• Sanjay K Shukla PhD

  • Director - Precision Medicine Research


    • MCRI - MCRI-Precision Med Research
    • 1000 North Oak Ave. 1R3 Marshfield, WI 54449

Education

1996:
PhD, Microbiology/Molecular Microbiology, University of Oklahoma, Norman
1989:
MS, Microbiology, North Dakota State University, Fargo
1984:
MS, Mycology and Plant Pathology, University of Calcutta, Calcutta, India
1982:
BS, Biology, (Honors), University of Calcutta, Calcutta, India

Work Experience

2019 to Present:
Director, Center for Precision Medicine Research, Marshfield Clinic Research Institute, Marshfield
2019 to Present:
James Weber Endowed Chair, Marshfield Clinic Research Institute
2016 to Present:
Senior Research Scientist, Marshfield Clinic Research Institute, Marshfield
2015 to Present:
Member, Board of Governors of ICTR , Institute for Clinical and Translational Research
2014 to Present:
Computation and Informatics in Biology and Medicine Faculty, University of Wisconsin, Madison
2000 to Present:
Editorial Board Member, Journal of Clinical Microbiology, ASM
2020 to 2020:
Phage Biology and Bacteriophage Therapy (IDMX-50), NIH Study Section Member
2007 to 2019:
Associate Editor, Clinical Medicine & Research
2001 to 2016:
Research Scientist, Marshfield Clinic Research Foundation, Marshfield
2008 to 2011:
NIH Study Section, Infectious Disease, Reproductive Health, Asthma and Pulmonary Conditions, Permanent Member
2009 to 2009:
Nursing Science: Adults and Older Adults (NSAA), NIH Study Section Member
2007 to 2008:
President, North Central Branch American Society for Microbiology
1999 to 2003:
Co-Director, Core Laboratory, Marshfield Clinic Research Foundation, Marshfield
1999 to 2001:
Associate Scientist, Marshfield Clinic Research Foundation, Marshfield

Statement

I am a molecular microbiologist with a research focus on understanding genetic mechanisms of infectious and chronic diseases in which an infectious agent or microbiota may play a role.

Research Interests

Biomarkers of infectious and complex diseases
Dr. Sanjay Shukla’s research focus is broad and includes, but is not limited to, discovering host immune biomarkers, understanding precise host-pathogen interactions, targeted antimicrobial combinatorial therapy for Staphylococcus aureus bacteremia, and biomarker discovery for chronic diseases such as fatigue, multiple sclerosis, and type 2 diabetes through gut microbiomics, viromics, and metabolomics approaches. In addition, he is investigating occupational exposure and health risk related to the microbiome and resistome in dairy farm workers. Dr. Shukla is also working with colleagues to promote the implementation of cancer genomics and pharmacogenetics testing towards improved patient care.

Professional Societies

1989 to 1989:
North Dakota Academy of Sciences
1995 to 1996:
Missouri Valley Branch of American Society for Microbiology
1998 to 1999:
Wildlife Disease Association
1999 to 2001:
New York Academy of Sciences
1999 to 2001:
Secretary, North Central Branch of American Society for Microbiology
2000 to 2002:
Alternate Councilor, North Central Branch of American Society for Microbiology
2004 to 2006:
Councilor, North Central Branch of American Society for Microbiology
1993 to Present:
American Association for the Advancement of Science
1995 to Present:
American Society for Microbiology
1999 to Present:
North Central Branch of the American Society for Microbiology
1999 to Present:
Wisconsin Laboratory Response Network (CDC Program)
2000 to Present:
Main Planner and Host of 60th North Central Branch ASM Meeting, Marshfield, WI
2010 to Present:
American Society of Human Genetics

Committees

1999 to 2000:
Institutional Review Board, Member
2000 to 2001:
Secretary, North Central Branch of American Society for Microbiology,
2000 to 2001:
Vice Chairman, Institutional Biosafety Committee, Member
2000 to 2001:
Web-Page Development Committee, Member
2000 to 2001:
MCRF Science Chat, Member
2001 to 2002:
Chairman, Institutional Biosafety Committee, Member
2001 to 2002:
Genetics Subcommittee, Institutional Review Board,
1999 to 2003:
Wisconsin Laboratory Response Network (as part of CDC), Member
2001 to 2003:
Marshfield Clinic Bioterrorism Work Group,
2002 to 2003:
Alternate Councilor, North Central Branch of American Society for Microbiology,
2000 to 2005:
Journal of Clinical Microbiology, Member
2001 to 2005:
Institutional Biosafety Committee,
2007 to 2008:
President, North Central Branch American Society for Microbiology,
2005 to 2018:
MCRI Research Committee,
2000 to Present:
MCRI Scientific Seminar, Member
2000 to Present:
MCRI Infectious Disease Journal Club,
2004 to Present:
Councilor, North Central Branch ASM,
2012 to Present:
Editorial Board, Journal of Clinical Micriobiology,
2015 to Present:
Board of Governors, ICTR
2017 to Present:
PMRC Oversight Committee, UW Madison

