Mr Gregory Gimenez

2026

Journal - Research Article

Vasantharajan, S. S., Ajithkumar, P., Moloney-Geany, K., O'Neill, H., Rodger, E. J., Pattison, S., Gimenez, G., & Chatterjee, A. (2026). Single-cell RNA sequencing of circulating tumour cells in colorectal cancer. Molecular Biology Reports, 53, 1224. doi: 10.1007/s11033-026-12427-0

Zheng, Q., Stayner, C., Reid, G., Gimenez, G., & Eccles, M. R. (2026). PAX gene expression in autosomal dominant polycystic kidney disease contributes to cyst expansion and regulates a gene network associated with cyst growth. Human Molecular Genetics, 35(3), ddaf205. doi: 10.1093/hmg/ddaf205

2025

Journal - Research Article

Weiss, L., Pavez, M., Labudina, A., Andriichuk, L., Jones, O., Jones, A., Barwick, D., Jenkins, Z., Basak, I., Morgan, T., … Hughes, S., … Gimenez, G., … Gumy, L. F., & Robertson, S. P. (2025). A functional role for septin-2 in the maintenance of the axon initial segment and in human cognitive development. Brain. Advance online publication. doi: 10.1093/brain/awaf468

Hossain, S. M., Gimenez, G., Stockwell, P., Weeks, R., Almomani, S., Jones, G. T., Ratajska, M., Shuen, M., Bhat, B., … Rodger, E., Jackson, C., Chatterjee, A., & Eccles, M. R. (2025). Pre-treatment DNA methylome and transcriptome profiles correlate with melanoma response to anti-PD1 immunotherapy. Cancer Letters, 618, 217638. doi: 10.1016/j.canlet.2025.217638

Gimenez, G., Kalev-Zylinska, M. L., Morison, I., Bohlander, S. K., Horsfield, J. A., & Antony, J. (2025). Cohesin rad21 mutation dysregulates erythropoiesis and granulopoiesis output within the whole kidney marrow of adult zebrafish. American Journal of Physiology: Cell Physiology, 328, C9-C19. doi: 10.1152/ajpcell.00657.2024

Conference Contribution - Published proceedings: Abstract

Dutta, A., Yee, A., Ghosh, A., Zarrabi, A., Gimenez, G., Smith, J., Rodger, E., & Chatterjee, A. (2025). Liquid biopsy based DNA methylation biomarker panel for facilitating minimally invasive prostate cancer detection. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

2024

Journal - Research Article

Ray, S., Sullivan, R., Ruegg, M., Gimenez, G., Horsfield, J., Poke, G., … Bicknell, L. (2024). The spliceosomal factor CRNKL1 is a novel disease gene required for brain development. European Journal of Human Genetics, 32(Suppl. 2), C04.1. doi: 10.1038/s41431-024-01732-6

Davis, W. J. H., Drummond, C., Gimenez, G., Rodger, E., Chatterjee, A., & Reid, G. (2024). MALAT1 And NEAT1 contribute to adaptive mutability in the transition from drug tolerance to drug resistance in lung cancer. Journal of Thoracic Oncology, 19(Suppl. 10), s436-S437. doi: 10.1016/j.jtho.2024.09.795

Stockwell, P. A., Rodger, E. J., Gimenez, G., Morison, I. M., & Chatterjee, A. (2024). DMAP2: A pipeline for analysis of whole-genome-scale DNA methylation sequencing data. Current Protocols, 4, 370003. doi: 10.1002/cpz1.70003

Labudina, A. A., Meier, M., Gimenez, G., Tatarakis, D., Ketharnathan, S., Mackie, B., … Antony, J., & Horsfield, J. A. (2024). Cohesin composition and dosage independently affect early development in zebrafish. Development, 151, 202593. doi: 10.1242/dev.202593

Wade, E. M., Morgan, T., Gimenez, G., Jenkins, Z. A., Titheradge, H., O'Donnell, M., … Robertson, S. P. (2024). Pathogenic FLNA variants affecting the hinge region of filamin A are associated with male survival. American Journal of Medical Genetics Part A, 194A, e63779. doi: 10.1002/ajmg.a.63779

Jones, A. G., Aquilino, M., Tinker, R. J., Duncan, L., Jenkins, Z., Carvill, G. L., … Halliday, B. J., … Gimenez, G., … Robertson, S. P. (2024). Clustered de novo start-loss variants in GLUL result in a developmental and epileptic encephalopathy via stabilization of glutamine synthetase. American Journal of Human Genetics, 111(4), 729-741. doi: 10.1016/j.ajhg.2024.03.005

