Derrick E. Fouts, PhD

Professor

Derrick Fouts is a Professor at the Rockville Campus. Dr. Fouts has extensive experience in viral and bacteriophage genomics, bacterial genomics, comparative genomics, and metagenomics of bacterial and viral communities.

Since joining Dr. Karen Nelson's group at TIGR/JCVI in 2001, Dr. Fouts has led several microbial sequencing projects, including animal, plant and human pathogens. Many of these projects were among the first to compare multiple strains. In addition to leading projects, Dr. Fouts has developed various software tools, including applications to perform multi-genome comparisons and heuristic software (Phage Finder) to identify prophage regions in bacterial genomes. He is currently leading the effort to sequence the human virome and reference viral and bacteriophage genomes as part of the NIH sponsored, Human Microbiome Project.

Dr. Fouts received his B.S. degree (1992) in Biology with honors from Indiana University, Bloomington, and his M.S. (1994) and PhD (1997) degrees in Microbiology from the University of Illinois Urbana/Champaign Department of Microbiology. In 1997, he began postdoctoral work in Dr. Alan Collmer's lab at Cornell University.

Publications

Hsu CL, Zhang X, Jiang L, Lang S, Hartmann P, Pride D, Fouts DE, Stärkel P, Schnabl B

Intestinal virome in patients with alcohol use disorder and after abstinence.

Hepatology communications. 2022-08-01; 6.8: 2058-2069.

PMID: 35368152

Mojica MF, Humphries R, LiPuma JJ, Mathers AJ, Rao GG, Shelburne SA, Fouts DE, van Duin D, Bonomo RA

Clinical challenges treating Stenotrophomonas maltophilia infections: an update.

JAC-antimicrobial resistance. 2022-06-01; 4.3: dlac040.

PMID: 35529051

Hujer AM, Bethel CR, Taracila MA, Marshall SH, Rojas LJ, Winkler ML, Painter RE, Domitrovic TN, Watkins RR, Abdelhamed AM, D'Souza R, Mack AR, White RC, Clarke T, Fouts DE, Jacobs MR, Young K, Bonomo RA

Imipenem/Relebactam Resistance in Clinical Isolates of Extensively Drug Resistant Pseudomonas aeruginosa: Inhibitor-Resistant β-Lactamases and Their Increasing Importance.

Antimicrobial agents and chemotherapy. 2022-05-17; 66.5: e0179021.

PMID: 35435707

Demir M, Lang S, Hartmann P, Duan Y, Martin A, Miyamoto Y, Bondareva M, Zhang X, Wang Y, Kasper P, Bang C, Roderburg C, Tacke F, Steffen HM, Goeser T, Kruglov A, Eckmann L, Stärkel P, Fouts DE, Schnabl B

The fecal mycobiome in non-alcoholic fatty liver disease.

Journal of hepatology. 2022-04-01; 76.4: 788-799.

PMID: 34896404

Mencke JL, He Y, Filippov AA, Nikolich MP, Belew AT, Fouts DE, McGann PT, Swierczewski BE, Getnet D, Ellison DW, Margulieux KR

Identification and Characterization of vB_PreP_EPr2, a Lytic Bacteriophage of Pan-Drug Resistant Providencia rettgeri.

Viruses. 2022-03-29; 14.4:

PMID: 35458437

Assad-Garcia N, D'Souza R, Buzzeo R, Tripathi A, Oldfield LM, Vashee S, Fouts DE

Cross-Genus "Boot-Up" of Synthetic Bacteriophage in Staphylococcus aureus by Using a New and Efficient DNA Transformation Method.

Applied and environmental microbiology. 2022-02-08; 88.3: e0148621.

PMID: 34818102

Gao B, Wu TC, Lang S, Jiang L, Duan Y, Fouts DE, Zhang X, Tu XM, Schnabl B

Machine Learning Applied to Omics Datasets Predicts Mortality in Patients with Alcoholic Hepatitis.

Metabolites. 2022-01-05; 12.1:

PMID: 35050163

Hsu C, Hsu CL, Duan Y, Fouts DE, Schnabl B

Intestinal virome and therapeutic potential of bacteriophages in liver disease.

Journal of hepatology. 2021-12-01; 75.6: 1465-1475.

PMID: 34437908

Hartmann P, Lang S, Zeng S, Duan Y, Zhang X, Wang Y, Bondareva M, Kruglov A, Fouts DE, Stärkel P, Schnabl B

Dynamic Changes of the Fungal Microbiome in Alcohol Use Disorder.

