Contact Details
University Links
- Position
- Senior Research Fellow
- Department
- Department of Pathology (Dunedin)
- Qualifications
- BTS(Cannes) ESIL Biotech(Aix-Marseilles II)
- Research summary
- Genomics, bioinformatics
Research
My research interests are in genomics and bioinformatics, focused on Next Generation Sequencing (NGS) and their translational applications towards a better understanding of immunological and pathologic issues.
Publications
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, 202593. Advance online publication. doi: 10.1242/dev.202593 Journal - Research Article
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. Advance online publication. doi: 10.1002/ajmg.a.63779 Journal - Research Article
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 Journal - Research Article
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 Conference Contribution - Published proceedings: Abstract
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 Journal - Research Article
2024
Journal - Research Article
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, 202593. Advance online publication. 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. Advance online publication. 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
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
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 AM13T. 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 7400942T 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 5402776T. 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 541308T. 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 4401292T. 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 4th 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