Select Publications

  • Wang Y, Mukherjee I, Venkatasubramaniam A, Dikeman D, Orlando N, Zhang J,...Archer NK [including Le T, Shukla S.] Dry and liquid formulations of IBT-V02, a novel multi-component toxoid vaccine, are effective against Staphylococcus aureus isolates from low-to-middle income countries. [published online ahead of print 2024 April 3]. Frontiers in Immunology. 15. doi: 10.3389/fimmu.2024.1373367. PMCID: PMC11022162.
    PubMed ID: 38633244
  • Mahmud B, Vargas RC, Sukhum KV, Patel S, Liao J, Hall LR,...Dantas G [including Le T, Kitchner T, Kronholm E, Koshalek K, Bendixsen CG, VanWormer JJ, Shukla SK.] Longitudinal dynamics of farmer and livestock nasal and faecal microbiomes and resistomes. Nat Microbiol. 2024 April;9(4):1007-1020. doi: 10.1038/s41564-024-01639-4.
    PubMed ID: 38570675
  • Yerukala Sathipati S, Tsai MJ, Aimalla N, Moat L, Shukla SK, Allaire P,...Ho SY [including Hebbring S, Sharma R.] An evolutionary learning-based method for identifying a circulating miRNA signature for breast cancer diagnosis prediction. NAR Genom Bioinform. 2024 March;6(1):lqae022. doi: 10.1093/nargab/lqae022. PMCID: PMC10894035.
    PubMed ID: 38406797
  • Allaire P, Elsayed NS, Berg RL, Rose W, Shukla SK. Phenome-wide association study identifies new clinical phenotypes associated with Staphylococcus aureus infections. PLoS One. 2024 July 5;19(7):e0303395. doi: 10.1371/journal.pone.0303395. PMCID: PMC11226111.
    PubMed ID: 38968223
  • Yerukala Sathipati, S, Carter, T, Soodi, D, Somto, N, Shukla, SK, Petronovich, J,...Sharma, P [including Glurich, I.] MicroRNA signature predicts post-operative atrial fibrillation after coronary artery bypass grafting. [published online ahead of print 2024 June 22]. MedRxIV. doi: 10.1101/2024.06.21.24309328.
  • Yerukala Sathipati S,, Sharma, PP, Shukla, S, Carter, T, Soodi, D, Nwaedozie, ST,...Glurich, I. CIRCULATING MICRORNA SIGNATURE PREDICTS ATRIAL FIBRILLATION IN PATIENTS FOLLOWING CORONARY ARTERY BYPASS GRAFTING. JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY. 2024 April 2;83(13):33. doi: 10.1016/S0735-1097(24)02023-0.
  • Sharma, PP, Yerukala Sathipati , Shukla, S, Carter, T, Soodi, D. IDENTIFICATION OF A MICRORNA SIGNATURE FOR PREDICTING ATRIAL FIBRILLATION IN PATIENTS WITH VALVULAR HEART DISEASE. JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY. 2024 April 2;83(13):2185. doi: 10.1016/S0735-1097(24)04175-5.
  • Yerukala Sathipati S, Ming-Ju T, Shukla S, Shinn-Ying H. Artificial intelligence-driven pan-cancer analysis reveals miRNA signatures for cancer stage prediction. Human Genetics and Genomics Advances. 2023 July;4(3):100190. doi: 10.1016/j.xhgg.2023.100190. PMCID: PMC10130501.
    PubMed ID: 37124139
  • Uhde M, Indart AC, Green PHR, Yolken RH, Cook DB, Shukla SK,...Alaedini A. Suppressed immune and metabolic responses to intestinal damage-associated microbial translocation in myalgic encephalomyelitis/chronic fatigue syndrome. Brain Behav Immun Health. 2023 July; 30 :100627. doi: PMC10308215. PMCID: PMC10308215.
    PubMed ID: 37396339
  • VanWormer JJ, Bendixsen CG, Shukla SK. Dairy Farm Work and Protection from Gastrointestinal Illness. J Agromedicine. 2023 October 28;1-7. doi: 10.1080/1059924X.2023.2209091. PMCID: PMC10664175.
    PubMed ID: 37128886
  • Elsayed NS, Valenzuela RK, Kitchner T, Le T, Mayer J, Tang ZZ,...Shukla SK [including Aston P.] Genetic risk score in multiple sclerosis is associated with unique gut microbiome. Sci Rep. 2023 September 27; 13(1):16269. doi: 10.1038/s41598-023-43217-4. PMCID: PMC10533555.
    PubMed ID: 37758833
  • Sathipati S, Aimalla N, Tsai MJ, Carter T, Jeong S, Wen Z,...Ho SY [including Shukla SK.] Prognostic microRNA signature for estimating survival in patients with hepatocellular carcinoma. CARCINOGENESIS. 2023 December 2;44(8-9):650-661. doi: 10.1093/carcin/bgad062.
    PubMed ID: 37701974
  • Srinivasulu Yerukala Sathipati, Ming-Ju Tsai, Shukla, Sanjay K, Shinn-Ying Ho, Yi Liu, Afshin Behesthi. MicroRNA signature for estimating the survival time in patients with bladder urothelial carcinoma. Scientific Reports. 2022 March 9;12(4141).
