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1. Full Text Bioactive Synthetic-Bioinformatic Natural Product Cyclic Peptides Inspired by Nonribosomal Peptide Synthetase Gene Clusters from the Human Microbiome
by Chu, J and Via-Farres, X and Brady, SF
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, ISSN 0002-7863, 10/2019, Volume 141, Issue 40, pp. 15737 - 15741
Bioinformatic analysis of sequenced bacterial genomes has uncovered an increasing number of natural product biosynthetic gene clusters (BGCs) to which no known... 
ANTIBIOTICS | METABOLITES | RHODOCOCCUS-EQUI | POLYKETIDE | SP NOV | LOGIC | CHEMISTRY, MULTIDISCIPLINARY | DISCOVERY | FAMILY
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2. Full Text Functional Multigenomic Screening of Human-Associated Bacteria for NF-κB-Inducing Bioactive Effectors
by Estrela, Andreia B and Nakashige, Toshiki G and Lemetre, Christophe and Woodworth, Ian D and Weisman, Jazz L and Cohen, Louis J and Brady, Sean F
mBio, ISSN 2150-7511, 11/2019, Volume 10, Issue 6
ABSTRACT The effect of the microbiota on its human host is driven, at least in part, by small-molecule and protein effectors it produces. Here, we report on... 
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3. Full Text Minimum Information about a Biosynthetic Gene cluster
by Medema, Marnix H and Kottmann, Renzo and Yilmaz, Pelin and Cummings, Matthew and Biggins, John B and Blin, Kai and de Bruijn, Irene and Chooi, Yit Heng and Claesen, Jan and Coates, R Cameron and Cruz-Morales, Pablo and Duddela, Srikanth and Düsterhus, Stephanie and Edwards, Daniel J and Fewer, David P and Garg, Neha and Geiger, Christoph and Gomez-Escribano, Juan Pablo and Greule, Anja and Hadjithomas, Michalis and Haines, Anthony S and Helfrich, Eric J N and Hillwig, Matthew L and Ishida, Keishi and Jones, Adam C and Jones, Carla S and Jungmann, Katrin and Kegler, Carsten and Kim, Hyun Uk and Kötter, Peter and Krug, Daniel and Masschelein, Joleen and Melnik, Alexey V and Mantovani, Simone M and Monroe, Emily A and Moore, Marcus and Moss, Nathan and Nützmann, Hans-Wilhelm and Pan, Guohui and Pati, Amrita and Petras, Daniel and Reen, F Jerry and Rosconi, Federico and Rui, Zhe and Tian, Zhenhua and Tobias, Nicholas J and Tsunematsu, Yuta and Wiemann, Philipp and Wyckoff, Elizabeth and Yan, Xiaohui and Yim, Grace and Yu, Fengan and Xie, Yunchang and Aigle, Bertrand and Apel, Alexander K and Balibar, Carl J and Balskus, Emily P and Barona-Gómez, Francisco and Bechthold, Aneas and Bode, Helge B and Borriss, Rainer and Brady, Sean F and Brakhage, Axel A and Caffrey, Patrick and Cheng, Yi-Qiang and Clardy, Jon and Cox, Russell J and De Mot, René and Donadio, Stefano and Donia, Mohamed S and van der Donk, Wilfred A and Dorrestein, Pieter C and Doyle, Sean and essen, Arnold J M and Ehling-Schulz, Monika and Entian, Karl-Dieter and Fischbach, Michael A and Gerwick, Lena and Gerwick, William H and Gross, Harald and Gust, Bertolt and Hertweck, Christian and Höfte, Monica and Jensen, Susan E and Ju, Jianhua and Katz, Leonard and Kaysser, Leonard and Klassen, Jonathan L and Keller, Nancy P and Kormanec, Jan and Kuipers, Oscar P and Kuzuyama, Tomohisa and Kyrpides, Nikos C and Kwon, Hyung-Jin and Lautru, Sylvie and Lavigne, Rob and Lee, Chia Y and Linquan, Bai and Liu, Xinyu and Liu, Wen and ...