Banerjee, R., Ajithkumar, P., Keestra, N., Smith, J., Gimenez, G., Rodger, E. J., Eccles, M. R., Antony, J., Weeks, R. J., & Chatterjee, A. (2024). Targeted DNA methylation editing using an all-in-one system establishes paradoxical activation of EBF3. Cancers, 16, 898. doi: 10.3390/cancers16050898

Ajithkumar, P., Gimenez, G., Stockwell, P. A., Almomani, S., Bowden, S. A., Leichter, A. L., … Pattison, S., … Frizelle, F. A., Eccles, M. R., Purcell, R. V., Rodger, E. J., & Chatterjee, A. (2024). DNA methylome and transcriptome maps of primary colorectal cancer and matched liver metastasis. Data, 9(1), 8. doi: 10.3390/data9010008

Journal - Research Other

Smith, J., Ajithkumar, P., Wilkinson, E. J., Dutta, A., Vasantharajan, S. S., Yee, A., Gimenez, G., Subramaniam, R. M., Lau, M., Zarrabi, A. D., Rodger, E. J., & Chatterjee, A. (2024). Genome-scale DNA methylome and transcriptome profiles of prostate cancer recurrence after prostatectomy [Data descriptor]. Data, 9, 150. doi: 10.3390/data9120150

Tun, T., Baleivanualala, S. C., Erdmann, M. B., Gimenez, G., & Aung, H. L. (2024). An extensively drug-resistant Pseudomonas aeruginosa isolate from Myanmar [Genome note]. Journal of Global Antimicrobial Resistance, 36, 1-3. doi: 10.1016/j.jgar.2023.11.004

Conference Contribution - Published proceedings: Abstract

Ravindran Menon, D., Hammerlindl, H., Gimenez, G., Zuegner, E., Magens, C., Eccles, M., … Schaider, H. (2024). O-GlcNAc transferase drives the proliferative state in adaptive drug tolerance. Cancer Research, 84(7, Suppl.), LB293. doi: 10.1158/1538-7445.AM2024-LB293

Ravindran Menon, D., Hammerlindl, H., Gimenez, G., Zuegner, E., Haass, N. K., Herlyn, M., … Eccles, M., … Schaider, H. (2024). H3K4me3 remodeling induced acquired resistance through O-GicNAc transferase in melanoma. Pigment Cell & Melanoma Research, 37, (pp. 120-121). doi: 10.1111/pcmr.13152

Conference Contribution - Poster Presentation (not in published proceedings)

August, C., Baleivanualala, S., Gimenez, G., & Aung, H. L. (2024, September). Genetic diversity of Mycobacterium tuberculosis isolates circulating in Māori Communities. Poster session presented at the Queenstown Research Week (QRW) Pathogen Genomics Meeting, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Antony, J., Gimenez, G., Kalev-Zylinska, M., Morison, I., Bohlander, S., Hunter, F. W., … Horsfield, J. A. (2024, August-September). Targeting cohesin mutations in leukaemia to identity druggable avenues. Verbal presentation at the Queenstown Research Week (QRW) Cancer Meeting, Queenstown, New Zealand.

Davis, W. J. H., Drummond, C. J., Gimenez, G., Rodger, E., Chatterjee, A., & Reid, G. (2024, August-September). A dark matter: The lncRNA MALAT1 contributes to the transition from drug tolerance to drug resistance in lung adenocarcinoma. Verbal presentation at the Queenstown Research Week (QRW) Cancer Meeting, Queenstown, New Zealand.

2023

Chapter in Book - Research

Gimenez, G., Stockwell, P. A., Rodger, E. J., & Chatterjee, A. (2023). Strategy for RNA-seq experimental design and data analysis. In G. J. Seymour, M. P. Cullinan, N. C. K. Heng & P. R. Cooper (Eds.), Oral biology: Molecular techniques and applications: Methods in molecular biology (Vol. 2588). (3rd ed.) (pp. 249-278). New York, NY: Springer. doi: 10.1007/978-1-0716-2780-8_16

Journal - Research Article

Verduin, M., Hoosemans, L., Vanmechelen, M., van Heumen, M., Piepers, J. A. F., Astuti, G., … Gimenez, G., Chatterjee, A., … Vooijs, M. A. (2023). Patient-derived glioblastoma organoids reflect tumor heterogeneity and treatment sensitivity. Neuro-Oncology Advances, 5(1), vdad152. doi: 10.1093/noajnl/vdad152

Ravindran Menon, D., Hammerlindl, H., Gimenez, G., Hammerlindl, S., Zuegner, E., Torrano, J., … Eccles, M. R., … Schaider, H. (2023). H3K4me3 remodeling induced acquired resistance through O-GlcNAc transferase. Drug Resistance Updates, 71, 100993. doi: 10.1016/j.drup.2023.100993

