Clare’s Google Scholar Page


Jinich A, Nazia SZ, Tellez AV, Wu AM, Smith CM, Rhee K. Genome-wide co-essentiality analysis in Mycobacterium tuberculosis reveals an itaconate defense enzyme module. 2022; Deposited to bioRxiv




Jinich A , Zaveri A, DeJesus MA, Flores-Bautista E, Smith CM, Sassetti CM, Rock JM, Ehrt S , Schnappinger D , Ioerger TR, Rhee K. “The Mycobacterium tuberculosis transposon sequencing database (MtbTnDB): a large-scale guide to genetic conditional essentiality.” 2021; deposited to bioRxiv; Check out your favorite Mtb gene for condition-specific requirements and test out the MtbTnDB here!




Meade R, Long J, Jinich A, Rhee K, Ashbrook D, Williams R,Sassetti C, Smith CM. Genome-Wide screen identifies host loci that modulate M. tuberculosis fitness in immunodivergent mice. G3. 2023. PMID: 37405387. Also deposited to bioRxiv 2023.




Adefisayo O, Curtis E, Smith CM. Mycobacterial genetic technologies for probing the host-pathogen microenvironment. Infection and Immunity. 2023. May 30. doi: 10.1128/iai.00430-22





Wilburn KM, Meade RK, Heckenberg EM, Dockterman J, Coers J, Sassetti CM, Olive AJ, Smith CM. Differential requirement for IRGM proteins during tuberculosis infection in mice. 2023. Online ahead of print; PMID: 36629440; also deposited at bioRxiv



Martinez N, Smulan LJ, Jameson ML, Smith CM, Cavallo K, Bellerose M, Williams J, West K, Sassetti CM, Singhal A, Kornfeld H. Glycerol contributes to tuberculosis susceptibility in male mice with type 2 diabetes. Nat Commun. 2023 Sep 20;14(1):5840. doi: 10.1038/s41467-023-41519-9. PMID: 37730757; PMCID: PMC10511404.



Olive AJ, Smith CM, Baer CE, Coers J, Sassetti CM. Mycobacterium tuberculosisEvasion of Guanylate Binding Protein-Mediated Host Defense in Mice Requires the ESX1 Secretion System. Int J Mol Sci. 2023 Feb 2;24(3):2861. doi: 10.3390/ijms24032861. PMID: 36769182; PMCID: PMC9917499. Also preprinted at bioRxiv


Saelens JW, Sweeney MI, Viswanathan G, Xet-Mull AM, Jurcic Smith KL, Sisk DM, Hu DD, Cronin RM, Hughes EJ, Brewer WJ, Coers J, Champion MM, Champion PA, Lowe CB, Smith CM, Lee S, Stout JE, Tobin DM. An ancestral mycobacterial effector promotes dissemination of infection. 2022. PMID: 36356582




Smith CM, Baker RE, Proulx MK, Mishra BB, Long JE, Park SW, Lee H-N, Kiritsy MC, Bellerose MM, Olive AJ, Murphy KC, Papavinasasundaram K, Boehm FJ, Reames CJ, Meade RK, Hampton BK, Linnertz CL, Shaw GD, Hock P, Bell TA, Ehrt S, Schnappinger D, Pardo-Manuel de Villena F, Ferris MT, Ioerger TR, Sassetti CM. “Host-pathogen genetic interactions underlie tuberculosis susceptibility in genetically diverse mice”. Preprint; Final Publication PDF; PMID: 35112666



Yaron TM, Heaton BE, Levy TM, Johnson JL, Jordan TX, Cohen BM, Kerelsky A, Lin T-Y, Liberatore KM, Bulaon DK, Kastenhuber ER, Mercadante MN, Shobana-Ganesh K, He L, Schwartz RE, Chen S, Weinstein H, Elemento O, Piskounova E, Nilsson-Payant BE, Lee G, Trimarco JD, Burke KN, Hamele CE, Chaparian RR, Harding AT, Tata A, Zhu X, Tata PR, Smith CM, Possemato AP, Tkachev SL, Hornbeck PV, Beausoleil SA, Anand SK, Aguet F, Getz G, Davidson AD, Heesom K, Kavanagh-Williamson M, Matthews D, tenOever BR, Cantley LC, Blenis J, Heaton NS. “Host protein kinases required for SARS-CoV-2 nucleocapsid phosphorylation and viral replication.” bioRxiv preprint; Final published paper PDF; PMID: 36282911



Trimarco JD, Heaton BE, Chaparian RR, Burke KN, Binder RA, Gray GC, Smith CM, Menachery VD, Heaton NS. “TMEM41B is a host factor required for the replication of diverse coronaviruses including SARS-CoV-2.” 2021; paper PDF; PMID: 34043740


Lovewell RR, Baer CE, Mishra BB, Smith CM, Sassetti CM. Granulocytes act as a niche for Mycobacterium tuberculosis growth. Mucosal Immunol (2021) Jan; 14(1) doi: 10.1038/s41385-020-0300-z. PMID: 32483198. PMCID: PMC7704924





Bourgeois JS, Smith CM, Ko DC. “These Are the Genes You’re Looking For: Finding Host Resistance Genes.” 2020; paper PDF; PMID: 33004258





