Published
35.
Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim
ACS Infectious Disease, 2020, 6(5):1154-1168
McAvoy AC, Jaiyesimi O, Threatt PH, Seladi T, Goldberg JB, da Silva RR, Garg N.
34.
Global chemical effects of the microbiome include new bile-acid conjugations
Nature, 2020, 579:123–129.
Quinn RA, Melnik AV, Vrbanac A, Fu T, Patras KA, Christy MP, Bodai Z, Belda-Ferre P, Tripathi A, Chung LK, Downes M, Welch RD, Quinn M, Humphrey G, Panitchpakdi M, Weldon KC, Aksenov A, da Silva R, Avila-Pacheco J, Clish C, Bae S, Mallick H, Franzosa EA, Lloyd-Price J, Bussell R, Thron T, Nelson AT, Wang M, Leszczynski E, Vargas F, Gauglitz JM, Meehan MJ, Gentry E, Arthur TD Komor AC, Poulsen O, Boland BS, Chang JT, Sandborn WJ, Lim M, Garg N, Lumeng JC, Xavier RJ, Kazmierczak BI, Jain R, Egan M, Rhee KE, Ferguson D, Raffatellu M, Vlamakis H, Haddad GG, Siegel D, Huttenhower C, Mazmanian SK, Evans RM, Nizet V, Knight R, Dorrestein PC.
33.
Multi-Omic Profiling of Melophlus Sponges Reveals Diverse Metabolomic and Microbiome Architectures that Are Non-overlapping with Ecological Neighbors.
Marine Drugs, 2020,18(2): E124.
Mohanty I, Podell S, Biggs JS, Garg N, Allen EE, Agarwal V.
32.
Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis.
mSystems, 2019, 4:e00375-19. DOI: 10.1128/mSystems.00375-19
Melnik AV, Vázquez-Baeza Y, Aksenov AA, Hyde E, McAvoy AC, Wang M, da Silva RR, Protsyuk I, Wu JV, Bouslimani A, Lim YW, Luzzatto-Knaan T, Comstock W, Quinn RA, Wong R, Humphrey G, Ackermann G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC, Garg N.
31.
Mass spectrometry-based integration and expansion of the chemical diversity harbored within a marine sponge.
Journal of the American Society for Mass Spectrometry, 2019; 30(8):1373-1384.
Cantrell TP, Freeman CJ, Paul VJ, Agarwal V, Garg N.
30.
The chemical topology of a bacterial swarm.
Journal of Biological Chemistry, 2018, 293(24):9553-9554.
Garg N, Whiteley M
29.
Chemoenzymatic synthesis of starting materials and characterization of halogenases requiring acyl carrier protein-tethered substrates.
Methods in Enzymology, 2018; 604:333-366.
Thapa HR, Lail AJ, Garg N, Agarwal V.
28.
Creating a 3D microbial and chemical snapshot of a human habitat.
Scientific Reports, 2018, 8(1):3669.
Kapono CA, Morton JT, Bouslimani A, Melnik AV, Orlinsky K, Knaan TL, Garg N, Vázquez-Baeza Y, Protsyuk I, Janssen S, Zhu Q, Alexandrov T, Smarr L, Knight R, Dorrestein PC.
27.
Three dimensional microbiome and metabolome cartography of a diseased human lung.
Cell Host & Microbe, 2017, 22(5):705-716.
Garg N, Wang M, Hyde E, da Silva RR, Melnik A, Protsyuk I, Bouslimani A, Lim YW, Wong R, Humphrey G, Ackerman G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC.
Work presented in this study has been highlighted by Nature Medicine news: doi:10.1038/nm0815-837
Highlighted by UC SanDiego Health
26.
Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules.
Edlund A, Garg N, He X, Shi W, Dorrestein PC, McLean JS.
mSystems, 2017, 2(4):e00058-17.
Highlighted as Editor's Pick.
25.
Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae.
Luzzatto-Knaan T*, Garg N*, Wang M, Glukhov E, Peng Y, Ackerman G, Amir A, Duggan BM, Ryazanov S, Gerwick L, Knight R, Alexandrov T, Bandeira N, Gerwick WH, Dorrestein, PC.
eLIFE. 2017, 6:e24214.
*Denotes equal contribution author.
24.
Multi-omics analysis of periodontal pocket microbial communities pre- and post-treatment.
Califf KJ, Schwarzberg-Lipson K, Garg N, Gibbons SM, Caporaso JG, Slots J, Cohen C, Dorrestein PC, Kelley ST.
mSystems.2017, 2(3):e00016-17.
23.
