Martina Stromvik

Associate Professor; Departmental Chair

T: 514-398-8627  | martina.stromvik [at] mcgill.ca (Email) |  Raymond Building R2-019

Degrees

BA, MS (Stockholm)
PhD (Illinois)

Research interests

Dr. Stromvik combines her bioinformatics and molecular biology/genomics expertise to research functional anatomy as a result of cell or tissue specific gene expression in crop and forest plants.

Martina V. Stromvik collageEach plant species is considered to have between 20,000 and 60,000 genes. Expression of each gene at the correct time and in the correct cells is made possible by the composition of the associated gene cis-acting regulatory sequences, the promoters. Diversity in plant promoters and regulatory elements is the primary basis for the development of functional organisms. Promoters are also recognized as an incredible source of tools for correctly expressing genes in crop improvement and metabolic engineering such as for the development of new bio products (medicines, vaccines, industrial oils, paints, lubricants, adhesives, plastics, alternative energy sources, and plants for industrial decontamination). However, to date little is known about promoters, and especially about plant promoters.

Dr. Stromvik's research program elucidates plant gene expression and promoters on a global scale, using bioinformatics and microgenomics methods in the important crop plant soybean (Glycine max (L.) Merr.), but also in other species such as Oxytropis spp., and Arabidopsis thaliana.

 

Additional projects in the group include:

Cell specific gene expression studies using Laser Capture Microdissection

Discovery of tissue specific regulatory elements in promoter sequences

Discovery of co-regulation in metabolic pathways and gene families

Promoter studies using transgenics

Large scale data mining and integration

Plant virus sequence data analysis

M.Sc./Ph.D. student positions are currently available in the group for self-funded students only. Projects are either in bioinformatics, micro-genomics or a mix of both. Contact Dr. Stromvik for more details.

See also my bioinformatics courses  Bioinformatics for Genomics BINF 511 and Bioinformatics: Molecular Biology BINF 621.

Current lab members

Maria Kyriakidou (Ph.D. student - Bioinformatics)
Ilayda Bozan (M.Sc. student - Bioinformatics)
Juan Carlos Camargo Tavares (M.Sc. student)
Zhengyuan Liu (M.Sc. student - Bioinformatics)
Sai Reddy Achakkagari (M.Sc Applied student intern - Biotechnology) 
 

Graduates

Héctor Gálvez (M.Sc. 2017 - Bioinformatics)
Prabha Munusamy (M.Sc. 2015 - Bioinformatics)
Yevgen Zolotarov (M.Sc. 2014 - Bioinformatics)
Nadia Chaidir (M.Sc. 2014 - Bioinformatics)
Annie Archambault (Ph.D. 2013 - Molecular Biology)
Haritika Majithia (M.Sc. 2013 - Bioinformatics)
Muhammad Chragh (M.Sc. 2012 - Molecular Biology)
Francois Fauteux (Ph.D. 2010 - Bioinformatics)
Julie Livingstone (M.Sc. 2009 - Bioinformatics)
Hanaa Saeed (M.Sc. 2008 - Molecular Biology)
Kei Chin Cheng (M.Sc. 2007 - Bioinformatics)

 

View a list of current publications on Google Scholar and Research Gate

Selected Publications

Kyriakidou, M., Anglin, N., Tai, H., Ellis, D and Strömvik, M. (2018) "Current strategies of polyploid plant genome sequence assembly". Frontiers in Plant Science. Nov 21 doi: 10.3389/fpls.2018.01660

Munusamy, P., Zolotarov, Y., Meteignier, L-V., Moffet, P. and Strömvik, M.V. (2017) “De novo computational identification of stress-related sequence motifs and microRNA target sites in untranslated regions of a plant translatome” Scientific Reports 7, 43861 doi: 10.1038/srep43861

Galvez Lopez, J.H., Tai, H., Barkley, N.A., Gardner, K., Ellis, D., and Strömvik, M.V. (2017) “Understanding potato with the help of genomics” AIMS Agriculture and Food, 2(1): 16-39 doi:10.3934/agrfood.2017.1.16

Galvez Lopez, J.H., Tai, H., Zebarth, B., Lagüe, M., and Strömvik, M.V. (2016) "The nitrogen responsive transcriptome in potato (Solanum tuberosum L.) reveals significant gene regulatory motifs" Scientific Reports 6: 26090 doi:10.1038/srep26090

