Teaching and Workshops | Javadsadeghi

Teaching and course development

University of Toronto

DPES Teaching Fellows Program:

Microorganisms and the Environment (EES1104H, 2025-2026):

This program is designed for exceptional Postdoctoral Fellows, who are excelling in research and have an interest in developing instructional skills for their future careers as academics.
Under the supervision of Professor Terrence Bell, I will be developing novel lab modules for the EESC30H course (Environmental Microbiology) such that students will gain hands-on experience applying microbiology to real world problems such as carbon emissions and food security. Through these lab modules, students will gain insight and expertise on growing plants in a laboratory environment, monitoring plant health and measuring bacterial growth through optical density. Students will be exposed to complex data interpretation and an interdisciplinary approach to microbiology, ecology, plant biology and molecular techniques.

https://www.utsc.utoronto.ca/physsci/dpes-teaching-fellows-program

Content development and teaching:

Microorganisms and the Environment (EES1104H, Winter 2024):

Gave a guest lecture and trained graduate students on how to use metagenomic tools (Kraken2, FastQC, HUMANN3) for microbial identification and functional potential characterization.
Trained students on how they can use new programming tools such as Jupyter Notebook, and GitHub for teaching purposes.

https://www.utsc.utoronto.ca/physsci/ees1104h-microorganisms-and-environment

University of Windsor

Course instructor:

Applied Ecological Genetics (BIOL 4008-7, Winter 2021, Winter 2022)

Co-instructed the course. Designed and taught lessons on the use of bioinformatic tools (R, QIIME2, and Python) to teach undergraduate students to handle real sequence data.
Designed a class project on “Stream and Riparian Zone Bacterial Community Composition and Connectivity” and supervised students in fieldwork, water, and soil sample collection, microbial DNA extraction, sequencing library preparation, and bioinformatics analysis.
Guided students through synthesis of the results which resulted in the submission of a manuscript to a peer-reviewed journal.

Ecological, Evolutionary & Environmental Genetics (BIOL 4008-7, Winter 2019)

Co-instructed the course. Designed and taught lessons on the use of GenAlEx, R, QIIME1, and other bioinformatic software to teach undergraduate students to handle genetic and microbial data (e.g. QIIME 1 “Moving Pictures” tutorial exercise, and my created Video for students on how to install the software (YouTube)).
Designed a class project for students and supervised the fieldwork sample collections.
Trained students on DNA extraction, PCR, bioanalyzer, and amplicon sequencing library preparation.
Co-supervised students in writing a manuscript on the class project which resulted in publishing a manuscript to a peer-reviewed journal (First author:https://www.mdpi.com/2076-3298/11/5/90).

Bioinformatics Workshop

Metagenomics. I developed and designed this workshop at the University of Toronto to train postdocs (6) and PhD students (9) with workflows for computational analysis and interpretation of metagenomics sequence data. Check out the link below for more info (codes, sequence data)

https://metagenomics-workshop-2024-utsc.readthedocs.io/en/latest/index.html

Metatranscriptomics. Coming soon.

R programming Coming soon.

EDI and outreach activities

I created this Youtube channel back in 2017 with aim to provided opportunity for students and community members to engage in science with no financial barrier limiting who can become involved.

Link

I played a pivotal role in transcriptomic analysis of Redside dace; an important fish species for ecosystem health as they are more sensitive to environmental disturbance than most species in freshwater ecosystems.

Link

At the University of Windsor, I was part of a community engagement called “Citizen Scientists” in which public volunteers could participate in collecting water samples from public beaches. Volunteers enjoyed the opportunity to contribute to science.

Link

Teaching and course development

University of Toronto

Microorganisms and the Environment (EES1104H, Winter 2024):

​

University of Windsor

Course instructor:

Applied Ecological Genetics (BIOL 4008-7, Winter 2021, Winter 2022)

Co-instructed the course. Designed and taught lessons on the use of bioinformatic tools (R, QIIME2, and Python) to teach undergraduate students to handle real sequence data.

Designed a class project on “Stream and Riparian Zone Bacterial Community Composition and Connectivity” and supervised students in fieldwork, water, and soil sample collection, microbial DNA extraction, sequencing library preparation, and bioinformatics analysis.

Guided students through synthesis of the results which resulted in the submission of a manuscript to a peer-reviewed journal.

Ecological, Evolutionary & Environmental Genetics (BIOL 4008-7, Winter 2019)

Designed a class project for students and supervised the fieldwork sample collections.

Trained students on DNA extraction, PCR, bioanalyzer, and amplicon sequencing library preparation.

Co-supervised students in writing a manuscript on the class project which resulted in publishing a manuscript to a peer-reviewed journal (First author:https://www.mdpi.com/2076-3298/11/5/90).

Bioinformatics Workshop

EDI and outreach activities

I created this Youtube channel back in 2017 with aim to provided opportunity for students and community members to engage in science with no financial barrier limiting who can become involved.

I played a pivotal role in transcriptomic analysis of Redside dace; an important fish species for ecosystem health as they are more sensitive to environmental disturbance than most species in freshwater ecosystems.

At the University of Windsor, I was part of a community engagement called “Citizen Scientists” in which public volunteers could participate in collecting water samples from public beaches. Volunteers enjoyed the opportunity to contribute to science.