Frontiers in physiology. 2021-07-19; 12.699253.

PMID: 34349667

Hao M, Schuyler J, Zhang H, Shashkina E, Du H, Fouts DE, Satlin M, Kreiswirth BN, Chen L

Apramycin resistance in epidemic carbapenem-resistant Klebsiella pneumoniae ST258 strains.

The Journal of antimicrobial chemotherapy. 2021-07-15; 76.8: 2017-2023.

PMID: 33942093

Zhou R, Llorente C, Cao J, Zaramela LS, Zeng S, Gao B, Li SZ, Welch RD, Huang FQ, Qi LW, Pan C, Huang Y, Zhou P, Beussen I, Zhang Y, Bryam G, Fiehn O, Wang L, Liu EH, Yu RT, Downes M, Evans RM, Goglin K, Fouts DE, Brenner DA, Bode L, Fan X, Zengler K, Schnabl B

Intestinal α1-2-Fucosylation Contributes to Obesity and Steatohepatitis in Mice.

Cellular and molecular gastroenterology and hepatology. 2021-02-22; 12.1: 293-320.

PMID: 33631374

Boonyasiri A, Jauneikaite E, Brinkac LM, Greco C, Lerdlamyong K, Tangkoskul T, Nguyen K, Thamlikitkul V, Fouts DE

Genomic and clinical characterisation of multidrug-resistant carbapenemase-producing ST231 and ST16 Klebsiella pneumoniae isolates colonising patients at Siriraj hospital, Bangkok, Thailand from 2015 to 2017.

BMC infectious diseases. 2021-02-04; 21.1: 142.

PMID: 33541274

Hujer AM, Hujer KM, Leonard DA, Powers RA, Wallar BJ, Mack AR, Taracila MA, Rather PN, Higgins PG, Prati F, Caselli E, Marshall SH, Clarke T, Greco C, Venepally P, Brinkac L, Kreiswirth BN, Fouts DE, Bonomo RA, Antibacterial Resistance Leadership Group (ARLG)

A comprehensive and contemporary "snapshot" of β-lactamases in carbapenem resistant Acinetobacter baumannii.

Diagnostic microbiology and infectious disease. 2021-02-01; 99.2: 115242.

PMID: 33248392

Jiang L, Lang S, Duan Y, Zhang X, Gao B, Chopyk J, Schwanemann LK, Ventura-Cots M, Bataller R, Bosques-Padilla F, Verna EC, Abraldes JG, Brown RS, Vargas V, Altamirano J, Caballería J, Shawcross DL, Ho SB, Louvet A, Lucey MR, Mathurin P, Garcia-Tsao G, Kisseleva T, Brenner DA, Tu XM, Stärkel P, Pride D, Fouts DE, Schnabl B

Intestinal Virome in Patients With Alcoholic Hepatitis.

Hepatology (Baltimore, Md.). 2020-12-01; 72.6: 2182-2196.

PMID: 32654263

Maccioni L, Gao B, Leclercq S, Pirlot B, Horsmans Y, De Timary P, Leclercq I, Fouts D, Schnabl B, Stärkel P

Intestinal permeability, microbial translocation, changes in duodenal and fecal microbiota, and their associations with alcoholic liver disease progression in humans.

Gut microbes. 2020-11-09; 12.1: 1782157.

PMID: 32588725

Lang S, Fairfied B, Gao B, Duan Y, Zhang X, Fouts DE, Schnabl B

Changes in the fecal bacterial microbiota associated with disease severity in alcoholic hepatitis patients.

Gut microbes. 2020-11-09; 12.1: 1785251.

PMID: 32684075

Lang S, Demir M, Martin A, Jiang L, Zhang X, Duan Y, Gao B, Wisplinghoff H, Kasper P, Roderburg C, Tacke F, Steffen HM, Goeser T, Abraldes JG, Tu XM, Loomba R, Stärkel P, Pride D, Fouts DE, Schnabl B

Intestinal Virome Signature Associated With Severity of Nonalcoholic Fatty Liver Disease.

Gastroenterology. 2020-11-01; 159.5: 1839-1852.

PMID: 32652145

Chan AP, Choi Y, Clarke TH, Brinkac LM, White RC, Jacobs MR, Bonomo RA, Adams MD, Fouts DE

AbGRI4, a novel antibiotic resistance island in multiply antibiotic-resistant Acinetobacter baumannii clinical isolates.

The Journal of antimicrobial chemotherapy. 2020-10-01; 75.10: 2760-2768.