Nature Chemical Biology, ISSN 1552-4469, 08/2015, Volume 11, Issue 9, pp. 625 - 631
  A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene... 
DATABASE | BIOCHEMISTRY & MOLECULAR BIOLOGY | DISCOVERY | RESOURCE | Bacteria - metabolism | Multigene Family | Protein Biosynthesis | Peptide Biosynthesis, Nucleic Acid-Independent | Databases, Genetic | Terminology as Topic | International Cooperation | Genetic Markers | Fungi - metabolism | Bacteria - genetics | Fungi - genetics | Polysaccharides - biosynthesis | Polyketides - metabolism | Plants - metabolism | Peptides - metabolism | Terpenes - metabolism | Plants - genetics | Alkaloids - biosynthesis | Computational Biology - standards | Metagenome | Microorganisms | Biosynthesis | Metabolites | Genomics | Peptides | Computational Biology | Plants | Fungi | Life Sciences | Alkaloids | Polyketides | Polysaccharides | Bacteria | Terpenes | Biochemistry and Molecular Biology | Bioinformatik och systembiologi | Biokemi och molekylärbiologi | Bioinformatics and Systems Biology | Laboratory of Phytopathology | EPS | Laboratorium voor Phytopathologie | Bioinformatica | Bioinformatics | Laboratorium voor Fytopathologie
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4. Construction of soil environmental DNA cosmid libraries and screening for clones that produce biologically active small molecules
by Brady, Sean F
Nature Protocols, ISSN 1754-2189, 05/2007, Volume 2, Issue 5, pp. 1297 - 1305
Culture-independent studies on environmental samples indicate that most bacteria are not readily cultured in the laboratory. The small fraction of bacteria... 
ANTIBIOTICS | GENE-CLUSTER | CLONING | NATURAL-PRODUCTS | BIOSYNTHESIS | STRATEGY | ESCHERICHIA-COLI | BIOCHEMICAL RESEARCH METHODS | UNCULTURED MICROORGANISMS | DIVERSITY | HETEROLOGOUS EXPRESSION | Gene Library | Soil Microbiology | Cloning, Molecular - methods | Cosmids - genetics | Anti-Bacterial Agents - isolation & purification | Bacteria - genetics | Biological Products - isolation & purification
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5. Bacterial natural product biosynthetic domain composition in soil correlates with changes in latitude on a continent-wide scale
by Christophe Lemetre and Jeffrey Maniko and Zachary Charlop-Powers and Ben Sparrow and Andrew J Lowe and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 10/2017, Volume 114, Issue 44, p. 11615
Although bacterial bioactive metabolites have been one of the most prolific sources of lead structures for the development of small-molecule therapeutics, very... 
Peptides | Microbiomes | Biogeography | Environmental changes | Biosynthesis | Latitude | Environmental factors | Metabolism | Drug development | pH effects | Soils | Metabolites | Natural products | Primers | Bacteria | Adenylation | Bioactive metabolites
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6. Full Text Back Cover: Arimetamycin A: Improving Clinically Relevant Families of Natural Products through Sequence-Guided Screening of Soil Metagenomes (Angew. Chem. Int. Ed. 42/2013)
by Kang, Hahk-Soo and Brady, Sean F
Angewandte Chemie International Edition, ISSN 1433-7851, 10/2013, Volume 52, Issue 42, pp. 11174 - 11174
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7. Full Text Mutations in the proteolipid subunits of the vacuolar [H.sup.+]-ATPase provide resistance to indolotryptoline natural products
by Chang, Fang-Yuan and Kawashima, Shigehiro A and Brady, Sean F
Biochemistry, ISSN 0006-2960, 11/2014, Volume 53, Issue 45, p. 7123
Mutagenesis | Analysis | Lipids | Adenosine triphosphatase
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8. Urban park soil microbiomes are a rich reservoir of natural product biosynthetic diversity
by Zachary Charlop-Powers and Clara C Pregitzer and Christophe Lemetre and Melinda A Ternei and Jeffrey Maniko and Bradley M Hover and Paula Y Calle and Krista L McGuire and Jeanne Garbarino and Helen M Forgione and Sarah Charlop-Powers and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 12/2016, Volume 113, Issue 51, p. 14811
  Numerous therapeutically relevant small molecules have been identified from the screening of natural products (NPs) produced by environmental bacteria. These... 
