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Health Sciences staff profiles

Dr Jo-Ann Stanton

PositionSenior Research Fellow
DepartmentDepartment of Anatomy
QualificationsBSc(Hons)(ANU) PhD(UWA)
Research summaryPoint-of-care molecular diagnostics, reproductive biology, next generation sequencing
TeachingCurrent PhD Student: Peter Smith
Memberships
  • EcoHealth Alliance
  • AGTA/NZ NGS Conference Organising Committee
  • Anatomy Finance Committee

Research

Research Area 1: I am Principal Investigator developing Handheld Molecular Diagnostic Devices for in-field and point-of-care applications. This work brings together three disciplines: molecular biology, computer science and physics / engineering. Two patentable prototype devices with associated software have been produced and licensed to a biotech company (Ubiquitome Ltd). Commercial aspects of this work have required project management skills, knowledge of regulatory standards and intellectual property protection. Multiple scientific questions are embodied by this project. Aligning technologies around the qPCR technique requires an understanding of the qPCR process and advances in chemistry and engineering. Along with these challenges is a need to adapt or invent qPCR assays that are diagnostic for in-field use.

Research Area 2: I am one of New Zealand's leading experts on Next Generation Sequencing technologies, having established the first fully-operational NGS New Zealand sequencing service based around the 454 Roche GS FLX technology. This service expanded to include the SOLiD platform from Life Technologies. Subsequently I have acquired working knowledge of bench-top sequencing technologies – the Ion Torrent and Ion Proton.

I use NGS and other technologies to explore a range of scientific interests. These are focused in anthropology, forensics, reproduction, the prostate and the microbiome. Examples of projects I have been involved with are:

  • Using a combination of ancient DNA and modern samples to study human migrations through the Pacific.
  • My interest in forensics centres on the oral microbiome. I am exploring methods of identify individuals from a DNA fingerprint of their microbiome and whether interpersonal interactions can be inferred from the microorganism strains they carry.
  • I have had a long interest in the ovary, oocyte and preimplantation embryo. Two recent projects measured organelle content in the lamb and ewe oocyte to explore embryo competence; and evaluation of the developing ovarian follicle in a sheep model for PCOS.
  • Prostate work includes two transcriptome projects, these being analysis of the LNCaP cell line and an investigation of seasonal growth cycles in the possum prostate.
  • I have also collaborated on projects for the conservation and management of NZ species and worked with ESR Ltd to discover human pathogenic organisms.

Generally, in each of these areas I have been responsible for generation of the underlying data, practical approaches and strategies for application of NGS technology.

Additional details

Current funding: MBIE UOOX1507

Publications

Sutton, J. T., Castro, I., Robertson, B. C., Tompkins, D. M., Stanton, J.-A. L., & Jamieson, I. G. (2016). MHC genetic diversity and avian malaria prevalence in Mokoia Island saddlebacks. New Zealand Journal of Ecology, 40(3), 351-360.

Rawlence, N. J., Collins, C. J., Anderson, C. N. K., Maxwell, J. J., Smith, I. W. G., Robertson, B. C., Knapp, M., Horsburgh, K. A., Stanton, J.-A. L., Scofield, R. P., … Matisoo-Smith, E. A., & Waters, J. M. (2016). Human-mediated extirpation of the unique Chatham Islands sea lion and implications for the conservation management of remaining New Zealand sea lion populations. Molecular Ecology, 25(16), 3950-3961. doi: 10.1111/mec.13726

Mackintosh, C. G., Griffin, J. F. T., Scott, I. C., O'Brien, R., Stanton, J. L., Maclean, P., & Brauning, R. (2016). SOLiD SAGE sequencing shows differential gene expression in jejunal lymph node samples of resistant and susceptible red deer (Cervus elaphus) challenged with Mycobacterium avium subsp. paratuberculosis. Veterinary Immunology & Immunopathology, 169, 102-110. doi: 10.1016/j.vetimm.2015.10.009

Banks, J. C., Clarke, J. A., Nield, P., Stanton, J.-A. L., & Wagner, E. (2016). Haplotyping cryptic Adélie penguin taxa using low-cost, high-resolution melt curves. New Zealand Journal of Zoology, 43(2), 163-170. doi: 10.1080/03014223.2015.1129971

Reader, K. L., Cox, N. R., Stanton, J.-A. L., & Juengel, J. L. (2015). Effects of acetyl-L-carnitine on lamb oocyte blastocyst rate, ultrastructure, and mitochondrial DNA copy number. Theriogenology, 83, 1484-1492. doi: 10.1016/j.theriogenology.2015.01.028