Rodrigues de Almeida, M. and Strömvik, M.V. (2016). Chapter 11: "Laser capture microdissection: Avoiding bias in analysis by selecting just what matters." In "Biotechnology of Plant Secondary Metabolism" Ed.: A.G Fett-Neto, Humana Press, Springer Protocols, Methods in Molecular Biology 1405

Goordial, J., Raymond-Bouchard, I., Zolotarov, Y., de Bethencourt, L., Ronholm, J., Shapiro, N., Woyke, T., Strömvik, M., Greer, C., Bakermans, C., Whyte, L. (2016) "Cold adaptive traits revealed by comparative genomic analysis of the eurypsychrophile Rhodococcus sp. JG3 isolated from high elevation McMurdo Dry Valley permafrost, Antarctica." FEMS Microbiology Ecology 92: fiv154 http://femsec.oxfordjournals.org/content/92/2/fiv154

Rodrigues de Almeida, M., de Bastiani, D., Letaif Gaeta, M., Ernesto de Araujo Mariath, J.E., de Costa, F., Retallick, J., Nolan, L., Tai, H., Strömvik, M.V., and Fett-Neto, A.G. (2015). “Comparative transcriptional analysis provides new insights in the molecular basis of adventitious rooting recalcitrance in Eucalyptus”. Plant Science 239: 155-165 DOI: 10.1016/j.plantsci.2015.07.022

Zolotarov, Y., and Strömvik, M.V. (2015). "De novo regulatory motif discovery identifies significant motifs in promoters of five classes of plant dehydrin genes"  PLoS One, June 26, 2015 DOI: 10.1371/journal.pone.0129016.

Chragh, M., Zolotarov, Y., Saeed, H., and Strömvik, M.V. (2015). "Le4 is an epicotyl preferential homologue of the soybean seed specific Le1 lectin and the vegetative Le3 lectin genes" Plant Molecular Biology Reporter. 33: 1779-1789  (DOI) 10.1007/s11105-015-0873-y

Liseron-Monfils, C., Lewis, T., Ashlock, D., McNicholas, P., Fauteux, F., Strömvik, M., and Raizada, M. (2013). "Promzea: a pipline for discovery of co-regulatory motifs in maize and other plant species and its application to the anthocyanin and phlobaphene biosynthetic pathways and the Maize Development Atlas." BMC Plant Biology 13: 42.

Archambault, A. and Strömvik, M.V. (2012). "Evolutionary relationships in Oxytropis species, as estimated from the nuclear ribosomal internal transcribed spacer (ITS) sequences point to multiple expansions into the Arctic" Botany 90: 770-779.

Archambault, A. and Strömvik, M.V. (2012). "The Y-segment of novel cold dehydrin genes is conserved and codons in the PR-10 genes are under positive selection in Oxytropis (Fabaceae) from contrasting climates” Molecular Genetics and Genomics 287: 123-142. 

Hunt, M., Kaur, N., Stromvik, M., and Vodkin, L. (2011). "Transcript Profiling Reveals Expression Differences In Wild-Type and Glabrous Soybean Lines". BMC Plant Biology 11: 145. 

Livingstone, J.M., Zolotarov, Y., and Strömvik, M.V. (2011). "Transcripts of soybean isoflavone 7-O-glucosyltransferase and hydroxyisoflavanone dehydratase gene homologues are at least as abundant as transcripts of their well known counterparts". Plant Physiology and Biochemistry 49: 1071-1075.

Archambault, A. and Strömvik, M.V. (2011) "PR-10, defensin and cold dehydrin genes are among those over expressed in Oxytropis (Fabaceae) species adapted to the arctic". Functional and Integrative Genomics 11: 497-505.

Livingstone, J.M., Seguin, P., and Strömvik, M.V. (2010) "An in silico study of the genes for the isoflavonoid pathway enzymes in soybean reveals novel expressed homologues" Can. J. of Plant Science 90: 453-469.

Livingstone, J.M., Cheng, K.C., and Strömvik, M.V. (2010) Chapter 12: "Bioinformatics as a Tool" in Genetics, Genomics and Breeding in Soybean" Eds. K. Bilyeu, M.B. Ratnaparkhe, C. Kole, CRC Press, Science Publishers Enfield, New Hampshire (Bookchapter).