  • Pulia MS, Anderson J, Ye Z, Elsayed NS, Le T, Patitucci J,...Shukla SK [including Ganta K, Hall M.] Expression of Staphylococcal Virulence Genes In Situ in Human Skin and Soft Tissue Infections. Antibiotics (Basel). 2022 April 14;11(4):527. doi: https://doi.org/10.3390/antibiotics11040527. PMCID: PMC9032627.
    PubMed ID: 35453277
  • Yerukala Sathipati S, Tsai MJ, Shukla SK, Ho SY, Liu Y, Beheshti A. Author Correction: MicroRNA signature for estimating the survival time in patients with bladder urothelial carcinoma. Sci Rep. 2022 March 23;12(1):4990. doi: 10.1038/s41598-022-09235-4. PMCID: PMC8943119.
    PubMed ID: 35322184
  • Noah D Budi, Jared J Godfrey, Nasia Safdar, Sanjay K Shukla, Warren E Rose. Efficacy of Omadacycline or Vancomycin Combined with Germinants for Preventing <i>Clostridioides difficile</i> Relapse in a Murine Model. [published online ahead of print 2022 July 29]. The Journal of Infectious Diseases. doi: https://doi.org/10.1093/infdis/jiac324.
  • Yerukala Sathipati S, Tsai MJ, Carter T, Allaire P, Shukla SK, Beheshti A, Ho SY. Survival estimation in patients with stomach and esophageal carcinoma using miRNA expression profiles. Computational and Structural Biotechnology Journal. 2022 August 20;20(2022):4490-4500. doi: https://doi.org/10.1016/j.csbj.2022.08.025. PMCID: PMC9421182.
    PubMed ID: 36051876
  • Yerukala Sathipati S, Tsai MJ, Carter TC, Sanjay SK, Ho SY. SPIKES: Identification of physicochemical properties of spike proteins across diverse host species of SARS-CoV-2. STAR Protocols. 2022 September;3(3):101460. doi: 10.1016/j.xpro.2022.101460. PMCID: PMC9127179.
    PubMed ID: 35726315
  • Yerukala Sathipati S, Shukla SK, Ho SY. Tracking the amino acid changes of spike proteins across diverse host species of severe acute respiratory syndrome coronavirus 2. iScience. 2022 January 21;25(1):103560. doi: 10.1016/j.isci.2021.103560. PMCID: PMC8638202.
    PubMed ID: 34877480
  • Elsayed NS, Aston P, Bayanagari VR, Shukla SK. The gut microbiome molecular mimicry piece in the multiple sclerosis puzzle. Frontiers in Immunology. 2022 August 15;13. doi: https://doi.org/10.3389/fimmu.2022.972160. PMCID: PMC9420973.
    PubMed ID: 36045671
  • Budi, N, Godfrey JJ, Shukla, Sanjay, Rose, WE. Omadacycline Compared to Vancomycin When Combined with Germinants To Disrupt the Life Cycle of Clostridioides difficile. [published online ahead of print 2021 April 19]. Antimicrob Agents Chemo. April 2021(65):5. doi: 10.1128/AAC.01431-20.
  • Sukhum, KV, Vargas, Rhiannon, Boolchandani, Manish, D'Souza, Alaric W, Patel, Sanket, Kesaraju, Akhil,...Shukla, Sanjay K [including Ye, Zahn, Valenzuela, Robert K, Gunderson, Paul, Bendixsen, Casper.] Manure Microbial Communities and Resistance Profiles Reconfigure after Transition to Manure Pits and Differ from those in Fertilzed Field Soil. American Society of Microbiology, Washington, D.C.. 2021 May 11; June, 2021(12(3)):1-17.
  • Overmyer KA, Rhoads TW, Merrill AE, Ye Z, Westphall MS, Acharya A,...Coon JJ [including Shukla SK.] Proteomics, Lipidomics, Metabolomics, and 16S DNA Sequencing of Dental Plaque From Patients With Diabetes and Periodontal Disease. [published online ahead of print 2021 July 29]. Mol Cell Proteomics. 2021,Jul 29(20):100126. doi: 10.1016/j.mcpro.2021.100126.
    PubMed ID: 34332123
  • Shukla SK. In Memoriam: Vijay H. Aswani, MD, PhD (1962-2021): A Doctor, a Humanitarian, and a Phage Researcher. Clin Med Res. 2021 September 19; 19(3):107-109. doi: 10.3121/cmr.2021.1706. PMCID: PMC8445661.
    PubMed ID: 34531267
  • Shukla, Sanjay, Nayak, A, Sharma, R.K., Shukla, P.C., Singh, R.V.. Bacteriophages: A Potential New Therapeutic Alternate to Antibiotics to Treat Chronic Septic Wounds in Large Animals. Indian Journal of Animal Research. 2021 November 1; B-4317 :1-4.
  • Sukhum KV, Vargas RC, Boolchandani M, D'Souza AW, Patel S, Kesaraju A,...Shukla SK [including Valenzuela RK, Bendixsen C.] Manure Microbial Communities and Resistance Profiles Reconfigure after Transition to Manure Pits and Differ from Those in Fertilized Field Soil. mBio. 2021 May 11; 12(3):e00798-21. doi: 10.1128/mBio.00798-21. PMCID: PMC8262906.