Rodger, E. J., Gimenez, G., Ajithkumar, P., Stockwell, P. A., Almomani, S., Bowden, S. A., Leichter, A. L., Ahn, A., Pattison, S., McCall, J. L., … Frizelle, F. A., Eccles, M. R., Purcell, R. V., & Chatterjee, A. (2023). An epigenetic signature of advanced colorectal cancer metastasis. iScience, 26(6), 106986. doi: 10.1016/j.isci.2023.106986

Conference Contribution - Published proceedings: Abstract

Labudina, A. A., Gimenez, G., Meier, M., Ketharnathan, S., Antony, J., & Horsfield, J. A. (2023). Using a zebrafish stem cell model to understand the molecular basis of cohesinopathies. Proceedings of the Genetics Otago (GO) Annual Symposium & Workshops. Retrieved from https://blogs.otago.ac.nz/go

Labudina, A. A., Gimenez, G., Meier, M., Ketharnathan, S., Antony, J., & Horsfield, J. A. (2023). Using a zebrafish stem cell model to understand the molecular basis of cohesinopathies. In T. Milne, M. Anwar, L. Burga, H. Harcombe, M. Garelja, A. Middleton, D. C. Ribeiro, N. Fleming, K. Ogbuehi & A. Bahn (Eds.), Proceedings of the 267th Otago Medical School Research Society (OMSRS) Meeting: PhD Student Speaker Awards. Dunedin, New Zealand: OMSRS. Retrieved from https://ourarchive.otago.ac.nz/handle/10523/12839

2022

Chapter in Book - Research

Marsman, J., Day, R. C., & Gimenez, G. (2022). Circular chromosome conformation capture sequencing (4C-Seq ) in primary adherent cells. In J. Horsfield & J. Marsman (Eds.), Chromatin: Methods and protocols: Methods in molecular biology (Vol. 2458). (pp. 301-320). New York, NY: Springer. doi: 10.1007/978-1-0716-2140-0_16

Journal - Research Article

Hossain, S. M., Gimenez, G., Stockwell, P. A., Tsai, P., Print, C. G., Rys, J., … Jackson, C., Chatterjee, A., & Eccles, M. R. (2022). Innate immune checkpoint inhibitor resistance is associated with melanoma sub-types exhibiting invasive and de-differentiated gene expression signatures. Frontiers in Immunology, 13, 955063. doi: 10.3389/fimmu.2022.955063

Mehta, P. M., Gimenez, G., Walker, R. J., & Slatter, T. L. (2022). Reduction of lithium induced interstitial fibrosis on co-administration with amiloride. Scientific Reports, 12(1), 14598. doi: 10.1038/s41598-022-18825-1

Journal - Research Other

Mulholland, C. V., Gimenez, G., Williamson, A., Steele, M., Thorpe, D., Karalus, N., … Cook, G. M., … Aung, H. L. (2022). Complete genome sequence of a New Zealand Mycobacterium tuberculosis strain responsible for ongoing transmission over the past 30 years. Microbiology Resource Announcements, 11(11). doi: 10.1128/mra.00781-22

Conference Contribution - Published proceedings: Abstract

Labudina, A. A., Gimenez, G., Ketharnathan, S., Antony, J., & Horsfield, J. A. (2022). Using a zebrafish stem cell model to understand the molecular basis of Cornelia de Lange Syndrome. In L. Wilson, H. Harcombe, P. Jayakaran, L. Burga, J. Antony, K. Morgaine, M. Garelja, A. Middleton, M. Anwar & T. Milne (Eds.), Proceedings of the 263rd Otago Medical School Research Society (OMSRS) Meeting: PhD Student Speaker Awards. Dunedin, New Zealand: OMSRS. Retrieved from https://ourarchive.otago.ac.nz/handle/10523/12839

Mehta, P., Gimenez, G., Slatter, T., & Walker, R. J. (2022). Reduction of lithium induced interstitial fibrosis on co-administration with amiloride. In L. Wilson, H. Harcombe, P. Jayakaran, L. Burga, J. Antony, K. Morgaine, M. Garelja, A. Middleton, M. Anwar & T. Milne (Eds.), Proceedings of the 262nd Otago Medical School Research Society (OMSRS) Meeting: Research Staff Speaker Awards. Dunedin, New Zealand: OMSRS. Retrieved from https://ourarchive.otago.ac.nz/handle/10523/12839

