Martina Stromvik

Image by Alex Tran.

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

Cell-specific gene regulation and promoter discovery: Using techniques such as laser capture microdissection, RNA-Seq/transcriptomics, transgenics and computational de novo motif discovery, my group studies transcriptional gene regulation of agronomic traits in economically important plants such as soybean and potato.

Adaptation of plants to the Arctic: My research group studies the genomes of arctic plants, and has explored evolutionary adaptive aspects of several genes. These discoveries contribute to understanding the molecular mechanisms behind this remarkable plant adaptation to an incredibly harsh habitat, and to positioning potential sustainable crop improvement in a changing climate. 

Bioinformatics software and database development: Plant genomes are in many ways very complex and challenging. Bioinformatics tools tailored for plants are needed. My group has developed several tools including Seeder – an open source de novo motif discovery tool, and SoyXpress – a database for soybean. 

Whole-genome sequence analyses of complex polyploid genomes: Plant genomes are highly duplicated and often polyploid. My group analyzes complex whole genome sequences of soybean (diploidized tetraploid) and several potato relatives (diploids, triploids, tetraploids, pentaploids) for structural variations that are linked to the plant’s phenotype and success in adaptation.  

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 (postdoc)
Ilayda Bozan (M.Sc. student - Bioinformatics)
Juan Carlos Camargo Tavares (Ph.D. student)
Zhengyuan Liu (M.Sc. student - Bioinformatics)
Sai Reddy Achakkagari (Research Assistant - Bioinformatics) 
Dana Praslickova, Ph.D (Research Associate)
 

Graduates

Juan Carlos Camargo Tavares (M.Sc. 2020 - Molecular Biology)
Maria Kyriakidou (Ph.D. 2020 - Bioinformatics)
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

Parenteau, M.T., Gu, H., Zebarth, B.J., Cambouris, A.N., Lafond, J., Nelson, A., Nyiraneza, J., Davidson, C., Lagüe, M., Galvez, J.H., Strömvik, M.V., and Tai, H.H. (2020) Data Mining Nitrogen-Responsive Gene Expression for Source–Sink Relations and Indicators of N Status in Potato. Agronomy 2020, 10, 1617. https://doi.org/10.3390/agronomy10101617

Achakkagari, S., Kyriakidou, M., Tai, H.H., Anglin, N.L., Ellis, D., and Strömvik, M.V. (2020) Complete plastome assemblies from a panel of 13 diverse potato taxa. PLOS One 15(10): e0240124 (Oct 8 2020) https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0240124

Kyriakidou, M., Anglin, N.L., Ellis, D., Tai, H.H., and Strömvik, M.V. (2020) Genome assembly of six polyploid genomes. Nature Scientific Data 7, 88(2020) https://www.nature.com/articles/s41597-020-0428-4

Kyriakidou, M., Achakkagari, S.R., Galvez, J.H., Zhu, X., Tang, K., Tai, H., Anglin, N., Ellis, D., Strömvik, MV. (2020) Structural genome analysis in potato taxa. Theoretical and Applied Genetics (TAG) Online first Dec 31, 2019  http://link.springer.com/article/10.1007/s00122-019-03519-6

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).

 

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