2026
Journal - Research Article
Kyte, N., Fuchs, M., Smith, L. M., & Fineran, P. C. (2026). Defining the essential genome of diverse phages with phage Tn-seq. Nature Microbiology. Advance online publication. doi: 10.1038/s41564-026-02486-1
Journal - Research Other
Eichler, A. H., Hitz, I. F., Koonce, K. C., Smith, L. M., Mauritzen, J. J., & Høyland-Kroghsbo, N. M. (2026). PMI TechNote: Bacteriophages: From the petri dish to conquering the nooks and crannies of difficult-to-treat infections. APMIS, 134(8), e70249. doi: 10.1111/apm.70249
2025
Journal - Research Article
Smith, L. M., & Fineran, P. C. (2025). Type I CRISPR-Cas immunity primes type III spacer acquisition. Cell Host & Microbe. Advance online publication. doi: 10.1016/j.chom.2025.07.021
Mahler, M., Cui, L., Smith, L. M., Wandera, K. G., Dietrich, O., Mayo-Muñoz, D., … Dubrulle, J., Malone, L. M., Jackson, S. A., … Fineran, P. C. (2025). Phage arabinosyl-hydroxy-cytosine DNA modifications result in distinct evasion and sensitivity responses to phage defense systems. Cell Host & Microbe, 33, 1173-1190. doi: 10.1016/j.chom.2025.06.005
Harding, K. R., Malone, L. M., Kyte, N. A. P., Jackson, S. A., Smith, L. M., & Fineran, P. C. (2025). Genome-wide identification of bacterial genes contributing to nucleus-forming jumbo phage infection. Nucleic Acids Research, 53, gkae1194. doi: 10.1093/nar/gkae1194
2024
Journal - Research Article
Smith, L. M., Hampton, H. G., Yevstigneyeva, M. S., Mahler, M., Paquet, Z. S. M., & Fineran, P. C. (2024). CRISPR-Cas immunity is repressed by the LysR-type transcriptional regulator PigU. Nucleic Acids Research, 52, 755-768. doi: 10.1093/nar/gkad1165
Conference Contribution - Published proceedings: Abstract
Smith, L. M., Hampton, H. G., Yevstigneyeva, M. S., Mahler, M. S., Paquet, Z. S. M., & Fineran, P. C. (2024). The LysR-type regulator PigU controls CRISPR-based defense against phages and plasmids. Viruses of Microbes (VoM) Scientific Conference. Retrieved from https://www.vom2024.org/
Harding, K. R., Malone, L. M., Kyte, N. A. P., Jackson, S. A., Smith, L. M., & Fineran, P. C. (2024). Genome-wide identification of bacterial genes used in nucleus-forming jumbo phage infection. Viruses of Microbes (VoM) Scientific Conference. Retrieved from https://www.vom2024.org/
2023
Journal - Research Article
Shearer, H. L., Pace, P. E., Smith, L. M., Fineran, P. C., Matthews, A. J., Camilli, A., Dickerhof, N., & Hampton, M. B. (2023). Identification of Streptococcus pneumoniae genes associated with hypothiocyanous acid tolerance through genome-wide screening. Journal of Bacteriology, 205(10). doi: 10.1128/jb.00208-23
Mahler, M., Malone, L. M., van den Berg, D. F., Smith, L. M., Brouns, S. J. J., & Fineran, P. C. (2023). An OmpW-dependent T4-like phage infects Serratia sp. ATCC 39006. Microbial Genomics, 9(3), 000968. doi: 10.1099/mgen.0.000968
Journal - Research Other
Smith, L. M., & Fineran, P. C. (2023). Phage capsid recognition triggers activation of a bacterial toxin-antitoxin defense system [Spotlight]. Molecular Cell, 83, 165-166. doi: 10.1016/j.molcel.2022.12.020
Conference Contribution - Published proceedings: Abstract
Gardner, P., Coray, D. S., Sibaeva, N., McGimpsey, S., Smith, L., Chen, A., & Fineran, P. (2023). The mutational robustness of RNA and protein. Proceedings of the New Zealand Society for Biochemistry and Molecular Biology (NZSBMB) 50th Anniversary Conference. Retrieved from https://www.nzsbmb.org/conference
Kyte, N., Harding, K., Malone, L., Jackson, S., Smith, L., & Fineran, P. (2023). Unlocking the secrets of jumbo phages: Harnessing Tn-Seq and CRISPRi to reveal bacterial genes involved in phage infection. Proceedings of the New Zealand Society for Biochemistry and Molecular Biology (NZSBMB) 50th Anniversary Conference. Retrieved from https://www.nzsbmb.org/conference
2022
Journal - Research Article
Mayo-Muñoz, D., Smith, L. M., Garcia-Doval, C., Malone, L. M., Harding, K. R., Jackson, S. A., Hampton, H. G., Fagerlund, R. D., Gumy, L. F., & Fineran, P. C. (2022). Type III CRISPR-Cas provides resistance against nucleus-forming jumbo phages via abortive infection. Molecular Cell, 82, 4471-4486.e9. doi: 10.1016/j.molcel.2022.10.028
Conference Contribution - Published proceedings: Abstract
Mayo-Muñoz, D., Smith, L. M., Garcia-Doval, C., Malone, L. M., Harding, K. R., Jackson, S. A., Hampton, H. G., Fagerlund, R. D., Gumy, L. F., & Fineran, P. C. (2022). Type III CRISPR-Cas provides resistance against nucleus-forming jumbo phages via abortive infection. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go
Smith, L. M., Mayo-Muñoz, D., García-Doval, C., Malone, L. M., Harding, K., Jackson, S. A., Hampton, H. G., Gumy, L. F., & Fineran, P. C. (2022). CRISPR-Cas targeting of a nucleus-forming jumbo phage induces abortive infection. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go
Conference Contribution - Verbal presentation and other Conference outputs
Mayo-Muñoz, D., García-Doval, C., Malone, L. M., Smith, L. M., Hampton, H. G., Gumy, L. F., … Fineran, P. C. (2022, August). Type III CRISPR-Cas enables resistance against nucleus-forming jumbo phages. Verbal presentation at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.