PMID: 32681170

Wesevich A, Sutton G, Ruffin F, Park LP, Fouts D, Fouts DE, Fowler VG, Thaden JT

Newly Named Klebsiella aerogenes (formerly Enterobacter aerogenes) Is Associated with Poor Clinical Outcomes Relative to Other Enterobacter Species in Patients with Bloodstream Infection.

Journal of clinical microbiology. 2020-08-24; 58.9:

PMID: 32493786

Yasmin M, Fouts DE, Jacobs MR, Haydar H, Marshall SH, White R, D'Souza R, Lodise TP, Rhoads DD, Hujer AM, Rojas LJ, Hoyen C, Perez F, Edwards A, Bonomo RA

Monitoring Ceftazidime-Avibactam and Aztreonam Concentrations in the Treatment of a Bloodstream Infection Caused by a Multidrug-Resistant Enterobacter sp. Carrying Both Klebsiella pneumoniae Carbapenemase-4 and New Delhi Metallo-β-Lactamase-1.

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. 2020-08-14; 71.4: 1095-1098.

PMID: 31802119

Bluemel S, Wang L, Kuelbs C, Moncera K, Torralba M, Singh H, Fouts DE, Schnabl B

Intestinal and hepatic microbiota changes associated with chronic ethanol administration in mice.

Gut microbes. 2020-05-03; 11.3: 265-275.

PMID: 30982395

Jacobs MR, Good CE, Hujer AM, Abdelhamed AM, Rhoads DD, Hujer KM, Rudin SD, Domitrovic TN, Connolly LE, Krause KM, Patel R, Arias CA, Kreiswirth BN, Rojas LJ, D'Souza R, White RC, Brinkac LM, Nguyen K, Singh I, Fouts DE, van Duin D, Bonomo RA, Antibacterial Resistance Leadership Group

ARGONAUT II Study of the In Vitro Activity of Plazomicin against Carbapenemase-Producing Klebsiella pneumoniae.

Antimicrobial agents and chemotherapy. 2020-04-21; 64.5:

PMID: 32152078

Lang S, Duan Y, Liu J, Torralba MG, Kuelbs C, Ventura-Cots M, Abraldes JG, Bosques-Padilla F, Verna EC, Brown RS, Vargas V, Altamirano J, Caballería J, Shawcross D, Lucey MR, Louvet A, Mathurin P, Garcia-Tsao G, Ho SB, Tu XM, Bataller R, Stärkel P, Fouts DE, Schnabl B

Intestinal Fungal Dysbiosis and Systemic Immune Response to Fungi in Patients With Alcoholic Hepatitis.

Hepatology (Baltimore, Md.). 2020-02-01; 71.2: 522-538.

PMID: 31228214

Furuya S, Argemi J, Uehara T, Katou Y, Fouts DE, Schnabl B, Dubuquoy L, Belorkar A, Vadigepalli R, Kono H, Bataller R, Rusyn I

A Novel Mouse Model of Acute-on-Chronic Cholestatic Alcoholic Liver Disease: A Systems Biology Comparison With Human Alcoholic Hepatitis.

Alcoholism, clinical and experimental research. 2020-01-01; 44.1: 87-101.

PMID: 31710124

Duan Y, Llorente C, Lang S, Brandl K, Chu H, Jiang L, White RC, Clarke TH, Nguyen K, Torralba M, Shao Y, Liu J, Hernandez-Morales A, Lessor L, Rahman IR, Miyamoto Y, Ly M, Gao B, Sun W, Kiesel R, Hutmacher F, Lee S, Ventura-Cots M, Bosques-Padilla F, Verna EC, Abraldes JG, Brown RS, Vargas V, Altamirano J, Caballería J, Shawcross DL, Ho SB, Louvet A, Lucey MR, Mathurin P, Garcia-Tsao G, Bataller R, Tu XM, Eckmann L, van der Donk WA, Young R, Lawley TD, Stärkel P, Pride D, Fouts DE, Schnabl B

Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease.

Nature. 2019-11-13; 575.7783: 505-511.

PMID: 31723265

Papp-Wallace KM, Zeiser ET, Becka SA, Park S, Wilson BM, Winkler ML, D'Souza R, Singh I, Sutton G, Fouts DE, Chen L, Kreiswirth BN, Ellis-Grosse EJ, Drusano GL, Perlin DS, Bonomo RA

Ceftazidime-Avibactam in Combination With Fosfomycin: A Novel Therapeutic Strategy Against Multidrug-Resistant Pseudomonas aeruginosa.