    PubMed ID: 33975936
  • Shukla SK, Carter TC, Ye Z, Pantrangi M, Rose WE. Modeling of Effective Antimicrobials to Reduce Staphylococcus aureus Virulence Gene Expression Using a Two-Compartment Hollow Fiber Infection Model. Toxins (Basel). 2020 January 22; 2020 Jan 22(12(2)):69. doi: 10.3390/toxins12020069. PMCID: PMC7076779 .
    PubMed ID: 31979087
  • Carter T, Ye Z, Ivacic L, Budi N, Rose W, Shukla SK. Association of Variants in Selected Genes Mediating Host Immune Response With Duration of Staphylococcus Aureus Bacteremia. Genes Immun. 2020 August 21;2020 Aug(21(4)):240-248. doi: 10.1038/s41435-020-0101-0. PMCID: PMC7449870.
    PubMed ID: 32507857
  • Jenson RE, Baines SL, Howden BP, Mishra NN, Farah S, Lew C,...Rose WE [including Shukla SK.] Prolonged exposure to ß-lactam antibiotics reestablishes susceptibility of daptomycin-nonsusceptible Staphylococcus aureus to daptomycin. Antimicrob Agents Chemother. 2020 August 20; 2020 Aug 20(64(9)):e00890-20. doi: 10.1128/AAC.00890-20. PMCID: PMC7449200 .
    PubMed ID: 32601160
  • Miller LS, Fowler VG, Shukla SK, Rose WE, Proctor RA. Development of a vaccine against Staphylococcus aureus invasive infections: Evidence based on human immunity, genetics and bacterial evasion mech. FEMS Microbiol. Rev.. 2020 January; 2020 Jan(44(1)):123-153. doi: 10.1093/femsre/fuz030. PMCID: PMC7053580.
    PubMed ID: 31841134
  • Aswani V, Najar F, Pantrangi M, Mau B, Schwan WR, Shukla SK. Virulence factor landscape of a Staphylococcus aureus sequence type 45 strain, MCRF184. BMC GENOMICS. 2019 February 8; 20(1):123.
    PubMed ID: 30736742
  • Miller LS, Fowler VG, Shukla SK, Rose WE, Proctor RA. Development of a vaccine against Staphylococcus aureus invasive infections: Evidence-based on human immunity, genetics, and bacterial evasion mechanisms. [published online ahead of print 2019 December 16]. FEMS Microbiol. Rev..
    PubMed ID: 31841134
  • Rose WE, Shukla SK, Berti AD, Hayney MS, Henriquez KM, Ranzoni A,...Sakoulas G. (2017 May 15). Increased Endovascular Staphylococcus aureus Inoculum Is the Link Between Elevated Serum Interleukin 10 Concentrations and Mortality in Patients With Bacteremia. Clin Infect Dis. 64(10):1406-1412.
    PubMed ID: 28205673
  • Shukla SK, Ye Z, Sandberg S, Reyes I, Fritsche TR, Keifer M. (2017). The nasal microbiota of dairy farmers is more complex than oral microbiota, reflects occupational exposure, and provides competition for staphylococci. PLoS One. 12(8):e0183898.
    PubMed ID: 28850578
  • Singh VK, Ring RP, Aswani V, Stemper ME, Kislow J, Ye Z, Shukla SK. (2017 December). Phylogenetic distribution and expression of a penicillin-binding protein homologue, Ear and its significance in virulence of Staphylococcus aureus. J Med Microbiol.
    PubMed ID: 29099691
  • Schotthoefer AM, Schrodi SJ, Meece JK, Fritsche TR, Shukla SK. (2017). Pro-inflammatory immune responses are associated with clinical signs and symptoms of human anaplasmosis. PLoS One. 12(6):e0179655.
    PubMed ID: 28628633
  • Lindheimer JB, Meyer JD, Stegner AJ, Dougherty RJ, Van Riper S, Shields M,...Cook DB [including Shukla SK.] (2017 April 3). Symptom variability following acute exercise in myalgic encephalomyelitis/chronic fatigue syndrome: a perspective on measuring post-exertion malaise. Fatigue: Biomedicine, Health & Behavior. 5(2):69-88.
  • Agger WA, Schauberger CW, Burmester JK, Shukla SK. (2016 August 26). Developing Research Priorities for Prediction and Prevention of Preterm Birth. Clin Med Res.
    PubMed ID: 27565514
  • Aswani V, Mau B, Shukla SK. (2016 May 12). Complete Genome Sequence of Staphylococcus aureus MCRF184, a Necrotizing Fasciitis-Causing Methicillin-Sensitive Sequence Type 45 Staphylococcus Strain. Genome Announc.. 4(3)
    PubMed ID: 27174283
  • Jackson KL, Mbagwu M, Pacheco JA, Baldridge AS, Viox DJ, Linneman JG,...Kho AN [including Shukla SK, Peissig PL.] (2016 November 17). Performance of an electronic health record-based phenotype algorithm to identify community associated methicillin-resistant Staphylococcus aureus cases and controls for genetic association studies. BMC Infect Dis. 16(1):684.