Smith, L. M., Jackson, S. A., Malone, L. M., Ussher, J. E., Gardner, P. P., & Fineran, P. C. (2022, August). Inverse regulation of CRISPR-Cas and surface-based immunity discriminates plasmids versus phages. Verbal presentation at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.
2021
Journal - Research Article
Rey Campa, A., Smith, L. M., Hampton, H. G., Sharma, S., Jackson, S. A., Bischler, T., … Fineran, P. C. (2021). The Rsm (Csr) post-transcriptional regulatory pathway coordinately controls multiple CRISPR-Cas immune systems. Nucleic Acids Research, 49(16), 9508-9525. doi: 10.1093/nar/gkab704
Smith, L. M., Jackson, S. A., Malone, L. M., Ussher, J. E., Gardner, P. P., & Fineran, P. C. (2021). The Rcs stress response inversely controls surface and CRISPR–Cas adaptive immunity to discriminate plasmids and phages. Nature Microbiology, 6, 162-172. doi: 10.1038/s41564-020-00822-7
Journal - Research Other
Smith, L. M., Jackson, S. A., Gardner, P. P., & Fineran, P. C. (2021). SorTn-seq: A high-throughput functional genomics approach to discovering regulators of bacterial gene expression. Nature Protocols, 16, 4382-4418. doi: 10.1038/s41596-021-00582-6
Conference Contribution - Published proceedings: Abstract
Mayo-Muñoz, D., García-Doval, C., Malone, L. M., Smith, L. M., Harding, K., Hampton, H. G., Gumy, L. F., … Fineran, P. C. (2021). Type III CRISPR-Cas enables resistance against nucleus-forming jumbo phages. Proceedings of the 16th Congress of the Federation of Asian & Oceanic Biochemists & Molecular Biologists (FAOBMB). (pp. 229). Retrieved from https://www.faobmb2021.org
Smith, L. M., Jackson, S. A., Malone, L., Ussher, J. E., Gardner, P. P., & Fineran, P. C. (2021). Inverse control of surface and CRISPR-Cas adaptive immunity discriminates plasmids and phages. Proceedings of the 16th Congress of the Federation of Asian & Oceanic Biochemists & Molecular Biologists (FAOBMB). (pp. 120). Retrieved from https://www.faobmb2021.org
2020
Journal - Research Article
Hampton, H. G., Smith, L. M., Ferguson, S., Meaden, S., Jackson, S. A., & Fineran, P. C. (2020). Functional genomics reveals the toxin-antitoxin repertoire and AbiE activity in Serratia. Microbial Genomics, 6, 1-15. doi: 10.1099/mgen.0.000458
Awarded Doctoral Degree
Smith, L. M. (2020). A genome-wide approach identifying regulators of CRISPR-Cas immunity in Serratia (PhD). University of Otago, Dunedin, New Zealand. Retrieved from http://hdl.handle.net/10523/10109
2019
Journal - Research Article
Birkholz, N., Fagerlund, R. D., Smith, L. M., Jackson, S. A., & Fineran, P. C. (2019). The autoregulator Aca2 mediates anti-CRISPR repression. Nucleic Acids Research, 47(18), 9658-9665. doi: 10.1093/nar/gkz721
McCully, L. M., Bitzer, A. S., Seaton, S. C., Smith, L. M., & Silby, M. W. (2019). Interspecies social spreading: Interaction between two sessile soil bacteria leads to emergence of surface motility. mSphere, 4(1), e00696-18. doi: 10.1128/mSphere.00696-18
2018
Conference Contribution - Published proceedings: Abstract
Smith, L. M., Gardner, P. P., Jackson, S. A., Ussher, J. E., & Fineran, P. C. (2018). Developing SorTn-Seq: A state-of-the-art method to study CRISPR-Cas regulation. Proceedings of the New Zealand Microbiological Society (NZMS) New Zealand Society for Biochemistry and Molecular Biology (NZSBMB) Joint Annual Conference: Microbes & Molecules. (pp. 109). Retrieved from https://www.nzmsconference.org.nz
Birkholz, N., Jackson, S. A., Fagerlund, R. D., Smith, L. M., & Fineran, P. C. (2018). Transcriptional regulation by the anti-CRISPR-associated protein Aca2. Proceedings of the New Zealand Microbiological Society (NZMS) New Zealand Society for Biochemistry and Molecular Biology (NZSBMB) Joint Annual Conference: Microbes & Molecules. (pp. 45-46). Retrieved from https://www.nzmsconference.org.nz
2017
Conference Contribution - Poster Presentation (not in published proceedings)
Smith, L. M., Gardner, P. P., Jackson, S. A., Ussher, J. E., & Fineran, P. C. (2017, September). Developing SorTn-Seq: A state-of-the-art method to study CRISPR-Cas regulation. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.