Siemonek, A., Van Huffel, S., Gimenez, G., Weeks, R., Horsfield, J. A., Antony, J., & Dunbier, A. (2022). Unraveling the mechanisms involved in the co-regulation of breast cancer associated genes at the 6q25.1 locus. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Labudina, A. A., Gimenez, G., Ketharnathan, S., Antony, J., & Horsfield, J. A. (2022). Using a zebrafish stem cell model to understand the molecular basis of Cornelia de Lange Syndrome. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Conference Contribution - Verbal presentation and other Conference outputs

Labudina, A. A., Gimenez, G., Ketharnathan, S., Antony, J., & Horsfield, J. A. (2022, September). Using a zebrafish stem cell model to understand the molecular basis of Cornelia de Lange Syndrome. Verbal presentation at the Postgraduate & Early Career Researchers Committee (PERC) & Division of Health Sciences Early & Mid-Career Researcher (EMCR) Joint Research Symposium, Dunedin, New Zealand.

Antony, J., Gimenez, G., Weth, F., & Horsfield, J. A. (2022, August). Exploring the role of cohesin mutation and Wnt signalling in acute myeloid leukaemia. Verbal presentation at the Cancer Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

Smith, J., Banerjee, R., Waly, R., Keestra, N., Gimenez, G., Day, R., Weeks, R. J., & Chatterjee, A. (2022, August). Editing DNA methylation in cancer cells. Verbal presentation at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

2021

Journal - Research Article

Smith, J., Banerjee, R., Waly, R., Urbano, A., Gimenez, G., Day, R., Eccles, M. R., Weeks, R. J., & Chatterjee, A. (2021). Locus-specific DNA methylation editing in melanoma cell lines using a CRISPR-based system. Cancers, 13, 5433. doi: 10.3390/cancers13215433

Ahn, A., Rodger, E. J., Motwani, J., Gimenez, G., Stockwell, P. A., Parry, M., … Chatterjee, A., & Eccles, M. R. (2021). Transcriptional reprogramming and constitutive PD-L1 expression in melanoma are associated with dedifferentiation and activation of interferon and tumour necrosis factor signalling pathways. Cancers, 13, 4250. doi: 10.3390/cancers13174250

Wade, E. M., Jenkins, Z. A., Morgan, T., Gimenez, G., Gibson, H., Peng, H., … Robertson, S. P. (2021). Exon skip-inducing variants in FLNA in an attenuated form of frontometaphyseal dysplasia. American Journal of Medical Genetics Part A, 185A, 3675-3682. doi: 10.1002/ajmg.a.62424

Tran, K. B., Gimenez, G., Tsai, P., Kolekar, S., Rodger, E., Chatterjee, A., … Eccles, M. R., … Shepherd, P. R. (2021). Genomic and signalling pathway characterisation of the NZM panel of melanoma cell lines: A valuable model for studying the impact of genetic diversity in melanoma. Pigment Cell & Melanoma Research, 34(1), 136-143. doi: 10.1111/pcmr.12908

Conference Contribution - Published proceedings: Abstract

Talalima, T. S. A., Gimenez, G., & Aung, H. L. (2021). A genomic voyage: Exploring tuberculosis in Pasifika. In M. Colombo, P. Vakaoti, R. Richards, M. Schaaf, M. Taumoepeau & L. Moata'ane (Eds.), Proceedings of the Pacific Postgraduate Symposium: Pacific Voices XVIII. (pp. 41). Dunedin, New Zealand: Pacific Islands Centre, University of Otago. Retrieved from http://hdl.handle.net/10523/16236

Siemonek, A., Van Huffel, S., Gimenez, G., Horsfield, J. A., Antony, J., & Dunbier, A. (2021). Unraveling the mechanisms involved in the co-regulation of breast cancer associated genes at the 6q25.1 locus. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

2020

Journal - Research Article

Chin, C. V., Antony, J., Ketharnathan, S., Labudina, A., Gimenez, G., Parsons, K. M., … Braithwaite, A., Guilford, P., … Horsfield, J. A. (2020). Cohesin mutations are synthetic lethal with stimulation of WNT signaling. eLIFE, 9, e61405. doi: 10.7554/eLife.61405

Knapp, K. M., Sullivan, R., Murray, J., Gimenez, G., Arn, P., D'Souza, P., … Bicknell, L. S. (2020). Linked-read genome sequencing identifies biallelic pathogenic variants in DONSON as a novel cause of Meier-Gorlin syndrome. Journal of Medical Genetics, 57, 195-202. doi: 10.1136/jmedgenet-2019-106396

Marsman, J., Gimenez, G., Day, R. C., Horsfield, J. A., & Jones, G. T. (2020). A non-coding genetic variant associated with abdominal aortic aneurysm alters ERG gene regulation. Human Molecular Genetics, 29(4), 554-565. doi: 10.1093/hmg/ddz256