Two flavoenzymes catalyze the post-translational generation of 5-chlorotryptophan and 2-aminovinyl-cysteine during NAI-107 biosynthesis.
Ortega MA, Cogan DP, Mukherjee S, Garg N, Li B, Thibodeaux GN, Maffioli S, Donadio S, Sosio M, Escano J, Smith L, Nair SK, van der Donk WA.
ACS Chemical Biology. 2017; 12(2):548-557.
22.
Natural Products as mediators of disease.
Garg N, Luzzatto-Knaan T, Melnik AV, Caraballo-Rodríguez AM, Floros DJ, Petras D, Gregor R, Dorrestein PC, Phelan VV. (2016).
Natural Products Reports. 2017; 34:194-219.
21.
Dereplication of peptidic natural products through database search of mass spectra.
Mohimani H, Gurevich A, Alla Mikheenko, Garg N, Louis-Felix Nothias, Akihiro Ninomiya, Kentaro Takada, Dorrestein PC, Pevzner PA.
Nature Chemical Biology. 2017; 13(1):30-37.
20.
Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats.
Petras D, Nothias LF, Quinn RA, Alexandrov T, Bandeira N, Bouslimani A, Castro-Falcón G, Chen L, Dang T, Floros DJ, Hook V, Garg N et al.
Analytical Chemistry. 2016; 88(22):10775-10784.
19.
Spatial Molecular Architecture of the Microbial Community of Peltigera Lichen.
Garg N, Zeng Y, Edlund A, Melnik AV, Sanchez LM, Mohimani H, Gurevich A, Miao V, Schiffler S, Lim YW, Luzzatto-Knaan T, Cai S, Rohwer F, Pezner PA, Cichewicz RH, Alexandrov T, Dorrestein PC.
mSystems. 2016; 1(6): e00139-16.
Highlighted as Editor's Pick.
18.
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking.
Wang M*, Carver JJ*, Phelan VV*, Sanchez LM*, Garg N*, Peng Y*, Nguyen DD et al.
Nature Biotechnology. 2016; 34(8):828-837.
*Denotes equal contribution.
17.
Microbiome-wide association studies link dynamic microbial consortia to disease.
Gilbert JA, Quinn RA, Debelius J, Xu ZZ, Morton J, Garg N, Jansson JK, Dorrestein PC, Knight R.
Nature. 2016; 535: 94–103.
16.
Characterization of the stereochemical configuration of lanthionine formation by the lanthipeptide synthetase GeoM.
Garg N, Chen T, Goto Y, van der Donk WA. (2016).
Biopolymers . 2016; 106(6):834-842.
15.
Microbial, Host and Xenobiotic Diversity in the Cystic Fibrosis Sputum Metabolome.
Quinn RA, Phelan VV, Whiteson KL, Garg N, Bailey BA, Lim YW, Conrad DJ, Dorrestein PC, Rohwer FL.
The ISME Journal. 2016; 10(6):1483-98.
14.
Chemoenzymatic Synthesis of Acyl Coenzyme A Substrates Enables in Situ Labeling of Small Molecules and Proteins.
Agarwal V, Diethelm S, Ray L, Garg N, Awakawa T, Dorrestein PC, Moore BS.
Organic Letters. 2015; 17(18):4452-4455.
13.
Minimum Information about a Biosynthetic Gene cluster.
Medema MH, Kottmann R, Yilmaz P, Cummings M, Biggins JB, Blin K, de Bruijn I, Chooi YH, Claesen J, Coates RC, Cruz-Morales P, Duddela S, Düsterhus S, Edwards DJ, Fewer DP, Garg N et al.
Nature Chemical Biology. 2015; 11(9):625-631.
12.
Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures.
Garg N, Kapono CA, Lim YW, Koyama N, Vermeij MJA, Conrad D, Rohwer F, Dorrestein PC.
International Journal of Mass Spectrometry. 2015; 377: 719-727.
11.
Specialized Metabolites from the Microbiome in Health and Disease.
Sharon G*, Garg N*, Debelius J*, Knight R, Dorrestein PC, Mazmanian SK.
Cell Metabolism. 2014; 20:719-730.
*Denotes equal contribution.
10.
Substrate specificity of the lanthipeptide peptidase ElxP and the oxidoreductase ElxO.
Ortega MA, Velásquez JE, Garg N, Zhang Q, Joyce R, Nair SK, van der Donk WA.
ACS Chemical Biology. 2014; 9(8):1718-1725.
9.
Mass spectrometry of natural products: current, emerging and future technologies.
Bouslimani A, Sanchez LM, Garg N, Dorrestein PC.
Natural Product Reports. 2014; 31(6):718-729.
8.