    PubMed ID: 27855652
  • Shukla SK, Murali NS, Brilliant MH. Personalized medicine going precise: from genomics to microbiomics. Trends Mol Med.. 2015 August 1; 2015 Aug(21(8)):461-2. doi: 10.1016/j.molmed.2015.06.002 . PMCID: PMC4530069 .
    PubMed ID: 26129865
  • Shukla SK, Rose W, Schrodi SJ. Complex host genetic susceptibility to Staphylococcus aureus infections. Trends Microbiol.. 2015 June; 2015 Sept(23(9)):pii: S0966-842X(15)00128-6. doi: 10.1016/j.tim.2015.05.008 .
    PubMed ID: 26112911
  • Singh VK, Vaish M, Johansson TR, Baum KR, Ring RP, Singh S,...Moskovitz J [including Shukla SK.] (2015 February). Significance of Four Methionine Sulfoxide Reductases in Staphylococcus aureus. PLoS One. 10(2):e0117594.
    PubMed ID: 25680075
  • Pantrangi M, Singh VK, Shukla SK. (2015 March). Regulation of Staphylococcal Superantigen-Like Gene, ssl8, Expression in Staphylococcus aureus strain, RN6390. Clinical Medicine & Research. 13(1):7-11.
    PubMed ID: 24899694
  • Glurich I, Acharya A, Brilliant MH, Shukla SK. Progress in oral personalized medicine: contribution of 'omics'. J Oral Microbiol. 2015 September 4; 7 :28223.
    PubMed ID: 26344171
  • Shukla SK, Cook D, Meyer J, Vernon SD, Le T, Clevidence D,...Frank DN [including Schrodi SJ.] (2015). Changes in Gut and Plasma Microbiome following Exercise Challenge in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS). PLoS One. 10(12):e0145453.
    PubMed ID: 26683192
  • Aswani V, Tremblay DM, Moineau S, Shukla SK. (2014 August). Complete Genome Sequence of a Staphylococcus epidermidis Bacteriophage Isolated from the Anterior Nares of Humans. Genome Announc.. 2(4):pii: e00549-14.
    PubMed ID: 25103751
  • Dart RA, Onitilo AA, Salzman SA, Reed KD, Shukla SK. (2014 September). Ten years of Clinical Medicine & Research. Clin Med Res. 12(1-2):1.
  • Ye Z, Vasco DA, Carter TC, Brilliant MH, Schrodi SJ, Shukla SK. (2014 May). Genome wide association study of SNP-, gene-, and pathway-based approaches to identify genes influencing susceptibility to Staphylococcus aureus infections. Front Genet. 5 :125.
    PubMed ID: 24847357
  • Agger WA, Siddiqui D, Lovrich SD, Callister SM, Borgert AJ, Merkitch KW,...Bailey HH [including Shukla SK.] (2014 November). Epidemiologic factors and urogenital infections associated with preterm birth in a midwestern U.S. population. Obstet Gynecol. 124(5):969-77.
    PubMed ID: 25437726
  • Meyer JD, Light AR, Shukla SK, Clevidence D, Yale SH, Stegner AJ, Cook DB. (2013). Post-exertion malaise in chronic fatigue syndrome: symptoms and gene expression Fatigue: Biomedicine, Health & Behavior. 1(4):190-209.
  • Glurich IE, Acharya A, Shukla SK, Nycz G, Brilliant MH. The oral-systemic personalized medicine model at Marshfield Clinic. ORAL DISEASES. 2013 January; 19(1):1-17. doi: 10.1111/j.1601-0825.2012.01921.x. PMCID: PMC3389173.
    PubMed ID: 22458294
  • Shukla SK, Pantrangi M, Stahl B, Briska AM, Stemper ME, Wagner TK,...Dykes CW. (2012 November). Comparative whole genome mapping to determine staphylococcus aureus genome size, virulence motifs and clonality. JOURNAL OF CLINICAL MICROBIOLOGY. 50(11):3526-33.
    PubMed ID: 22915603
  • Rose WE, Schulz LT, Andes D, Striker R, Berti AD, Hutson PR, Shukla SK. (2012 October). Addition of ceftaroline to daptomycin after emergence of daptomycin-nonsusceptible Staphylococcus aureus during therapy improves antibacterial activity. Antimicrob Agents Chemother. 56(10):5296-302.
    PubMed ID: 22869564
  • Rose WE, Eickhoff JC, Shukla SK, Pantrangi M, Rooijakkers S, Cosgrove SE,...Sakoulas G. (2012 November 15). Elevated serum interleukin-10 at time of hospital admission is predictive of mortality in patients with Staphylococcus aureus bacteremia. J Infect Dis. 206(10):1604-11.
    PubMed ID: 22966128