Journal - Research Other

Antony, J., Gimenez, G., Taylor, T., Khatoon, U., Day, R., Morison, I. M., & Horsfield, J. A. (2020). BET inhibition prevents aberrant RUNX1 and ERG transcription in STAG2 mutant leukaemia cells. Journal of Molecular Cell Biology, 12(5), 397-399. doi: 10.1093/jmcb/mjz114

Conference Contribution - Published proceedings: Abstract

Menke, L. A., Jenkins, Z. A., Williams, E., Gimenez, G., O'Neill, A. C., Hennekam, R. C., & Robertson, S. P. (2020). Menke-Hennekam syndrome subtypes caused by variants in the Zinc finger domains ZZ and TAZ2 and the fourth intrinsically disordered linker of CBP and p300. European Journal of Human Genetics, 28(Suppl. 1), (pp. 471). doi: 10.1038/s41431-020-00739-z

Marsman, J., Gimenez, G., Day, R. C., Horsfield, J. A., & Jones, G. T. (2020). A non-coding genetic variant associated with abdominal aortic aneurysm alters ERG gene regulation. New Zealand Medical Journal, 133(1518), (pp. 98). Retrieved from https://www.nzma.org.nz/journal

2019

Journal - Research Article

Kazantseva, M., Mehta, S., Eiholzer, R. A., Gimenez, G., Bowie, S., Campbell, H., Reily-Bell, A. L., … Ray, S., Drummond, C. J., Reid, G., … Wiles, A., Morrin, H. R., Reader, K. L., Hung, N. A., Baird, M. A., Slatter, T. L., & Braithwaite, A. W. (2019). The Δ133p53β isoform promotes an immunosuppressive environment leading to aggressive prostate cancer. Cell Death & Disease, 10, 631. doi: 10.1038/s41419-019-1861-1

Conference Contribution - Published proceedings: Abstract

Antony, J., Gimenez, G., Taylor, T., Khatoon, U., Day, R., Morison, I. M., & Horsfield, J. A. (2019). Dysregulated transcriptional response to differentiation signals in cohesin-mutant leukemia cells. Proceedings of the 16th Asian Conference on Transcription. (pp. 65). Retrieved from https://act2019.p.events4you.currinda.com/days/2019-12-02

Dearden, P., Duncan, E. J., Gimenez, G., Gruber, M. A. M., Guhlin, J., Harrop, T. W. R., … McLaughlin, G., Permina, E., … Remnant, E. J., Stockwell, P., Quinn, O., & Wilson-Rankin, E. E. (2019). The genomes of three invasive social wasps. Proceedings of the Genetics Society of Australasia (GSA) Conference. Retrieved from https://event.crowdcompass.com/gsa2019

Dearden, P., Duncan, E. J., Gimenez, G., Gruber, M. A. M., Guhlin, J., Harrop, T. W. R., … McLaughlin, G., Permina, E., … Stockwell, P., Quinn, O., & Wilson-Rankin, E. E. (2019). High-quality Schistosoma haematobium genome achieved by single-molecule and long-range sequencing. Proceedings of the Genetics Society of Australasia (GSA) Conference. Retrieved from https://event.crowdcompass.com/gsa2019

Taylor, J. T., Cook, G. M., Gimenez, G., & Aung, H. L. (2019). Otara: Fighting tuberculosis on the home front. In A. Finigan, P. Vakaoti, R. Richards & M. Schaaf (Eds.), Proceedings of the Pacific Postgraduate Symposium: Pacific Voices XVI. (pp. 31). Dunedin, New Zealand: The Pacific Islands Centre, University of Otago. Retrieved from https://www.otago.ac.nz/pacific

2018

Journal - Research Article

Rossi, L., Cassella, L., Iacopetti, P., Ghezzani, C., Tana, L., Gimenez, G., … Salvetti, A. (2018). Insight into stem cell regulation from sub-lethally irradiated worms. Gene, 662, 37-45. doi: 10.1016/j.gene.2018.04.009

Conference Contribution - Published proceedings: Abstract

Munro, F., Gimenez, G., Shepherd, P., Braithwaite, A., McCall, J., & Fleming, N. (2018). A common variation in the IL6 promoter predicts time to metastasis for colorectal cancer and may indicate the mechanisms involved. Proceedings of the New Zealand Society for Oncology (NZSO) Conference. Retrieved from http://www.nzsoncology.org.nz/