The Intestinal Metabolome: An Intersection Between Microbiota and Host.
Ursell LK, Haiser HJ, Treuren WV, Garg N, Reddivari L, Vanamala J, Dorrestein PC, Turnbaugh PJ, Knight R.
Gastroenterology. 2014; 146(6):1470-1476.
7.
Chemical Rescue and Inhibition Studies to Determine the Role of Arg301 in Phosphite Dehydrogenase.
Hung JE, Fogle EJ, Garg N, Chekan JA, Nair SK, van der Donk WA.
PLoS One. 2014; 9(1):e87134.
6.
Mode of Action and Structure-Activity Relationship Studies of Geobacillin I.
Garg N, Oman TJ, Andrew Wang TS, De Gonzalo CV, Walker S, van der Donk WA.
The Journal of Antibiotics. 2014; 67:133-136.
5.
In vitro activity of the nisin dehydratase NisB.
Garg N, Salazar-Ocampo LMA, van der Donk WA.
Proceedings of the National Academy of Sciences of the USA. 2013; 110(18):7258-7263.
4.
Lantibiotics from Geobacillus thermodenitrificans.
Garg N, Tang W, Goto Y, Nair SK, van der donk WA. (2012).
Proceedings of the National Academy of Sciences of the USA, 109(14):5241-5246.
Highlighted by ACS Chemical and Engineering News:
http://cen.acs.org/articles/90/i13/Thermally-Stable-Nisin-Analogs-Found.html
Highlighted by the University of Illinois News Bureau:
https://news.illinois.edu/view/6367/205107
3.
Cloning, sequence analysis, expression of Cyathus bulleri laccase in Pichia pastoris and characterization of recombinant laccase.
Garg N, Bieler N, Kenzom T, Chhabra M, Ansorge-Schumacher M, Mishra S.
BMC Biotechnology. 2012; 12:75-84.
2.
Production of lantipeptides in Escherichia coli.
Shi Y, Yang X, Garg N, van der Donk WA.
Journal of the American Chemical Society. 2011; 133: 2338-2341.
1.
Laccase of Cyathus bulleri: structural, catalytic characterization and expression in Escherichia coli.
Salony, Garg N, Baranwal R, Chhabra M, Mishra S, Chaudhuri TK, Bisaria VS.
Biochimica et Biophysica Acta. 2008; 1784(2): 259-268.
35.
Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim
ACS Infectious Disease, 2020, 6(5):1154-1168
McAvoy AC, Jaiyesimi O, Threatt PH, Seladi T, Goldberg JB, da Silva RR, Garg N.
34.
Global chemical effects of the microbiome include new bile-acid conjugations
Nature, 2020, 579:123–129.
Quinn RA, Melnik AV, Vrbanac A, Fu T, Patras KA, Christy MP, Bodai Z, Belda-Ferre P, Tripathi A, Chung LK, Downes M, Welch RD, Quinn M, Humphrey G, Panitchpakdi M, Weldon KC, Aksenov A, da Silva R, Avila-Pacheco J, Clish C, Bae S, Mallick H, Franzosa EA, Lloyd-Price J, Bussell R, Thron T, Nelson AT, Wang M, Leszczynski E, Vargas F, Gauglitz JM, Meehan MJ, Gentry E, Arthur TD Komor AC, Poulsen O, Boland BS, Chang JT, Sandborn WJ, Lim M, Garg N, Lumeng JC, Xavier RJ, Kazmierczak BI, Jain R, Egan M, Rhee KE, Ferguson D, Raffatellu M, Vlamakis H, Haddad GG, Siegel D, Huttenhower C, Mazmanian SK, Evans RM, Nizet V, Knight R, Dorrestein PC.
33.
Multi-Omic Profiling of Melophlus Sponges Reveals Diverse Metabolomic and Microbiome Architectures that Are Non-overlapping with Ecological Neighbors.
Marine Drugs, 2020,18(2): E124.
Mohanty I, Podell S, Biggs JS, Garg N, Allen EE, Agarwal V.
32.
Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis.
mSystems, 2019, 4:e00375-19. DOI: 10.1128/mSystems.00375-19
Melnik AV, Vázquez-Baeza Y, Aksenov AA, Hyde E, McAvoy AC, Wang M, da Silva RR, Protsyuk I, Wu JV, Bouslimani A, Lim YW, Luzzatto-Knaan T, Comstock W, Quinn RA, Wong R, Humphrey G, Ackermann G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC, Garg N.
31.
Mass spectrometry-based integration and expansion of the chemical diversity harbored within a marine sponge.
Journal of the American Society for Mass Spectrometry, 2019; 30(8):1373-1384.