  • Pichereau S, Pantrangi M, Couet W, Badiou C, Lina G, Shukla SK, Rose WE. (2012 January). Simulated antibiotic exposures in an in vitro hollow-fiber infection model influence toxin gene expression and production in community-associated methicillin-resistant Staphylococcus aureus strain MW2. Antimicrob Agents Chemother. 56(1):140-7.
    PubMed ID: 22064533
  • Pichereau S, Moran JJ, Hayney MS, Shukla SK, Sakoulas G, Rose WE. (2012 January). Concentration-dependent effects of antimicrobials on Staphylococcus aureus toxin-mediated cytokine production from peripheral blood mononuclear cells. J Antimicrob Chemother. 67(1):123-9.
    PubMed ID: 21980070
  • Aswani V, Shukla SK. (2011 April). Two unusual pediatric cases of fungal infections in farming families. J Agromedicine. 16(2):153-7.
  • Aswani V, Tremblay DM, Moineau S, Shukla SK. (2011 November). Staphylococcus epidermidis bacteriophages from the anterior nares of humans. Appl Environ Microbiol. 77(21):7853-5.
    PubMed ID: 21926216
  • Talsness SR, Shukla SK, Mazza JJ, Yale SH. (2011 April). Rhabdomyolysis-induced acute kidney injury secondary to Anaplasma phagocytophilum and concomitant statin use. WMJ. 110(2):82-4.
    PubMed ID: 21560563
  • Aswani V, Shukla SK. (2011 June). Prevalence of Staphylococcus aureus and lack of its lytic bacteriophages in the anterior nares of patients and healthcare workers at a rural clinic. Clinical Medicine & Research. 9(2):75-81.
    PubMed ID: 20974887
  • Lin Y, Barker E, Kislow JL, Kaldhone PR, Stemper ME, Moore FM,...Shukla SK [including Hall MC, Fritsche TR, Novicki TJ.] (2011 March). Evidence of Multiple Virulence Subtypes in Nosocomial and Community-Associated MRSA Genotypes in Companion Animals from the Upper Midwestern and Northeastern United States. Clinical Medicine & Research. 9(1):7-16.
    PubMed ID: 20739580
  • Gopalakrishnan PP, Shukla SK, Tak T. (2010 July). Antibiotic prophylaxis and anaphylaxis Clinical Medicine & Research. 8(2):80-1.
    PubMed ID: 20660929
  • Trost E, Gotker S, Schneider J, Schneiker-Bekel S, Szczepanowski R, Tilker A,...Tauch A [including Shukla SK.] (2010 February). Complete genome sequence and lifestyle of black-pigmented Corynebacterium aurimucosum ATCC 700975 (formerly C. nigricans CN-1) isolated from a vaginal swab of a woman with spontaneous abortion BMC GENOMICS. (11):91.
    PubMed ID: 20137072
  • Pantrangi M, Singh VK, Wolz C, Shukla SK. (2010 July). Staphylococcal superantigen-like genes, ssl5 and ssl8 are positively regulated by Sae and negatively by Agr in Newman strain. FEMS MICROBIOLOGY LETTERS. 308(2):175-84.
    PubMed ID: 20528938
  • Shukla SK, Karow ME, Brady JM, Stemper ME, Kislow JL, Moore N,...Schwan WR [including Wroblewski K, Chyou P.] (2010 October). Virulence genes and genotypic associations in nasal carriage, community-associated methicillin-susceptible and methicillin-resistant and susceptible Staphylococcus aureus. JOURNAL OF CLINICAL MICROBIOLOGY. 48(10):3582-92.
    PubMed ID: 20668125
  • Nubel U, Dordel J, Kurt K, Strommenger B, Westh H, Shukla SK,...Witte W. (2010 April). A timescale for evolution, population expansion, and spatial spread of an emerging clone of methicillin-resistant Staphylococcus aureus PLoS Pathogens. 6(4):e1000855.
    PubMed ID: 20386717
  • Shukla SK, Kislow JL, Briska A, Henkhaus J, Dykes C. (2009 September). Optical mapping reveals a large genetic inversion between two methicillin-resistant Staphylococcus aureus strains. J Bacteriol. 191(18):5717-23.
    PubMed ID: 19542272
  • Gopalakrishnan PP, Shukla SK, Tak T. (2009 September). Infective endocarditis: rationale for revised guidelines for antibiotic prophylaxis. Clinical Medicine & Research. 7(3):63-8.
    PubMed ID: 19608722
  • Brady JM, Stemper ME, Weigel A, Chyou P, Reed KD, Shukla SK. (2007 August). Sporadic 'Transitional-like' Community-Associated Methicillin-Resistant Staphylococcus aureus strains from the United States. J Clin Microbiol. 45(8):2654-2661.
    PubMed ID: 17567793
  • Morgan W, Caldwell MD, Brady JM, Stemper ME, Reed KD, Shukla SK. (2007 February). Necrotizing fasciitis due to a methicillin-sensitive Staphylococcus aureus harboring an enterotoxin gene cluster. J Clin Microbiol. 45(2):668-671.