Chapter in Book - Research

Heng, N. C. K., & Stanton, J.-A. L. (2010). Oral bacterial genome sequencing using the high-throughput Roche Genome Sequencer FLX System. In G. J. Seymour, M. P. Cullinan & N. C. K. Heng (Eds.), Oral Biology. (pp. 197-218). New York: Springer. doi: 10.1007/978-1-60761-820-1_14

Stanton, J.-A. L., & Green, D. P. L. (2002). PCR-SAGE. In S. Lorkowski & P. Cullen (Eds.), Analyzing Gene Expression: A Handbook of Methods, Possibilities and Pitfalls. Wiley-VCH.

Lord, E. A., Stanton, J.-A. L., Martin, S. K., Li, C., Clark, D. E., & Suttie, J. M. (2001). Characterization of genes expressed in the growing velvet antler tip of red deer (Cervus elaphus). In J. S. Sim, H. H. Sunwoo, R. J. M. Hudson & B. T. Jeon (Eds.), Antler science and product technology. (pp. 189-199). Edmonton, Canada: Antler Science and Product Techology Research Center.

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Journal - Research Article

Sutton, J. T., Castro, I., Robertson, B. C., Tompkins, D. M., Stanton, J.-A. L., & Jamieson, I. G. (2016). MHC genetic diversity and avian malaria prevalence in Mokoia Island saddlebacks. New Zealand Journal of Ecology, 40(3), 351-360.

Banks, J. C., Clarke, J. A., Nield, P., Stanton, J.-A. L., & Wagner, E. (2016). Haplotyping cryptic Adélie penguin taxa using low-cost, high-resolution melt curves. New Zealand Journal of Zoology, 43(2), 163-170. doi: 10.1080/03014223.2015.1129971

Mackintosh, C. G., Griffin, J. F. T., Scott, I. C., O'Brien, R., Stanton, J. L., Maclean, P., & Brauning, R. (2016). SOLiD SAGE sequencing shows differential gene expression in jejunal lymph node samples of resistant and susceptible red deer (Cervus elaphus) challenged with Mycobacterium avium subsp. paratuberculosis. Veterinary Immunology & Immunopathology, 169, 102-110. doi: 10.1016/j.vetimm.2015.10.009

Rawlence, N. J., Collins, C. J., Anderson, C. N. K., Maxwell, J. J., Smith, I. W. G., Robertson, B. C., Knapp, M., Horsburgh, K. A., Stanton, J.-A. L., Scofield, R. P., … Matisoo-Smith, E. A., & Waters, J. M. (2016). Human-mediated extirpation of the unique Chatham Islands sea lion and implications for the conservation management of remaining New Zealand sea lion populations. Molecular Ecology, 25(16), 3950-3961. doi: 10.1111/mec.13726

Reader, K. L., Cox, N. R., Stanton, J.-A. L., & Juengel, J. L. (2015). Effects of acetyl-L-carnitine on lamb oocyte blastocyst rate, ultrastructure, and mitochondrial DNA copy number. Theriogenology, 83, 1484-1492. doi: 10.1016/j.theriogenology.2015.01.028

Reader, K. L., Cox, N. R., Stanton, J.-A. L., & Juengel, J. L. (2015). Mitochondria and vesicles differ between adult and prepubertal sheep oocytes during IVM. Reproduction, Fertility & Development, 27(3), 513-522. doi: 10.1071/RD13359

Jiang, Y., Xie, M., Chen, W., Talbot, R., Maddox, J. F., Faraut, T., … Stanton, J.-A., … Dalrymple, B. P. (2014). The sheep genome illuminates biology of the rumen and lipid metabolism. Science, 344(6188), 1168-1173. doi: 10.1126/science.1252806

Clarke, A. C., Prost, S., Stanton, J.-A. L., White, W. T. J., Kaplan, M. E., Matisoo-Smith, E. A., and the Genographic Consortium. (2014). From cheek swabs to consensus sequences: An A to Z protocol for high-throughput DNA sequencing of complete human mitochondrial genomes. BMC Genomics, 15, 68. doi: 10.1186/1471-2164-15-68

Wyatt, A. K., Zavodna, M., Viljoen, J. L., Stanton, J.-A. L., Gemmell, N. J., & Jasoni, C. L. (2013). Changes in methylation patterns of Kiss1 and Kiss1r gene promoters across puberty. Genetics & Epigenetics, 5, 51-62.