Cantrell TP, Freeman CJ, Paul VJ, Agarwal V, Garg N.
30.
The chemical topology of a bacterial swarm.
Journal of Biological Chemistry, 2018, 293(24):9553-9554.
Garg N, Whiteley M
29.
Chemoenzymatic synthesis of starting materials and characterization of halogenases requiring acyl carrier protein-tethered substrates.
Methods in Enzymology, 2018; 604:333-366.
Thapa HR, Lail AJ, Garg N, Agarwal V.
28.
Creating a 3D microbial and chemical snapshot of a human habitat.
Scientific Reports, 2018, 8(1):3669.
Kapono CA, Morton JT, Bouslimani A, Melnik AV, Orlinsky K, Knaan TL, Garg N, Vázquez-Baeza Y, Protsyuk I, Janssen S, Zhu Q, Alexandrov T, Smarr L, Knight R, Dorrestein PC.
27.
Three dimensional microbiome and metabolome cartography of a diseased human lung.
Cell Host & Microbe, 2017, 22(5):705-716.
Garg N, Wang M, Hyde E, da Silva RR, Melnik A, Protsyuk I, Bouslimani A, Lim YW, Wong R, Humphrey G, Ackerman G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC.
Work presented in this study has been highlighted by Nature Medicine news: doi:10.1038/nm0815-837
Highlighted by UC SanDiego Health
26.
Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules.
Edlund A, Garg N, He X, Shi W, Dorrestein PC, McLean JS.
mSystems, 2017, 2(4):e00058-17.
Highlighted as Editor's Pick.
25.
Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae.
Luzzatto-Knaan T*, Garg N*, Wang M, Glukhov E, Peng Y, Ackerman G, Amir A, Duggan BM, Ryazanov S, Gerwick L, Knight R, Alexandrov T, Bandeira N, Gerwick WH, Dorrestein, PC.
eLIFE. 2017, 6:e24214.
*Denotes equal contribution author.
24.
Multi-omics analysis of periodontal pocket microbial communities pre- and post-treatment.
Califf KJ, Schwarzberg-Lipson K, Garg N, Gibbons SM, Caporaso JG, Slots J, Cohen C, Dorrestein PC, Kelley ST.
mSystems.2017, 2(3):e00016-17.
23.
Two flavoenzymes catalyze the post-translational generation of 5-chlorotryptophan and 2-aminovinyl-cysteine during NAI-107 biosynthesis.
Ortega MA, Cogan DP, Mukherjee S, Garg N, Li B, Thibodeaux GN, Maffioli S, Donadio S, Sosio M, Escano J, Smith L, Nair SK, van der Donk WA.
ACS Chemical Biology. 2017; 12(2):548-557.
22.
Natural Products as mediators of disease.
Garg N, Luzzatto-Knaan T, Melnik AV, Caraballo-Rodríguez AM, Floros DJ, Petras D, Gregor R, Dorrestein PC, Phelan VV. (2016).
Natural Products Reports. 2017; 34:194-219.
21.
Dereplication of peptidic natural products through database search of mass spectra.
Mohimani H, Gurevich A, Alla Mikheenko, Garg N, Louis-Felix Nothias, Akihiro Ninomiya, Kentaro Takada, Dorrestein PC, Pevzner PA.
Nature Chemical Biology. 2017; 13(1):30-37.
20.
Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats.
Petras D, Nothias LF, Quinn RA, Alexandrov T, Bandeira N, Bouslimani A, Castro-Falcón G, Chen L, Dang T, Floros DJ, Hook V, Garg N et al.
Analytical Chemistry. 2016; 88(22):10775-10784.
19.
Spatial Molecular Architecture of the Microbial Community of Peltigera Lichen.
Garg N, Zeng Y, Edlund A, Melnik AV, Sanchez LM, Mohimani H, Gurevich A, Miao V, Schiffler S, Lim YW, Luzzatto-Knaan T, Cai S, Rohwer F, Pezner PA, Cichewicz RH, Alexandrov T, Dorrestein PC.
mSystems. 2016; 1(6): e00139-16.
Highlighted as Editor's Pick.
18.
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking.
Wang M*, Carver JJ*, Phelan VV*, Sanchez LM*, Garg N*, Peng Y*, Nguyen DD et al.
Nature Biotechnology. 2016; 34(8):828-837.
*Denotes equal contribution.
17.
Microbiome-wide association studies link dynamic microbial consortia to disease.
Gilbert JA, Quinn RA, Debelius J, Xu ZZ, Morton J, Garg N, Jansson JK, Dorrestein PC, Knight R.
Nature. 2016; 535: 94–103.
16.