    PubMed ID: 17166962
  • Reed KD, Stemper ME, Shukla SK. (2007 October). Pulsed-field gel electrophoresis of MRSA. Methods Mol Biol. 391 :59-69.
    PubMed ID: 18025669
  • Reed KD, Stemper ME, Shukla SK. (2007 October). MRSA case studies. Methods Mol Biol. 391 :21-28.
    PubMed ID: 18025666
  • Shukla SK, Aswani V, Stockwell PJ, Reed KD. (2007 July). Contribution of polymorphisms in ankA, gltA, and groESL in defining genetic variants of Anaplasma phagocytophilum. J Clin Microbiol. 45(7):2312-2315.
    PubMed ID: 17507511
  • Sifri CD, Park J, Helm GA, Stemper ME, Shukla SK. (2007 November). Fatal brain abscess due to community-associated methicillin-resistant Staphylococcus aureus strain USA300. Clin Infect Dis. 45(9):e113-e117.
    PubMed ID: 17918070
  • Stemper ME, Brady JM, Qutaishat S, Borlaug G, Reed KD, Shukla SK. (2006 September). Shift in Staphylococcus aureus clone linked to an infected tatoo. Emerg Infect Dis. 12(9):1444-1446.
    PubMed ID: 17073100
  • Shukla SK. (2006 September). CA-MRSA triangulation: Virulent strains, susceptible hosts, and contaminated environments. WMJ. 105(6):21-23.
  • Raggio CL, Glurich IE, Rasmussen K, McPherson EW, Pauli RM, Shukla SK, Blank RD. DLL3 as a candidate gene for vertebral malformations. Am J Med Genet A. 2006 October; 140A(22):2447-2453.
    PubMed ID: 17041936
  • Shukla SK. (2006 January). Community-associated methicillin-resistant Staphylococcus aureus: It's time to pay attention. Wis Med J. 105(1):25-27.
    PubMed ID: 16676487
  • Dimitriu PA, Shukla SK, Conradt JM, Marquez C, Ventosa A, Maglia A,...Mormile MR. (2005 November). Nitrincola lacisaponensis gen. Nov., sp. Nov., a novel alkaliphilic bacterium isolated from an alkaline, saline lake. Int J Syst Evol Microbiol. 55(Pt 6):2273-2278.
    PubMed ID: 16280482
  • Poitoutt FM, Shinozaki JK, Stockwell PJ, Holland CJ, Shukla SK. (2005 February). Genetic variants of <em>Anapasma phagocytophilum</em> infecting dogs in western Washington State. J Clin Microbiol. 43(2):796-801.
    PubMed ID: 15695682
  • Shukla SK. (2005 May). Community-associated methicillin-resistant staphylococcus aureus and its emerging virulence. Clin Med Res. 3(2):57-60.
    PubMed ID: 16012120
  • Raggio CL, Shukla SK, McPherson EW, Pauli RM, Rasmussen K, David DE,...Blank RD [including Glurich IE.] An analysis of PAX1 in the development of vertebral malformations. Clin Genet. 2005 November; 68(5):448-453.
    PubMed ID: 16207213
  • Tak T, Shukla SK. (2004 November). Molecular diagnosis of infective endocarditis -- a helpful addition to Duke critieria. Clin Med Res. 2(4):206-208.
    PubMed ID: 15931359
  • Stemper ME, Shukla SK, Reed KD. (2004 December). Emergence and spread of community-associated methicillin-resistant, <em>Staphylococcus aureus </em> in rural Wisconsin, 1989-1999. J Clin Microbiol. 42(12):5673-5680.
    PubMed ID: 15583298
  • Christensen JE, Reynolds CE, Shukla SK, Reed KD. (2004 February). Rapid molecular diagnosis of <em>lactobacillus</em> bacteremia by terminal restriction fragment length polymorphism analysis of the 16S rRNA gene. Clin Med Res. 2(1):37-45.
    PubMed ID: 15931333
  • Shukla SK, Ramaswamy SV, Conradt JM, Stemper ME, Reich R, Reed KD. (2004 August). Novel polymorphisms in the ec genes and a new <em>mec</em> complex type in methicillin-resistant <em>Staphylococcus aureus</em> isolates obtained in rural Wisconsin. Antimicrob Agents Chemother. 48(8):3080-3085.
    PubMed ID: 15273123
  • Shukla SK, Paustian DL, Stockwell PJ, Morey RE, Jordan JG, Levett PN,...Reed KD. (2004 January). Isolation of a fastidious <em>Bergeyella</em> species associated with cellulitis after a cat bite and a phylogenetic comparison with <em>Bergeyella zoohelcum</em> strains. J Clin Microbiol. 42(1):290-293.
    PubMed ID: 14715767
  • Shukla SK, Stemper ME, Ramaswamy SV, Conradt JM, Reich R, Graviss EA, Reed KD. (2004 August). Molecular characteristics of nosocomial and Native American community-associated methicillin-resistant <em>Staphylococcus aureus</em> clones from rural Wisconsin. J Clin Microbiol. 42(8):3752-3757.