Hibma, M., Zhang, T., Gimenez, G., Ly, K., Burn, C., Young, K., Wilson, M., … Tschirley, A., Braithwaite, A., & Baird, M. (2018). Human papillomavirus regulation of Langerhans cell function in the skin. European Journal of Immunology, 48(Suppl. 1), (pp. 96-97). doi: 10.1002/eji.201871000

Conference Contribution - Poster Presentation (not in published proceedings)

Sharma, I., Wilson, M., Nair, B., Gimenez, G., Hunter, F., Young, S., & Hibma, M. (2018, September). Mechanisms of HPV suppression of antigen presenting cells. Poster session presented at the Otago Spotlight Symposium on Infectious Disease, Wellington, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Antony, J., Gimenez, G., & Horsfield, J. A. (2018, August). Chromatin disruption and abnormal cell signalling in cohesin-mutant leukaemia. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Munro, F. M., Gimenez, G., Shepherd, P. R., Braithwaite, A. W., McCall, J. L., & Fleming, N. I. (2018, August). Regulation of IL-6 is pivotal to outcome in colorectal cancer. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2017

Journal - Research Article

Mossadegh-Keller, N., Gentek, R., Gimenez, G., Bigot, S., Mailfert, S., & Sieweke, M. H. (2017). Developmental origin and maintenance of distinct testicular macrophage populations. Journal of Experimental Medicine, 214(10), 2829-2841. doi: 10.1084/jem.20170829

Cassella, L., Salvetti, A., Iacopetti, P., Ippolito, C., Ghezzani, C., Gimenez, G., … Rossi, L. (2017). Putrescine independent wound response phenotype is produced by ODC-like RNAi in planarians. Scientific Reports, 7, 9736. doi: 10.1038/s41598-017-09567-6

Torre, C., Abnave, P., Tsoumtsa, L. L., Mottola, G., Lepolard, C., Trouplin, V., Gimenez, G., … Ghigo, E. (2017). Staphylococcus aureus promotes Smed-PGRP-2/Smed-setd8-1 Methyltransferase signalling in planarian neoblasts to sensitize anti-bacterial gene responses during re-infection. EBioMedicine, 20, 150-160. doi: 10.1016/j.ebiom.2017.04.031

Tsoumtsa, L. L., Torre, C., Trouplin, V., Coiffard, B., Gimenez, G., Mege, J.-L., & Ghigo, E. (2017). Antimicrobial capacity of the freshwater planarians against S.aureus is under the control of Timeless. Virulence, 8(7), 1160-1169. doi: 10.1080/21505594.2016.1276689

Lateef, Z., Gimenez, G., Baker, E. S., & Ward, V. K. (2017). Transcriptomic analysis of human norovirus NS1-2 protein highlights a multifunctional role in murine monocytes. BMC Genomics, 18, 39. doi: 10.1186/s12864-016-3417-4

2016

Journal - Research Article

Soucie, E. L., Weng, Z., Geirsdóttir, L., Molawi, K., Maurizio, J., Fenouil, R., … Gimenez, G., … Sieweke, M. H. (2016). Lineage-specific enhancers activate self-renewal genes in macrophages and embryonic stem cells. Science, 351(6274), aad5510. doi: 10.1126/science.aad5510

Gimenez, G., Metcalf, P., Paterson, N. G., & Sharpe, M. L. (2016). Mass spectrometry analysis and transcriptome sequencing reveal glowing squid crystal proteins are in the same superfamily as firefly luciferase. Scientific Reports, 6, 27638. doi: 10.1038/srep27638

2015

Journal - Research Article

Sharpe, M. L., Dearden, P. K., Gimenez, G., & Krause, K. L. (2015). Comparative RNA seq analysis of the New Zealand glowworm Arachnocampa luminosa reveals bioluminescence-related genes. BMC Genomics, 16, 825. doi: 10.1186/s12864-015-2006-2

2014

Journal - Research Article

Abnave, P., Mottola, G., Gimenez, G., Boucherit, N., Trouplin, V., Torre, C., … Ghigo, E. (2014). Screening in planarians identifies MORN2 as a key component in LC3-associated phagocytosis and resistance to bacterial infection. Cell Host & Microbe, 16(3), 338-350. doi: 10.1016/j.chom.2014.08.002

Conference Contribution - Published proceedings: Abstract

Sharpe, M., Dearden, P., Gimenez, G., & Krause, K. (2014). Transcriptome of the New Zealand glowworm, Arachnocampa luminosa. Luminescence, 29(Suppl. 1), (pp. 45-46). doi: 10.1002/bio.2699_2

