Rice University
BioSciences at Rice

Natasha Kirienko

Assistant Professor of BioSciences

Kirienko's Research

We use the model organism Caenorhabditis elegans to study the conserved mechanisms (immune and otherwise) that are used by the organism to defend itself against abiotic (i.e., environmental) and biological (i.e., pathogenic) stresses. C. elegans is a small, bacteriovorous nematode. It offers several invaluable traits for the modern biomedical researcher, including its small size (allowing it to be rapidly grown in the lab in high numbers), quick generation time (facilitating work ranging from biochemical to genetic to pathogenesis research), and even its transparency (enabling straight-forward use of fluorescent proteins and bioluminescence, as well as general imaging), and a genetic toolkit that is nearly unrivaled in other model organisms. In addition, C. elegans is often susceptible to infection with many of the same pathogenic bacteria as humans, and infection frequently utilizes the same virulence factors. This, combined with the remarkable conservation of innate immune pathways, makes C. elegans an attractive target for infectious disease models.

Research in my lab currently focuses on two interrelated topics. The first of these goals is to identify novel treatments for bacterial infections that exhibit resistance to antimicrobials. Antimicrobial resistant bacteria cause over 1.5 million nosocomial infections per year, and over 100,000 deaths. As antimicrobial misuse continues at a virtually unchecked pace, resistance has flourished, making new treatments desperately needed. We've developed a liquid-based, Pseudomonas aeruginosa infection assay that utilizes the master virulence factor pyoverdin for pathogenesis. Using this assay, we've identified small molecules that inhibit P. aeruginosa virulence or that promote innate immune activation. Research within the past twenty years has increasingly demonstrated that innate immunity plays a crucial role in priming the adaptive immune response and in mitigating the earliest sequelae of infection.

We have recently begun to study the importance of mitophagy (autophagic destruction of mitochondria) in cancer as well. Much contradictory evidence exists in the scientific literature suggesting that autophagy in general (and mitophagy in particular) may have pro-oncogenic effects (e.g., promoting organellar and protein complex recycling and efficient use of cellular energy reserves) and also anti-tumorigenic effects (e.g., mutation or loss of much of the autophagic and mitophagic machinery of the cell, or their regulators are strongly associated with increased cancer prevalence). We will utilize the C. elegans and human cells to gain an understanding of the relevance of mitophagy in tumor initiation and progression. This research effort will harness the particularly deep knowledge base of C. elegans cell cycle events that has been amassed by researchers across the globe over the past thirty years and leverage the high-throughput capabilities of < em> C. elegans assays to identify novel therapies that may help cancer patients.

Select Publications

Shapiro RS, Chavez A, Porter CBM, Hamblin M, Kaas CS, DiCarlo JE, Zeng G, Xu X, Revtovich AV, Kirienko NV, Wang Y, Church GM, Collins JJ A CRISPR Cas9-based gene drive platform for genetic interaction analysis in Candida albicans.  Nature Microb 2017

Tjahjono, E and Kirienko, NV A conserved mitochondrial surveillance pathway is required for defense against Pseudomonas aeruginosa.  PLoS Genet, 13 2017

Kang D and Kirienko, NV High-Throughput Genetic Screen Reveals that Early Attachment and Biofilm Formation are Necessary for Full Pyoverdine Production by Pseudomonas aeruginosa.  Front. Microbiol, 8 2017

Kirienko DR, Revtovich AV, Kirienko NV A High-Content, Phenotypic Screen Identifies Fluorouridine as an Inhibitor of Pyoverdine Biosynthesis and Pseudomonas aeruginosa Virulence.  mSphere 2016

Kirienko DR, Revtovich AV, Kirienko NV A High-Content, Phenotypic Screen Identifies Fluorouridine as an Inhibitor of Pyoverdine Biosynthesis and Pseudomonas aeruginosa Virulence.  mSphere, 1 2016: e00217-16

Kirienko NV, Ausubel FM, Ruvkun G Mitophagy confers resistance to siderophore-mediated killing by Pseudomonas aeruginosa.  Proc Natl Acad Sci U S A., 112 2015: 1821-6

Conery AL, Larkins-Ford J, Ausubel FM, Kirienko NV High-throughput screening for novel anti-infectives using a C. elegans pathogenesis model.  Curr Protoc Chem Biol, 6 2014: 25-37

Pellegrino MW, Nargund AM, Kirienko NV, Gillis R, Fiorese CJ, Haynes CM Mitochondrial UPR-regulated innate immunity provides resistance to pathogen infection.  Nature, 516 2014: 414–417

Kirienko NV, Cezairliyan BO, Ausubel FM, Powell JR Pseudomonas aeruginosa PA14 pathogenesis in Caenorhabditis elegans.  Methods Mol. Biol., 1149 2014: 653-69

Kuzmanov A, Karina EI, Kirienko NV, Fay DS The conserved PBAF nucleosome-remodeling complex mediates the response to stress in Caenorhabditis elegans.  Mol. Cell. Biol., 34 2014: 1121-35

Riedel CG, Dowen RH, Lourenco GF, Kirienko NV, Heimbucher T, West JA, Bowman SK, Kingston RE, Dillin A, Asara JM, Ruvkun G DAF-16 employs the chromatin remodeller SWI/SNF to promote stress resistance and longevity.  Nat. Cell Biol., 15 2013: 491-501

Kirienko NV, Larkins-Ford J, Wählby C, Ruvkun G, Ausubel FM Pseudomonas aeruginosa disrupts Caenorhabditis elegans iron homeostasis, causing a hypoxic response and death.  Cell Host Microbe, 13 2013 : 406-16

McEwan DL, Kirienko NV, Ausubel FM Host translational inhibition by Pseudomonas aeruginosa Exotoxin A Triggers an immune response in Caenorhabditis elegans.  Cell Host Microbe, 11 2012: 364-74

Pukkila-Worley R, Feinbaum R, Kirienko NV, Larkins-Ford J, Conery AL, Ausubel FM Stimulation of Host Immune Defenses by a Small Molecule Protects C. elegans from Bacterial Infection.  PLoS Genet., 8 2012: e1002733

Sait M, Kamneva OK, Fay DS, Kirienko NV, Polek J, Shirasu-Hiza MM, Ward NL Genomic and Experimental Evidence Suggests that Verrucomicrobium spinosum Interacts with Eukaryotes.  Front Microbiol, 2 2011: 211

Kirienko NV, Mani K, Fay DS Cancer models in Caenorhabditis elegans.  Dev. Dyn., 239 2010: 1413-48

Kirienko NV, Fay DS SLR-2 and JMJC-1 regulate an evolutionarily conserved stress-response network.  EMBO J., 29 2010: 727-39

Barends TR, Hartmann E, Griese JJ, Beitlich T, Kirienko NV, Ryjenkov DA, Reinstein J, Shoeman RL, Gomelsky M, Schlichting I Structure and mechanism of a bacterial light-regulated cyclic nucleotide phosphodiesterase.  Nature , 459 2009: 1015-8

Kirienko Lab Website
Lab website

  • BS Biochemistry (2002) Southern Federal University
  • MS Biology (2004) Southern Federal University
  • PhD Molecular Biology (2009) University of Wyoming
    Research Areas
    • Using C. elegans as a model system to study the conserved mechanisms of organismal defenses to stresses and infection with pathogens
    Professional Experience
    • Postdoctoral Research Associate in the Laboratory of Fred Ausubel
      Harvard Medical School
    • CPRIT Scholar in Cancer Research
      Rice University, BioSciences
    Contact Information
    Email: kirienko@rice.edu
    Phone: 713-348-2581
    Office: GRB Hall, W200N