    PubMed ID: 15297526
  • Vernon SD, Shukla SK, Reeves WC. (2003 November). Absence of <em>Mycoplasma</em> species DNA in chronic fatigue syndrome. J Med Microbiol. 52(11):1027-1028.
    PubMed ID: 14532349
  • Shukla SK, Bernard KA, Harney M, Frank DN, Reed KD. (2003 September). <em>Corynebacterium nigricans</em> sp. nov.: proposed name for a black-pigmented <em>Corynebacterium</em> species recovered from the human female urogenital tract. J Clin Microbiol. 41(9):4353-4358.
    PubMed ID: 12958268
  • Shukla SK, Harney M, Jhaveri B, Andrews K, Reed KD. (2003 September). Is a black-pigmented <em>Corynebacterium</em> species an opportunistic pathogen during pregnancy? Literature review and report of 3 new cases. Clin Infect Dis. 37(6):834-837.
    PubMed ID: 12955646
  • Giampietro PF, Blank RD, Raggio CL, Merchant S, Jacobsen FS, Faciszewski T,...Schowalter DB [including Shukla SK, Greenlee AR, Reynolds CE.] (2003 April). Congenital and idiopathic scoliosis: clinical and genetic aspects. Clin Med Res. 1(2):125-136.
    PubMed ID: 15931299
  • Shukla SK, Vandermause MF, Belongia EA, Reed KD, Paskewitz SM, Kazmierczak JJ. (2003 August). Importance of primer specificity for PCR detection of <em>Anaplasma phagocytophila</em> among <em>Ixodes scapularis</em> ticks from Wisconsin. J Clin Microbiol. 41(8):4006.
    PubMed ID: 12904445
  • Reed KD, Meece JK, Henkel JS, Shukla SK. (2003 January). Birds, migration and emerging zoonoses: West Nile virus, Lyme disease, influenza A, and enteropathogens. Clin Med Res. 1(1):5-12.
    PubMed ID: 15931279
  • Tak T, Dhawan S, Reynolds CE, Shukla SK. (2003 December). Current diagnosis and treatment of infective endocarditis. Expert Rev Anti-infect Ther. 1(4):639-654.
    PubMed ID: 15482161
  • Shukla SK, Meier PR, Mitchell PD, Frank DN, Reed KD. (2002 September). Leptotrichia amnionii sp. nov., a novel bacterium isolated from the amniotic fluid of a woman after intrauterine fetal demise. J Clin Microbiol. 40(9):3346-3349.
    PubMed ID: 12202577
  • Shukla SK, Tak T, Haselby RC, McCauley CS, Reed KD. (2002). Second case of infective endocarditis caused by Gemella sanguinis. WMJ. 101(3):37-39.
    PubMed ID: 12109199
  • Tak T, Reed KD, Haselby RC, McCauley CS, Shukla SK. (2002 July). An update on the epidemiology, pathogenesis and management of infective endocarditis with emphasis on <em>Staphylococcus aureus</em>. WMJ. 101(7):24-33.
    PubMed ID: 12426917
  • Vernon SD, Shukla SK, Conradt JM, Unger ER, Reeves WC. (2002 December). Analysis of 16S rRNA gene sequences and circulating cell-free DNA from plasma of chronic fatigue syndrome and non-fatigued subjects. BMC Microbiol. 2(1):39.
    PubMed ID: 12498618
  • Bucholtz GA, Salzman SA, Bersalona FB, Boyle TR, Ejercito VS, Penno LS,...Burmester JK [including Peterson DW, Stone GE, Urquhart AC, Shukla SK.] (2002 May). PCR analysis of nasal polyps, chronic sinusitis, and hypertrophied turbinates for DNA encoding bacterial 16S rRNA. Am J Rhinol. 16(3):169-173.
    PubMed ID: 12141776
  • Shukla SK, Vevea DN, Frank DN, Pace NR, Reed KD. (2001 March). Isolation and characterization of a black-pigmented Corynebacterium sp. from a woman with spontaneous abortion. J Clin Microbiol. 39(3):1109-1113.
    PubMed ID: 11230435
  • Reed KD, Ruth GR, Meyer JA, Shukla SK. (2000 March). Chlamydia pneumoniae infection in a breeding colony of African clawed frogs (Xenopus tropicalis). Emerg Infect Dis. 6(2):196-199.
    PubMed ID: 10756157
  • Shukla SK, Reed KD. (2000 April). Desulfovibrio desulfuricans bacteremia in a dog. J Clin Microbiol. 38(4):1701-1702.
    PubMed ID: 10747176
  • Shukla SK, McCarthy D. (1994 May). An activity gel assay for the detection of DNA helicases and nucleases from cell-free extracts. Nucleic Acids Res. 22(9):1626-1631.
    PubMed ID: 8202362
  • Roy I, Shukla SK, Mishra AK. (1989). Microbes as indicators of petroleum deposits beneath the surface. Fuel. 68 :311-314.
  • Roy I, Shukla SK, Mishra AK. (1988). n-dodecane as substrate for nitrogen fixation by alkane utilizing Azospirillum sp. Current Microbiology. 16 :303-309.