • methylamine
  • Gene Conversion
  • Gene Duplication
  • gene conversion

• Molecular Basis of Bacillus subtilis ATCC 6633 Self-Resistance to the Phosphono-oligopeptide Antibiotic Rhizocticin

  Petronikolou, N., Ortega, M. A., Borisova, S. A., Nair, S. K. & Metcalf, W. W., Apr 19 2019, In: ACS chemical biology. 14, 4, p. 742-750 9 p.

  Research output: Contribution to journal › Article › peer-review

  • 2-amino-5-phosphono-3-pentenoic acid
  • Bacilli
  • Oligopeptides
  • Bacillus subtilis
  • threonine synthase

• PcxL and HpxL are flavin-dependent, oxime-forming N-oxidases in phosphonocystoximic acid biosynthesis in Streptomyces

  Goettge, M. N., Cioni, J. P., Ju, K. S., Pallitsch, K. & Metcalf, W. W., May 4 2018, In: Journal of Biological Chemistry. 293, 18, p. 6859-6868 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Biosynthesis
  • 4,6-dinitro-o-cresol
  • Oximes
  • Streptomyces
  • Oxidoreductases

• Quinovosamycins: New tunicamycin-type antibiotics in which the α, β-1',11'-linked N-acetylglucosamine residue is replaced by N-acetylquinovosamine

  Price, N. P. J., Labeda, D. P., Naumann, T. A., Vermillion, K. E., Bowman, M. J., Berhow, M. A., Metcalf, W. W. & Bischoff, K. M., Aug 1 2016, In: Journal of Antibiotics. 69, 8, p. 637-646 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Tunicamycin
  • Acetylglucosamine
  • Anti-Bacterial Agents
  • 5-phenylpent-4-enyl-1-hydroperoxide
  • UDP-GlcNAc-undecaprenyl phosphate N-acetylglucosaminyl 1-phosphate transferase

• Taxonomic evaluation of species in the streptomyces hirsutus clade using multi-locus sequence analysis and proposals to reclassify several species in this clade

  Labeda, D. P., Rong, X., Huang, Y., Doroghazi, J. R., Ju, K. S. & Metcalf, W. W., Jun 2016, In: International Journal of Systematic and Evolutionary Microbiology. 66, 6, p. 2444-2450 7 p.

  Research output: Contribution to journal › Article › peer-review

  • Streptomyces hirsutus
  • Streptomyces
  • multilocus sequence typing
  • Streptomyces prasinopilosus
  • Sequence Analysis

• The streptothricin acetyltransferase (sat) gene as a positive selectable marker for methanogenic archaea

  Farley, K. R. & Metcalf, W. W., Oct 12 2019, In: FEMS microbiology letters. 366, 17, fnz216.

  Research output: Contribution to journal › Article › peer-review

  • streptothricin acetyltransferase
  • Methanosarcina
  • Streptothricins
  • Archaea
  • nourseothricin acetyltransferase
• Chapter

  Genetic techniques for studies of methyl-coenzyme M reductase from Methanosarcina acetivorans C2A

  Nayak, D. D. & Metcalf, W. W., 2018, Methods in Enzymology. Armstrong, F. (ed.). Academic Press Inc., p. 325-347 23 p. (Methods in Enzymology; vol. 613).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • methyl coenzyme M reductase
  • Methanosarcina
  • Methane
  • Genetic Techniques
  • Methanogens
• Editorial

  Classic spotlight: What's on (in) your plate today?

  Metcalf, W. W., 2016, In: Journal of bacteriology. 198, 21, p. 2897-2898 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• Classic spotlight: Metabolic flux-which way to go?

  Metcalf, W. W., 2016, In: Journal of bacteriology. 198, 24, p. 3248-3249 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• Classic spotlight: Electron bifurcation, a unifying concept for energy conservation in anaerobes

  Metcalf, W. W., May 1 2016, In: Journal of bacteriology. 198, 9, p. 1358 1 p.

  Research output: Contribution to journal › Editorial › peer-review
• Review article

  Energy conservation and hydrogenase function in methanogenic archaea, in particular the genus methanosarcina

  Mand, T. D. & Metcalf, W. W., Dec 2019, In: Microbiology and Molecular Biology Reviews. 83, 4, e0002019.

  Research output: Contribution to journal › Review article › peer-review

  • Methanosarcina
  • Hydrogenase
  • Methane
  • Archaea
  • Cytochromes