Javier F. Tabima Restrepo

Javier F. Tabima Restrepo

Assistant Professor

Clark University

Biography

I’m an Assistant Professor of Genomics at the Department of Biology of Clark University. My lab is interested in identifying the patterns of genomic evolution of fungal species and populations, specially focused on the evolution, systematics, and the genomics of secondary metabolism of the genus Basidiobolus.

I use a multidisciplinary approach of integrating tools and concepts from evolutionary theory, computational biology, genomics, genetics and plant pathology/mycology in order to study these phenomena, as well as to create computational and molecular tools for the rapid identification of species, populations, genes of interest and molecular patterns of fungal evolution.

Interests

  • Genomics
  • Evolutionary Biology
  • Bioinformatics
  • Mycology

Education

  • PhD in Botany and Plant Pathology, 2018

    Oregon State University

  • MSc in Biological Sciences, 2009

    Universidad de los Andes, Bogotá, Colombia

  • BSc in Biology, 2008

    Universidad de los Andes, Bogotá, Colombia

Lab Topics

Genomics

Basidiobolus comparative and population genomics

Molecular Biology

Tools to identify novel genes in fungal species

Host-Fungal interactions

Basidiobolus-host interactions

R programming

Creation of tools for genomics in R

Open Data

Scientific reproducibility and replicability

Experience

 
 
 
 
 

Assistant Professor

Clark University

Aug 2020 – Present Massachussets
Courses in Bioinformatics, Genomics and Data Analysis
 
 
 
 
 

Postdoctoral Scholar

Oregon State University

Feb 2018 – Aug 2020 Corvallis, Oregon
Postdoctoral scholar working with Dr. Joey Spatafora and Dr. Jared LeBoldus in two independent projects of evolution of fungal species

Recent Publications

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S Kerio, HA Daniels, M Gomez-Gallego, JF Tabima, RR Lenz, KL Sondreli, NJ Grunwald, N Williams, R Mcdougal, JM LeBoldus (2020). From genomes to forest management--tackling invasive Phytophthora species in the era of genomics. In: Canadian Journal of Plant Pathology, (42), 1, pp. 1–29.

Brian J Knaus, Javier F Tabima, Shankar K Shakya, Howard S Judelson, Niklaus J Grunwald (2020). Genome-Wide Increased Copy Number is Associated with Emergence of Dominant Clones of the Irish Potato Famine Pathogen Phytophthora infestans. In: Mbio, (11), 3.

Thomas M Adams, Andrew D Armitage, Maria K Sobczyk, Helen J Bates, Javier F Tabima, Brent A Kronmiller, Brett M Tyler, Niklaus J Grunwald, Jim M Dunwell, Charlotte F Nellist, {others} (2020). Genomic investigation of the strawberry pathogen Phytophthora fragariae indicates pathogenicity is associated with transcriptional variation in three key races. In: Frontiers in Microbiology, (11), pp. 490.

Javier Felipe Tabima, Ian Trautman, Ying Chang, Yan Wang, Stephen Mondo, Asaf Salamov, Igor Grigoriev, Jason Stajich, Joseph Spatafora (2020). Phylogenomic analyses of non-Dikarya fungi supports horizontal gene transfer driving diversification of secondary metabolism in the amphibian gastrointestinal symbiont, Basidiobolus. In: G3, (1).

JF Tabima, KL Sondreli, S Kerio, N Feau, ML Sakalidis, RC Hamelin, JM LeBoldus (2020). Population Genomic Analyses Reveal Connectivity via Human-Mediated Transport across Populus Plantations in North America and an Undescribed Subpopulation of Sphaerulina musiva. In: Molecular Plant-Microbe Interactions, (33), 2, pp. 189–199.

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