Sigmon JS., Blanchard MW, Baric RS, Bell TA, Brennan J, Brockmann GA, Burks AW, Calabrese JM, Caron KM, Cheney RE, Ciavatta D, Conlon F, Darr DB, Faber J, Franklin C, Gershon TR, Gralinski L, Gu B, Gaines CH, Hagan RS, Heimsath EG, Heise MT, Hock P, Ideraabdullah F, Jennette JC, Kafri T, Kashfeen A, Kulis M, Kumar V, Linnertz C, Livraghi-Butrico A, Lloyd KCK, Lutz C, Lynch RM, Magnuson T, Matsushima GK, McMullan R, Miller DR, Mohlke KL, Moy SS, Murphy CEY, Najarian M, O’Brien L, Palmer AA, Philpot BD, Randell SH, Reinholdt L, Ren Y, Rockwood S, Rogala AR, Saraswatula A, Sassetti CM, Schisler JC, Schoenrock SA, Shaw GD, Shorter JR, Smith CM, St Pierre CL, Tarantino LM, Threadgill DW, Valdar W, Vilen BJ, Wardwell K, Whitmire JK, Williams L, Zylka MJ, Ferris MT, McMillan L,Pardo-Manuel de Villena F. “Content and Performance of the MiniMUGA Genotyping Array: A New Tool to Improve Rigor and Reproducibility in Mouse Research.” 2020; paper PDF; PMID: 33067325


Clare’s Postdoc papers:

Bellerose MM, Proulx MK, Smith CM, Baker RE, Ioerger TR, Sassetti CM. “Distinct Bacterial Pathways Influence the Efficacy of Antibiotics against Mycobacterium tuberculosis.” 2020; PDF





Smith CM*, Proulx MK*, Lai R*, Kiritsy MC, Bell TA, Hock P, Pardo-Manuel de Villena F, Ferris MT, Baker RE, Behar SM, Sassetti CM. “Functionally Overlapping Variants Control Tuberculosis Susceptibility in Collaborative Cross Mice.” 2019;  bioRxiv, PDF (*Denotes equal contributions)




Siddharth S, Zaveri A, Dejesus MA, Smith CM, Baker RE, Ehrt S, Schnappinger D, Sassetti CM, Ioerger TR. “Statisticalanalysis of variability in TnSeq data across conditions using zero-inflated negative binomial regression.” 2019; bioRxiv, PDF




Bellerose MM, Baek SH, Huang CC, Moss CE, Koh EI, Proulx MK, Smith CM, Baker RE, Lee JS, Eum S, Shin SJ, Cho SN, Murray M, Sassetti CM. “Common Variants in the Glycerol Kinase Gene Reduce Tuberculosis Drug Efficacy.” 2019; PDF




Smith CM & Sassetti CM. “Modeling diversity: do homogenous lab strains limit discovery?” 2018; PDF





Olive AJ, Smith CM, Kiritsy M, Sassetti CM. “The Phagocyte Oxidase controls tolerance to Mycobacterium tuberculosis infection.” 2018; bioRxiv, PDF




Mishra BB, Lovewell R, Olive AJ, Zhang G, Wang W, Smith CM, Phuah JY, Long JE, Dubuke M, Palace S, Goguen JD, Baker JE, Nambi S, Mishra R, Booty MG, Baer C, McCormick B, Chen X, Sassetti CM. “Nitric oxide prevents a pathogen-permissive granulocytic inflammation during tuberculosis.” 2017; PDF



DeJesus M, Nambi S, Smith CM, Baker RE, Sassetti CM, Loerger TR. “Statistical analysis of genetic interactions in TnSeq data.” 2017; PDF


Gonzales NM, Howell VM and Smith CM*. “29th International Mammalian Genome Conference meeting report.” 2016. PDF (*Corresponding author)


Smith CM, Proulx MK, Olive AJ, Laddy D, Mishra BB, Moss C, Gutierrez NM, Bellerose MM, Barreira-Silva P, Phuah JY, Baker RE, Behar SM, Kornfeld H, Evans TG, Beamer G, Sassetti CM. “Tuberculosis susceptibility and vaccine protection are independently controlled by host genotype.” 2016; PDF

Clare’s PhD papers:

Smith CM, Jerkovic A, Puy H, Winship I, Deybach JC, Gouya L, van Dooren G, Goodman CD, Sturm A, Manceau H, McFadden GI, David P, Mercereau-Puijalon O, Burgio G, McMorran BJ, Foote SJ. “Red cells from ferrochelatase-deficient erythropoietic protoporphyria patients are resistant to growth of malarial parasites.” 2015; PDF



Smith CM, Jerkovic T, Trong T, McCarthy J, Foote SJ, McMorran BJ. “Griseofulvin impairs intraerythrocytic growth of Plasmodium falciparum through ferrochelatase inhibition but lacks activity in an experimental human infectivity study.” 2016; PDF


Brizuela M, Huang HM, Smith C, Burgio G, Foote SJ, McMorran BJ. “Treatment of Erythrocytes with the 2-Cys Peroxiredoxin Inhibitor, Conoidin A, Prevents the Growth of Plasmodium falciparum and Enhances Parasite Sensitivity to Chloroquine.” 2014; PDF



McMorran BJ, Wieczorski L, Drysdale K, Chan J, Huang H, Smith CM, Mitiku C, Beeson JB, Burgio G, Foote SJ. “Platelet Factor 4 and Duffy Antigen Required for Platelet Killing of Plasmodium falciparum.” 2012; PDF 

Longley R, Smith C, Fortin A, Berghout J, McMorran B, Burgio G, Foote S, Gros P. “Host resistance to malaria using mouse models to explore the host response.” 2011; PDF