2013

Journal - Research Article

Elbir, H., Robert, C., Nguyen, T. T., Gimenez, G., El Sanousi, S. M., Flock, J.-I., … Drancourt, M. (2013). Staphylococcus aureus subsp. anaerobius strain ST1464 genome sequence. Standards in Genomic Sciences, 9, 1. doi: 10.4056/sigs.3748294

Rolain, J.-M., Diene, S. M., Kempf, M., Gimenez, G., Robert, C., & Raoult, D. (2013). Real-time sequencing to decipher the molecular mechanism of resistance of a clinical pan-drug-resistant Acinetobacter baumannii isolate from Marseille, France. Antimicrobial Agents & Chemotherapy, 57(1), 592-596. doi: 10.1128/AAC.01314-12

Rolain, J. M., Vayssier-Taussat, M., Saisongkorh, W., Merhej, V., Gimenez, G., Robert, C., … Raoult, D. (2013). Partial disruption of translational and posttranslational machinery reshapes growth rates of Bartonella birtlesii. mBio, 4(2), e00115-13. doi: 10.1128/mBio.00115-13

De la Cruz, M. A., Zhao, W., Farenc, C., Gimenez, G., Raoult, D., Cambillau, C., … Méresse, S. (2013). A toxin-antitoxin module of Salmonella promotes virulence in mice. PLoS Pathogens, 9(12), e1003827. doi: 10.1371/journal.ppat.1003827

Clarke, M., Lohan, A. J., Liu, B., Lagkouvardos, I., Roy, S., Zafar, N., … Gimenez, G., … Loftus, B. J. (2013). Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome Biology, 14, R11. doi: 10.1186/gb-2013-14-2-r11

Pradel, N., Ji, B., Gimenez, G., Talla, E., Lenoble, P., Garel, M., … Dolla, A. (2013). The first genomic and proteomic characterization of a deep-sea sulfate reducer: Insights into the piezophilic lifestyle of Desulfovibrio piezophilus. PLoS ONE, 8(1), e55130. doi: 10.1371/journal.pone.0055130

Colson, P., Fancello, L., Gimenez, G., Armougom, F., Desnues, C., Fournous, G., … Raoult, D. (2013). Evidence of the megavirome in humans. Journal of Clinical Virology, 57(3), 191-200. doi: 10.1016/j.jcv.2013.03.018

Ji, B., Gimenez, G., Barbe, V., Vacherie, B., Rouy, Z., Amrani, A., … Pradel, N. (2013). Complete genome sequence of the piezophilic, mesophilic, sulfate-reducing bacterium Desulfovibrio hydrothermalis AM13^T. Genome Announcements, 1(1), e00226-12. doi: 10.1128/genomeA.00226-12

Journal - Research Other

Fournier, P.-E., Gouriet, F., Gimenez, G., Robert, C., & Raoult, D. (2013). Deciphering genomic virulence traits of a Staphylococcus epidermidis strain causing native-valve endocarditis. Journal of Clinical Microbiology, 51(5), 1617-1621. doi: 10.1128/JCM.02820-12

2012

Journal - Research Article

Mishra, A. K., Gimenez, G., Lagier, J.-C., Robert, C., Raoult, D., & Fournier, P.-E. (2012). Genome sequence and description of Alistipes senegalensis sp. nov. Standards in Genomic Sciences, 6(3), 304-314. doi: 10.4056/sigs.2625821

Elbir, H., Gimenez, G., Robert, C., Bergström, S., Cutler, S., Raoult, D., & Drancourt, M. (2012). Complete genome sequence of Borrelia crocidurae. Journal of Bacteriology, 194(14), 3723-3724. doi: 10.1128/JB.00118-12

Gorlas, A., Robert, C., Gimenez, G., Drancourt, M., & Raoult, D. (2012). Complete genome sequence of Methanomassiliicoccus luminyensis, the largest genome of a human-associated Archaea species. Journal of Bacteriology, 194(17), 4745. doi: 10.1128/JB.00956-12

Lagier, J.-C., Gimenez, G., Robert, C., Raoult, D., & Fournier, P.-E. (2012). Non-contiguous finished genome sequence and description of Herbaspirillum massiliense sp. nov. Standards in Genomic Sciences, 7(2), 200-209. doi: 10.4056/sigs.3086474

Haitham, E., Gimenez, G., Sokhna, C., Desalegn Bilcha, K., Ali, J., Barker, S. C., … Drancourt, M. (2012). Multispacer sequence typing relapsing fever borreliae in africa. PLoS Neglected Tropical Diseases, 6(6), e1652. doi: 10.1371/journal.pntd.0001652

Lagier, J.-C., Armougom, F., Million, M., Hugon, P., Pagnier, I., Robert, C., … Gimenez, G., … Raoult, D. (2012). Microbial culturomics: Paradigm shift in the human gut microbiome study. Clinical Microbiology & Infection, 18(12), 1185-1193. doi: 10.1111/1469-0691.12023