Molecules | Peptides | Phylogenetics | Bacteria | Deoxyribonucleic acid--DNA | Biological diversity
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9. Yeast homologous recombination-based promoter engineering for the activation of silent natural product biosynthetic gene clusters
by Montiel, Daniel and Kang, Hahk-Soo and Chang, Fang-Yuan and Charlop-Powers, Zachary and Brady, Sean F
Proceedings of the National Academy of Sciences, USA, ISSN 0027-8424, 07/2015, Volume 112, Issue 29, pp. 8953 - 8953
Large-scale sequencing of prokaryotic (meta)genomic DNA suggests that most bacterial natural product gene clusters are not expressed under common laboratory... 
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10. A novel mycovirus from Aspergillus fumigatus contains four unique dsRNAs as its genome and is infectious as dsRNA
by Montiel, Daniel and Kang, Hahk-Soo and Chang, Fang-Yuan and Charlop-Powers, Zachary and Brady, Sean F
Proceedings of the National Academy of Sciences, USA, ISSN 0027-8424, 07/2015, Volume 112, Issue 29, pp. 9100 - 9100
We report the discovery and characterization of a double-stranded RNA (dsRNA) mycovirus isolated from the human pathogenic fungus Aspergillus fumigatus,... 
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11. Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist
by Cohen, Louis J and Kang, Hahk-Soo and Chu, John and Huang, Yun-Han and Gordon, Emma A and Reddy, Boojala Vijay B and Ternei, Melinda A and Craig, Jeffrey W and Brady, Sean F
Proceedings of the National Academy of Sciences, USA, ISSN 0027-8424, 09/2015, Volume 112, Issue 35, pp. E4825 - E4825
The trillions of bacteria that make up the human microbiome are believed to encode functions that are important to human health; however, little is known about... 
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12. Discovery of indolotryptoline antiproliferative agents by homology-guided metagenomic screening
by Fang-Yuan Chang and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 02/2013, Volume 110, Issue 7, p. 2478
  Natural product discovery by random screening of broth extracts derived from cultured bacteria often suffers from high rates of redundant isolation, making... 
Antibiotics | Natural products | Phylogenetics | Bacteria | Gene expression | Deoxyribonucleic acid--DNA
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13. A novel mycovirus from Aspergillus fumigatus contains four unique dsRNAs as its genome and is infectious as dsRNA
by Daniel Montiel and Hahk-Soo Kang and Fang-Yuan Chang and Zachary Charlop-Powers and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 07/2015, Volume 112, Issue 29, p. 9100
  We report the discovery and characterization of a double-stranded RNA (dsRNA) mycovirus isolated from the human pathogenic fungus Aspergillus fumigatus,... 
Fungi | Proteins | Viruses | Genomes | RNA polymerase | Ribonucleic acid--RNA
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14. Yeast homologous recombination-based promoter engineering for the activation of silent natural product biosynthetic gene clusters
by Daniel Montiel and Hahk-Soo Kang and Fang-Yuan Chang and Zachary Charlop-Powers and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 07/2015, Volume 112, Issue 29, p. 8953
  Large-scale sequencing of prokaryotic (meta)genomic DNA suggests that most bacterial natural product gene clusters are not expressed under common laboratory... 