Todd, A. K., Hall, R. J., Wang, J., Peacey, M., McTavish, S., Rand, C. J., Stanton, J.-A., … Huang, Q. S. (2013). Detection and whole genome sequence analysis of an enterovirus 68 cluster. Virology Journal, 10(1). doi: 10.1186/1743-422x-10-103

Fineran, P. C., Iglesias Cans, M. C., Ramsay, J. P., Wilf, N. M., Cossyleon, D., McNeil, M. B., … Stanton, J.-A. L., … Salmond, G. P. C. (2013). Draft genome sequence of Serratia sp. strain ATCC 39006, a model bacterium for analysis of the biosynthesis and regulation of prodigiosin, a carbapenem, and gas vesicles. Genome Announcements, 1(6), e01039-13. doi: 10.1128/genomeA.01039-13

Sutton, J. T., Robertson, B. C., Grueber, C. E., Stanton, J.-A. L., & Jamieson, I. G. (2013). Characterization of MHC class II B polymorphism in bottlenecked New Zealand saddlebacks reveals low levels of genetic diversity. Immunogenetics, 65(8), 619-633. doi: 10.1007/s00251-013-0708-7

Peacey, M., Hall, R. J., Wang, J., Todd, A. K., Yen, S., Chan-Hyams, J., Rand, C. J., Stanton, J.-A., & Huang, Q. S. (2013). Enterovirus 74 Infection in Children. PLoS ONE, 8(10), e76492. doi: 10.1371/journal.pone.0076492

Horsburgh, K. A., Prost, S., Gosling, A., Stanton, J.-A., Rand, C., & Matisoo-Smith, E. A. (2013). The genetic diversity of the Nguni breed of African Cattle (Bos spp.): Complete mitochondrial genomes of haplogroup T1. PLoS ONE, 8(8), e71956. doi: 10.1371/journal.pone.0071956

Knapp, M., Horsburgh, K. A., Prost, S., Stanton, J.-A., Buckley, H. R., Walter, R. K., & Matisoo-Smith, E. A. (2012). Complete mitochondrial DNA genome sequences from the first New Zealanders. PNAS, 109(45), 18350-18354. doi: 10.1073/pnas.1209896109

Kennedy, D. M., Stanton, J.-A. L., García, J. A., Mason, C., Rand, C. J., Kieser, J. A., & Tompkins, G. R. (2012). Microbial analysis of bite marks by sequence comparison of streptococcal DNA. PLoS ONE, 7(12), e51757. doi: 10.1371/journal.pone.0051757

Kalamorz, F., Keis, S., McMillan, D. G. G., Olsson, K., Stanton, J.-A., Stockwell, P., Black, M. A., … Cook, G. M. (2011). Draft genome sequence of the thermoalkaliphilic Caldalkalibacillus thermarum strain TA2.A1. Journal of Bacteriology, 193(16), 4290-4291. doi: 10.1128/jb.05035-11

Heng, N. C. K., Haji-Ishak, N. S., Kalyan, A., Wong, A. Y. C., Lovrić, M., Bridson, J. M., Artamonova, J., Stanton, J.-A. L., Wescombe, P. A., Burton, J. P., Cullinan, M. P., & Tagg, J. R. (2011). Genome sequence of the bacteriocin-producing oral probiotic Streptococcus salivarius strain M18. Journal of Bacteriology, 193(22), 6402-6403. doi: 10.1128/jb.06001-11

Prasad, P. D., Stanton, J.-A. L., & Assinder, S. J. (2010). Expression of the actin-associated protein transgelin (SM22) is decreased in prostate cancer. Cell & Tissue Research, 339(2), 337-347. doi: 10.1007/s00441-009-0902-y

Howden, B. P., Seemann, T., Harrison, P. F., McEvoy, C. R., Stanton, J.-A. L., Rand, C. J., Mason, C. W., … Stinear, T. P. (2010). Complete genome sequence of Staphylococcus aureus strain JKD6008, a ST239 clone of methicillin-resistant Staphylococcus aureus with intermediate level vancomycin resistance. Journal of Bacteriology, 192(21), 5848-5849. doi: 10.1128/JB.00951-10