The Journal of infectious diseases. 2019-07-19; 220.4: 666-676.

PMID: 31099835

Mojica MF, Rutter JD, Taracila M, Abriata LA, Fouts DE, Papp-Wallace KM, Walsh TJ, LiPuma JJ, Vila AJ, Bonomo RA

Population Structure, Molecular Epidemiology, and β-Lactamase Diversity among Stenotrophomonas maltophilia Isolates in the United States.

mBio. 2019-07-02; 10.4:

PMID: 31266860

Singh I, Kuscuoglu M, Harkins DM, Sutton G, Fouts DE, Nelson KE

OMeta: an ontology-based, data-driven metadata tracking system.

BMC bioinformatics. 2019-01-07; 20.1: 8.

PMID: 30612540

Santos LA, Adhikarla H, Yan X, Wang Z, Fouts DE, Vinetz JM, Alcantara LCJ, Hartskeerl RA, Goris MGA, Picardeau M, Reis MG, Townsend JP, Zhao H, Ko AI, Wunder EA

Genomic Comparison Among Global Isolates of L. interrogans Serovars Copenhageni and Icterohaemorrhagiae Identified Natural Genetic Variation Caused by an Indel.

Frontiers in cellular and infection microbiology. 2018-06-19; 8.193.

PMID: 29971217

Llorente C, Jepsen P, Inamine T, Wang L, Bluemel S, Wang HJ, Loomba R, Bajaj JS, Schubert ML, Sikaroodi M, Gillevet PM, Xu J, Kisseleva T, Ho SB, Depew J, Du X, Sørensen HT, Vilstrup H, Nelson KE, Brenner DA, Fouts DE, Schnabl B

Gastric acid suppression promotes alcoholic liver disease by inducing overgrowth of intestinal Enterococcus.

Nature communications. 2017-10-16; 8.1: 837.

PMID: 29038503

Yang AM, Inamine T, Hochrath K, Chen P, Wang L, Llorente C, Bluemel S, Hartmann P, Xu J, Koyama Y, Kisseleva T, Torralba MG, Moncera K, Beeri K, Chen CS, Freese K, Hellerbrand C, Lee SM, Hoffman HM, Mehal WZ, Garcia-Tsao G, Mutlu EA, Keshavarzian A, Brown GD, Ho SB, Bataller R, Stärkel P, Fouts DE, Schnabl B

Intestinal fungi contribute to development of alcoholic liver disease.

The Journal of clinical investigation. 2017-06-30; 127.7: 2829-2841.

PMID: 28530644

Danaher RJ, Fouts DE, Chan AP, Choi Y, Depew J, McCorrison JM, Nelson KE, Wang C, Miller CS

HSV-1 clinical isolates with unique in vivo and in vitro phenotypes and insight into genomic differences.

Journal of neurovirology. 2017-04-01; 23.2: 171-185.

PMID: 27739035

Fouts DE, Matthias MA, Adhikarla H, Adler B, Amorim-Santos L, Berg DE, Bulach D, Buschiazzo A, Chang YF, Galloway RL, Haake DA, Haft DH, Hartskeerl R, Ko AI, Levett PN, Matsunaga J, Mechaly AE, Monk JM, Nascimento AL, Nelson KE, Palsson B, Peacock SJ, Picardeau M, Ricaldi JN, Thaipandungpanit J, Wunder EA, Yang XF, Zhang JJ, Vinetz JM

What Makes a Bacterial Species Pathogenic?:Comparative Genomic Analysis of the Genus Leptospira.

PLoS neglected tropical diseases. 2016-02-18; 10.2: e0004403.

PMID: 26890609

Wang L, Fouts DE, Stärkel P, Hartmann P, Chen P, Llorente C, Depew J, Moncera K, Ho SB, Brenner DA, Hooper LV, Schnabl B

Intestinal REG3 Lectins Protect against Alcoholic Steatohepatitis by Reducing Mucosa-Associated Microbiota and Preventing Bacterial Translocation.

Cell host & microbe. 2016-02-10; 19.2: 227-39.

PMID: 26867181

Chen P, Torralba M, Tan J, Embree M, Zengler K, Stärkel P, van Pijkeren JP, Depew J, Loomba R, Ho SB, Bajaj JS, Mutlu EA, Keshavarzian A, Tsukamoto H, Nelson KE, Fouts DE, Schnabl B

Supplementation of saturated long-chain fatty acids maintains intestinal eubiosis and reduces ethanol-induced liver injury in mice.