Prokaryotes | Natural products | Genomics | Biosynthesis | Genetic engineering | Gene expression | Deoxyribonucleic acid--DNA
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15. Full Text phylogeo: an R package for geographic analysis and visualization of microbiome data: Fig. 1
by Charlop-Powers, Zachary and Brady, Sean F
Bioinformatics, ISSN 1367-4803, 09/2015, Volume 31, Issue 17, pp. 2909 - 2911
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16. Chemical-biogeographic survey of secondary metabolism in soil
by Zachary Charlop-Powers and Jeremy G Owen and Boojala Vijay B Reddy and Melinda A Ternei and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 03/2014, Volume 111, Issue 10, p. 3757
  In this study, we compare biosynthetic gene richness and diversity of 96 soil microbiomes from diverse environments found throughout the southwestern and... 
Soils | Metabolites | Natural products | Genetics | Biosynthesis | Metabolism | Sediments
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17. Full Text Chemical-biogeorgraphic survey of secondary metabolism in soil
by Zachary Charlop-Powers and Jeremy G. Owen and Boojala Vijay B. Reddy and Melinda A. Ternei and Sean F. Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 3/2014, Volume 111, Issue 10, pp. 3757 - 3762
In this study, we compare biosynthetic gene richness and diversity of 96 soil microbiomes from diverse environments found throughout the southwestern and... 
Soil samples | Sedimentary soils | Soil composition | Multigene family | Biosynthesis | Acid soils | Arid soils | Desert soils | Forest soils | Soil ecology
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18. Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist
by Louis J Cohen and Hahk-Soo Kang and John Chu and Yun-Han Huang and Emma A Gordon and Boojala Vijay B Reddy and Melinda A Ternei and Jeffrey W Craig and Sean F Brady
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 09/2015, Volume 112, Issue 35, p. E4825
  The trillions of bacteria that make up the human microbiome are believed to encode functions that are important to human health; however, little is known... 
Transcription factors | Metabolites | Genomics | Deoxyribonucleic acid--DNA
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19. Full Text Arimetamycin A: Improving Clinically Relevant Families of Natural Products through Sequence‐Guided Screening of Soil Metagenomes
by Kang, Hahk‐Soo and Brady, Sean F
Angewandte Chemie, ISSN 0044-8249, 10/2013, Volume 125, Issue 42, pp. 11269 - 11273
Sequenzmarkergesteuertes Screening von DNA‐Bibiotheken in Bodenmikroben kann das Auffinden neuer Verbindungen mit verbesserten Eigenschaften ermöglichen. In... 
MDR | Anthracycline | Naturstoffe | Metagenomik | Tumortherapeutika | Anthracyclines
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20. Full Text Culture-independent discovery of natural products from soil metagenomes
by Katz, Micah and Katz, Micah and Hover, Bradley M and Hover, Bradley M and Brady, Sean F and Brady, Sean F
Journal of Industrial Microbiology & Biotechnology, ISSN 1367-5435, 3/2016, Volume 43, Issue 2, pp. 129 - 141
Bacterial natural products have proven to be invaluable starting points in the development of many currently used therapeutic agents. Unfortunately,... 
Life Sciences | Biochemistry, general | Culture-independent | Biotechnology | Metagenomics | Genetic Engineering | Microbiology | Natural products | Inorganic Chemistry | Drug discovery | Bioinformatics | ARTIFICIAL CHROMOSOME LIBRARY | II POLYKETIDE SYNTHASES | ENVIRONMENTAL DNA LIBRARIES | CANDIDATUS ENDOBUGULA SERTULA | BRYOZOAN BUGULA-NERITINA | HOST-RANGE CLONING | SECONDARY-METABOLITE BIOSYNTHESIS | COMPLETE GENOME SEQUENCE | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOSYNTHETIC GENE CLUSTERS | HETEROLOGOUS EXPRESSION | Bacteria - metabolism | Secondary Metabolism - genetics | Soil Microbiology | Humans | Bacteria - genetics | Drug Discovery | Biological Products - isolation & purification | DNA - genetics | DNA - isolation & purification | Bacteria - isolation & purification | Biosynthetic Pathways - genetics | DNA - analysis | Soil - chemistry | Biological Products - metabolism | Metagenome | Metabolites | Studies | Soil microorganisms | Pharmaceuticals
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