Characterization of the stereochemical configuration of lanthionine formation by the lanthipeptide synthetase GeoM.
Garg N, Chen T, Goto Y, van der Donk WA. (2016).
Biopolymers . 2016; 106(6):834-842.
15.
Microbial, Host and Xenobiotic Diversity in the Cystic Fibrosis Sputum Metabolome.
Quinn RA, Phelan VV, Whiteson KL, Garg N, Bailey BA, Lim YW, Conrad DJ, Dorrestein PC, Rohwer FL.
The ISME Journal. 2016; 10(6):1483-98.
14.
Chemoenzymatic Synthesis of Acyl Coenzyme A Substrates Enables in Situ Labeling of Small Molecules and Proteins.
Agarwal V, Diethelm S, Ray L, Garg N, Awakawa T, Dorrestein PC, Moore BS.
Organic Letters. 2015; 17(18):4452-4455.
13.
Minimum Information about a Biosynthetic Gene cluster.
Medema MH, Kottmann R, Yilmaz P, Cummings M, Biggins JB, Blin K, de Bruijn I, Chooi YH, Claesen J, Coates RC, Cruz-Morales P, Duddela S, Düsterhus S, Edwards DJ, Fewer DP, Garg N et al.
Nature Chemical Biology. 2015; 11(9):625-631.
12.
Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures.
Garg N, Kapono CA, Lim YW, Koyama N, Vermeij MJA, Conrad D, Rohwer F, Dorrestein PC.
International Journal of Mass Spectrometry. 2015; 377: 719-727.
11.
Specialized Metabolites from the Microbiome in Health and Disease.
Sharon G*, Garg N*, Debelius J*, Knight R, Dorrestein PC, Mazmanian SK.
Cell Metabolism. 2014; 20:719-730.
*Denotes equal contribution.
10.
Substrate specificity of the lanthipeptide peptidase ElxP and the oxidoreductase ElxO.
Ortega MA, Velásquez JE, Garg N, Zhang Q, Joyce R, Nair SK, van der Donk WA.
ACS Chemical Biology. 2014; 9(8):1718-1725.
9.
Mass spectrometry of natural products: current, emerging and future technologies.
Bouslimani A, Sanchez LM, Garg N, Dorrestein PC.
Natural Product Reports. 2014; 31(6):718-729.
8.
The Intestinal Metabolome: An Intersection Between Microbiota and Host.
Ursell LK, Haiser HJ, Treuren WV, Garg N, Reddivari L, Vanamala J, Dorrestein PC, Turnbaugh PJ, Knight R.
Gastroenterology. 2014; 146(6):1470-1476.
7.
Chemical Rescue and Inhibition Studies to Determine the Role of Arg301 in Phosphite Dehydrogenase.
Hung JE, Fogle EJ, Garg N, Chekan JA, Nair SK, van der Donk WA.
PLoS One. 2014; 9(1):e87134.
6.
Mode of Action and Structure-Activity Relationship Studies of Geobacillin I.
Garg N, Oman TJ, Andrew Wang TS, De Gonzalo CV, Walker S, van der Donk WA.
The Journal of Antibiotics. 2014; 67:133-136.
5.
In vitro activity of the nisin dehydratase NisB.
Garg N, Salazar-Ocampo LMA, van der Donk WA.
Proceedings of the National Academy of Sciences of the USA. 2013; 110(18):7258-7263.
4.
Lantibiotics from Geobacillus thermodenitrificans.
Garg N, Tang W, Goto Y, Nair SK, van der donk WA. (2012).
Proceedings of the National Academy of Sciences of the USA, 109(14):5241-5246.
Highlighted by ACS Chemical and Engineering News:
http://cen.acs.org/articles/90/i13/Thermally-Stable-Nisin-Analogs-Found.html
Highlighted by the University of Illinois News Bureau:
https://news.illinois.edu/view/6367/205107
3.
Cloning, sequence analysis, expression of Cyathus bulleri laccase in Pichia pastoris and characterization of recombinant laccase.
Garg N, Bieler N, Kenzom T, Chhabra M, Ansorge-Schumacher M, Mishra S.
BMC Biotechnology. 2012; 12:75-84.
2.
Production of lantipeptides in Escherichia coli.
Shi Y, Yang X, Garg N, van der Donk WA.
Journal of the American Chemical Society. 2011; 133: 2338-2341.
1.
Laccase of Cyathus bulleri: structural, catalytic characterization and expression in Escherichia coli.
Salony, Garg N, Baranwal R, Chhabra M, Mishra S, Chaudhuri TK, Bisaria VS.
Biochimica et Biophysica Acta. 2008; 1784(2): 259-268.