Gastroenterology. 2015-01-01; 148.1: 203-214.e16.

PMID: 25239591

Klumpp J, Fouts DE, Sozhamannan S

Next generation sequencing technologies and the changing landscape of phage genomics.

Bacteriophage. 2012-07-01; 2.3: 190-199.

PMID: 23275870

Fouts DE, Torralba M, Nelson KE, Brenner DA, Schnabl B

Bacterial translocation and changes in the intestinal microbiome in mouse models of liver disease.

Journal of hepatology. 2012-06-01; 56.6: 1283-92.

PMID: 22326468

Fouts DE, Tyler HL, Deboy RT, Daugherty S, Ren Q, Badger JH, Durkin AS, Huot H, Shrivastava S, Kothari S, Dodson RJ, Mohamoud Y, Khouri H, Roesch LF, Krogfelt KA, Struve C, Triplett EW, Methé BA

Complete genome sequence of the N2-fixing broad host range endophyte Klebsiella pneumoniae 342 and virulence predictions verified in mice.

PLoS genetics. 2008-07-25; 4.7: e1000141.

PMID: 18654632

Rasko DA, Rosovitz MJ, Økstad OA, Fouts DE, Jiang L, Cer RZ, Kolstø AB, Gill SR, Ravel J

Complete sequence analysis of novel plasmids from emetic and periodontal Bacillus cereus isolates reveals a common evolutionary history among the B. cereus-group plasmids, including Bacillus anthracis pXO1.

Journal of bacteriology. 2007-01-01; 189.1: 52-64.

PMID: 17041058

Fouts DE

Phage_Finder: automated identification and classification of prophage regions in complete bacterial genome sequences.

Nucleic acids research. 2006-10-24; 34.20: 5839-51.

PMID: 17062630

Fouts DE, Rasko DA, Cer RZ, Jiang L, Fedorova NB, Shvartsbeyn A, Vamathevan JJ, Tallon L, Althoff R, Arbogast TS, Fadrosh DW, Read TD, Gill SR

Sequencing Bacillus anthracis typing phages gamma and cherry reveals a common ancestry.

Journal of bacteriology. 2006-05-01; 188.9: 3402-8.

PMID: 16621835

Gill SR, Fouts DE, Archer GL, Mongodin EF, Deboy RT, Ravel J, Paulsen IT, Kolonay JF, Brinkac L, Beanan M, Dodson RJ, Daugherty SC, Madupu R, Angiuoli SV, Durkin AS, Haft DH, Vamathevan J, Khouri H, Utterback T, Lee C, Dimitrov G, Jiang L, Qin H, Weidman J, Tran K, Kang K, Hance IR, Nelson KE, Fraser CM

Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain.

Journal of bacteriology. 2005-04-01; 187.7: 2426-38.

PMID: 15774886

Fouts DE, Mongodin EF, Mandrell RE, Miller WG, Rasko DA, Ravel J, Brinkac LM, Deboy RT, Parker CT, Daugherty SC, Dodson RJ, Durkin AS, Madupu R, Sullivan SA, Shetty JU, Ayodeji MA, Shvartsbeyn A, Schatz MC, Badger JH, Fraser CM, Nelson KE

Major structural differences and novel potential virulence mechanisms from the genomes of multiple campylobacter species.

PLoS biology. 2005-01-01; 3.1: e15.

PMID: 15660156

Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, Smith HO

Environmental genome shotgun sequencing of the Sargasso Sea.

Science (New York, N.Y.). 2004-04-02; 304.5667: 66-74.

PMID: 15001713

Nelson KE, Fleischmann RD, Deboy RT, Paulsen IT, Fouts DE, Eisen JA, Daugherty SC, Dodson RJ, Durkin AS, Gwinn M, Haft DH, Kolonay JF, Nelson WC, Mason T, Tallon L, Gray J, Granger D, Tettelin H, Dong H, Galvin JL, Duncan MJ, Dewhirst FE, Fraser CM

Complete genome sequence of the oral pathogenic Bacterium porphyromonas gingivalis strain W83.

Journal of bacteriology. 2003-09-01; 185.18: 5591-601.

PMID: 12949112

Fouts DE, Badel JL, Ramos AR, Rapp RA, Collmer A

A pseudomonas syringae pv. tomato DC3000 Hrp (Type III secretion) deletion mutant expressing the Hrp system of bean pathogen P. syringae pv. syringae 61 retains normal host specificity for tomato.