Assinder, S. J., Stanton, J.-A. L., & Prasad, P. D. (2009). Transgelin: An actin-binding protein and tumour suppressor. International Journal of Biochemistry & Cell Biology, 41(3), 482-486. doi: 10.1016/j.biocel.2008.02.011

Li, C., Gao, Z., Yang, F., Martin, S. K., Haines, S. R., Deng, X., Schofield, J., & Stanton, J.-A. L. (2009). Development of a nude mouse model for the study of antlerogenesis: Mechanism of tissue interactions and ossification pathway. Journal of Experimental Zoology Part B: Molecular & Developmental Evolution, 312B(2), 118-135. doi: 10.1002/jez.b.21252

Abdelkrim, J., Robertson, B. C., Stanton, J.-A. L., & Gemmell, N. J. (2009). Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. Biotechniques, 46(3), 185-192. doi: 10.2144/000113084

Stanton, J.-A. L., MacGregor, A. B., Mason, C., Dameh, M., & Green, D. P. L. (2007). Building comparative gene expression databases for the mouse preimplantation embryo using a pipeline approach to UniGene. Molecular Human Reproduction, 13(10), 713-720.

Li, C., Stanton, J.-A. L., Robertson, T. M., Suttie, J. M., Sheard, P. W., Harris, A. J., & Clark, D. E. (2007). Nerve growth factor mRNA expression in the regenerating antler tip of red deer (Cervus elaphus). PLoS ONE, 2(1), e148. Retrieved from http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0000148

Anas, M.-K. I., Hammer, M.-A., Lever, M., Stanton, J.-A. L., & Baltz, J. M. (2007). The organic osmolytes betaine and proline are transported by a shared system in early preimplantation mouse embryos. Journal of Cellular Physiology, 210, 266-277.

Quinn, M. C. J., McGregor, S. B., Stanton, J. L., Hessian, P. A., Gillett, W. R., & Green, D. P. L. (2006). Purification of granulosa cells from human ovarian follicular fluid using granulosa cell aggregates. Reproduction, Fertility & Development, 18, 501-508.

Quennell, J. H., Stanton, J.-A. L., & Hurst, P. R. (2004). Basic fibroblast growth factor expression in isolated small human ovarian follicles. Molecular Human Reproduction, 10(9), 623-628.

Stanton, J.-A. L., Macgregor, A. B., & Green, D. P. L. (2003). Gene expression in the mouse preimplantation embryo. Reproduction, 125, 457-468.

Stanton, J. L., Bascand, M., Fisher, L., Quinn, M., Macgregor, A., & Green, D. P. L. (2002). Gene expression profiling of human GV oocytes: An analysis of a profile obtained by serial analysis of gene expression (SAGE). Journal of Reproductive Immunology, 53, 193-201.

Li, C., Clark, D. E., Lord, E. A., Stanton, J.-A. L., & Suttie, J. M. (2002). Sampling technique to discriminate the different tissue layers of growing antler tips for gene discovery. Anatomical Record, 268, 125-130.

Stanton, J.-A. L., Macgregor, A., & Green, D. P. L. (2002). Using expressed sequence tag databases to identify ovarian genes of interest. Molecular & Cellular Endocrinology, 191(1), 11-14.

Stanton, J.-A. L., & Green, D. P. L. (2002). A set of 1542 mouse blastocyst and pre-blastocyst genes with well-matched human homologues. Molecular Human Reproduction, 8(2), 149-166.

Bedford, J. J., Stanton, J.-A. L., & Leader, J. P. (2001). A taurine transporter isolated from rat cardiac muscle. Advances in Experimental Medicine & Biology, 483, 523-534.

Stanton, J.-A. L., & Green, D. P. L. (2001). A set of 840 mouse oocyte genes with well-matched human homologues. Molecular Human Reproduction, 7(6), 521-543.

Stanton, J.-A. L., & Green, D. P. L. (2001). Meta-analysis of gene expression in mouse preimplantation embryo development. Molecular Human Reproduction, 7(6), 545-552.

Neilson, L., Andalibi, A., Kang, D., Coutifaris, C., Strauss, III, J. F., Stanton, J.-A. L., & Green, D. P. L. (2000). Molecular phenotype of the human oocyte by PCR-SAGE. Genomics, 63, 13-24.

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Journal - Research Other

Green, D. P. L., Stanton, J.-A. L., & Macgregor, A. B. (2003). New Zealand Bioinformatics Conference 2003 [Editorial forward]. Applied Bioinformatics, 2(3 Suppl.), S1-S2.

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