Sharma, P., Diene, S. M., & Gimenez, G. (2012). Genome sequence of Microbacterium yannicii, a bacterium isolated from a cystic fibrosis patient. Journal of Bacteriology, 194(17), 4785. doi: 10.1128/JB.01088-12

Rolain, J.-M., Vayssier-Taussat, M., Gimenez, G., Robert, C., Fournier, P.-E., & Raoult, D. (2012). Genome sequence of Bartonella birtlesii, a bacterium isolated from small rodents of the genus Apodemus. Journal of Bacteriology, 194(17), 4779. doi: 10.1128/JB.01044-12

Gorlas, A., Gimenez, G., Raoult, D., & Roux, V. (2012). Draft genome sequences of Actinomyces timonensis strain 7400942^T and its prophage. Journal of Bacteriology, 194(23), 6613-6614. doi: 10.1128/JB.01730-12

Oulmi, L., Gorlas, G., Gimenez, G., Robert, C., Boulahrouf, A., Raoult, D., & Roux, V. (2012). Draft genome sequence of Tsukamurella sp. strain 1534. Journal of Bacteriology, 194(19), 5482-5483. doi: 10.1128/JB.01279-12

Roux, V., Robert, C., Gimenez, G., & Raoult, D. (2012). Draft genome sequence of Staphylococcus massiliensis strain 5402776^T. Journal of Bacteriology, 194(24), 6984-6985. doi: 10.1128/JB.01909-12

Roux, V., Robert, C., Gimenez, G., & Raoult, D. (2012). Draft genome sequence of Brevibacterium massiliense strain 541308^T. Journal of Bacteriology, 194(18), 5151-5152. doi: 10.1128/JB.01182-12

Roux, V., Robert, C., Gimenez, G., Gharbi, R., & Raoult, D. (2012). Draft genome sequence of Actinomyces massiliensis strain 4401292^T. Journal of Bacteriology, 194(18), 5121. doi: 10.1128/JB.01039-12

2011

Journal - Research Article

Colson, P., Gimenez, G., Boyer, M., Fournous, G., & Raoult, D. (2011). The giant Cafeteria roenbergensis virus that infects a widespread marine phagocytic protist is a new member of the fourth domain of life. PLoS ONE, 6(4), e18935. doi: 10.1371/journal.pone.0018935

Audoly, G., Vincentelli, R., Edouard, S., Georgiades, K., Mediannikov, O., Gimenez, G., … Raoult, D. (2011). Effect of rickettsial toxin vapC on its eukaryotic host. PLoS ONE, 6(10), e26528. doi: 10.1371/journal.pone.0026528

Gimenez, G., Bertelli, C., Moliner, C., Robert, C., Raoult, D., Fournier, P.-E., & Greub, G. (2011). Insight into cross-talk between intra-amoebal pathogens. BMC Genomics, 12, 542. doi: 10.1186/1471-2164-12-542

2010

Journal - Research Article

Boyer, M., Gimenez, G., Suzan-Monti, M., & Raoult, D. (2010). Classification and determination of possible origins of ORFans through analysis of nucleocytoplasmic large DNA viruses. Intervirology, 53(5), 310-320. doi: 10.1159/000312916

Boyer, M., Madoui, M.-A., Gimenez, G., La Scola, B., & Raoult, D. (2010). Phylogenetic and phyletic studies of informational genes in genomes highlight existence of a 4^th domain of life including giant viruses. PLoS ONE, 5(12), e15530. doi: 10.1371/journal.pone.0015530

Li, W., Ortiz, G., Fournier, P.-E., Gimenez, G., Reed, D. L., Pittendrigh, B., & Raoult, D. (2010). Genotyping of human lice suggests multiple emergences of body lice from local head louse populations. PLoS Neglected Tropical Diseases, 4(3), e641. doi: 10.1371/journal.pntd.0000641

2008

Journal - Research Other

Salgado, D., Gimenez, G., Coulier, F., & Marcelle, C. (2008). COMPARE, a multi-organism system for cross-species data comparison and transfer of information. Bioinformatics, 24(3), 447-449. doi: 10.1093/bioinformatics/btm599

Deutsch, E. W., Ball, C. A., Berman, J. J., Bova, G. S., Brazma, A., Bumgarner, R. E., … Gimenez, G., … True, L. D. (2008). Minimum information specification for in situ hybridization and imminohistochemistry experiments (MISFISHIE). Nature Biotechnology, 26, 305-312. doi: 10.1038/nbt1391