Molecular plant-microbe interactions : MPMI. 2003-01-01; 16.1: 43-52.

PMID: 12580281

Fouts DE, Abramovitch RB, Alfano JR, Baldo AM, Buell CR, Cartinhour S, Chatterjee AK, D'Ascenzo M, Gwinn ML, Lazarowitz SG, Lin NC, Martin GB, Rehm AH, Schneider DJ, van Dijk K, Tang X, Collmer A

Genomewide identification of Pseudomonas syringae pv. tomato DC3000 promoters controlled by the HrpL alternative sigma factor.

Proceedings of the National Academy of Sciences of the United States of America. 2002-02-19; 99.4: 2275-80.

PMID: 11854524

Fouts DE, Celander DW

Translationally repressive RNA structures monitored in vivo using temperate DNA bacteriophages.

Gene. 1998-03-27; 210.1: 135-42.

PMID: 9524249

Fouts DE, True HL, Celander DW

Functional recognition of fragmented operator sites by R17/MS2 coat protein, a translational repressor.

Nucleic acids research. 1997-11-15; 25.22: 4464-73.

PMID: 9358153

Fouts DE, True HL, Cengel KA, Celander DW

Site-specific phosphorylation of the human immunodeficiency virus type-1 Rev protein accelerates formation of an efficient RNA-binding conformation.

Biochemistry. 1997-10-28; 36.43: 13256-62.

PMID: 9341215

Fouts DE, Celander DW

Improved method for selecting RNA-binding activities in vivo.

Nucleic acids research. 1996-04-15; 24.8: 1582-4.

PMID: 8628698

Multidrug-Resistant Klebsiella pneumoniae from Pediatric Sepsis Patients in Nigeria

LOCUST

A custom sequence locus typer for classifying microbial genotypic and phenotypic attributes.

PanOCT

PanOCT is a program written in PERL for pan-genomic analysis of closely related prokaryotic species or strains.

Phage_Finder

Phage_Finder is a heuristic computer program written in PERL to identify prophage regions within bacterial genomes.

Genomics of Non-Tuberculosis Mycobacteria

GGRaSP

An R-package for selecting representative genomes using Gaussian mixture models.

PanACEA

PanACEA is a tool for Pan-Genome visualization, which utilizes locally-computed interactive web-pages to view ordered pan-genome data.

CRACKLE: Carbapenems in Klebsiella pneumoniae and Other Enterobacteriaceae

Designer Phage

Synthetic Engineering of Bacteriophage for Treatment of Wound Infections

Video

Chronic Wound Microbiome

Bacterial Translocation and Changes in the Intestinal Microbiome in Mouse Models of Liver Disease

Genomic Analysis of Multidrug Resistance in Esbl-Positive and Carbapenem-Resistant Bacterial Pathogens

Influence of Genetic Variation and AMR in Enterobacter and E. coli Bloodstream Infections (BSI)

Genomics of Acinetobacter baumannii

Viral Synthetic Genomics to Engineer Large dsDNA Viruses

Rapid engineering of large dsDNA viruses using synthetic genomics assembly tools.

Genomics, Biomarkers and Mechanisms of Healing in Chronic Wounds

Utilize genomics approaches to identify the microbial composition and functional elements in non-healing and chronic wounds.

Antimicrobial Resistance from Combat Wounds

Asymptomatic Bacteriuria: Microbiome and Metaproteome

We use genomics approaches to detect the presence of bacteria with known inflammatory responses in asymptomatic patients.

Leptospira Genomics and Human Health

Signature Infiltration and Maintenance on Plasmid Elements creating a Forensic Microbial System (SIMPLE-FMS)

Genome Sequencing of Atypical Disease-associated and Emerging Infectious Disease Isolates of C. Jejuni, and Related Species

Blog

Venter Institute Researchers Tackle the Growing Concern of Antibiotic Resistant Bacterial Infections with Genomic, Phage Approaches

13-Nov-2019

Press Release

J. Craig Venter Institute and UC San Diego Develop Phage Treatment as Potential Cure for Alcoholic Liver Disease

Team targeted specific toxin-producing strains of the bacterium, Enterococcus faecalis, which is shown to be responsible for most liver damage

09-Jul-2019

Collaborator Release

Combining Antibiotics, Researchers Deliver One-Two Punch against Ubiquitous Bacterium

CWRU/Cleveland VA findings in mouse models could make inroads against superbugs

08-May-2019

The San Diego Union-Tribune