Pharmaceutical Chemist | Biologist | Bioinformatics Researcher
PhD Candidate in Integrative Biology at Cinvestav · Research Assistant, Laboratorio de Nanotoxicología y Genómica Funcional, CIMAV
🔬 Multi-omics meets fungal biology: decoding cytokinin signaling in Trichoderma atroviride
"Pursue excellence, and success will follow."
I work at the intersection of experimental biology, bioinformatics, and data science, specializing in:
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🌱 Fungal Development & Hormone Signaling
Multi-omics analysis of cytokinin signaling during fungal germination and morphogenesis. -
🧬 Functional & Comparative Genomics
Mining gene families and adaptive traits in fungi and extremophiles. -
🌿 Microbial Ecology & Metagenomics
Profiling soil and gut microbiomes using high-throughput sequencing and diversity metrics. -
🔁 Reproducible Data Science
Developing pipelines for RNA-seq, metagenomics, and genome annotation.
- Cytokinin-responsive transcriptomics in T. atroviride (Cinvestav)
- Complete high-quality genome of T. atroviride IMI206040 — secondary metabolism and lncRNA regulation during development (Cinvestav)
- Nanotoxicology of iron oxide nanoparticles in filamentous fungi and frijol pinto menonita (Phaseolus vulgaris) — tripartite plant–nanoparticle–fungus interactions in the context of arsenic/fluoride remediation (CIMAV, MCyTA program)
- BioCode Academy
📘 Bioinformatics Education Platform — Plataforma educativa dedicada a la formación en bioinformática, desde conceptos básicos hasta análisis avanzados
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🧄 Stromatinia cepivora Transcriptomics – Universidad de Guanajuato
Dra. Patricia Ponce Noyola & Dr. Alberto Flores Martínez -
🧬 CAMDA 2024/2025: Gut Microbiome Challenge – UNAM
Dra. Nelly Sélem Mojica & Dr. Shaday Guerrero Flores -
🌾 MicroAgroBiome 2.0: atlas evolutivo del metabolismo especializado en microbiomas de cultivos – CCM (UNAM) & Centro de Biotecnología FEMSA (Tec de Monterrey)
Dra. Adriana Haydeé Contreras Peruyero -
🔬 Genome Mining of Prauserella species – CCM (UNAM) & Universidad de Sevilla
Dra. Nelly Sélem Mojica & Dra. Paulina Corral Villa
Genomics Transcriptomics Metagenomics Genome Mining
Protein modeling Sequence analysis Phylogenetic analysis
BLAST GATK R Bioconductor Python Shell Git/GitHub Docker
Fungal Genetics PCR RT-PCR qPCR dPCR Microscopy
Protein Purification Cloning Heterologous Expression
Antibody Production
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🎓 PhD in Integrative Biology – Cinvestav (en proceso de titulación)
Cytokinin signaling in T. atroviride, Dr. Alfredo Herrera Estrella's lab -
🎓 MSc in Biological Sciences – Universidad de Guanajuato
Transcriptomics in Sclerotium cepivorum, graduated with highest honors -
🎓 BSc in Pharmaceutical Chemistry and Biology – Universidad de Guanajuato
Graduated with distinction
- 🎓 Mentor and instructor in molecular biology, chemistry, and bioinformatics
- 📘 Taller de Análisis de Secuencias y Modelado Proteíco — Programa de Maestría y Doctorado, Universidad de Guanajuato (2025)
- 📘 Workshop co-instructor in Transcriptomic, Metagenomic, Genome mining, and statistics with R
- 🧪 Active contributor to academic seminars and open-science education
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García-Estrada et al. (2024)
Diversity of bacterial communities in wetlands of Calakmul Biosphere Reserve: a comparative analysis between conserved and semi-urbanized zones in pre-Mayan Train era.
BMC Microbiology 24, 376 -
Aguilar, Fontove-Herrera, Pashkov, García-Estrada et al. (2026)
MicroAgroBiome: a toolkit for exploring specialized metabolism and ecological interactions in rhizosphere microbiomes of cultivated crops.
Nucleic Acids Research, 54(D1), D1743–D1752. -
Hernández-Figueroa, Herrera-Pérez, García-Estrada et al. (2026)
Nanopriming with Zn-doped MgO nanoparticles improves germination associated with redox homeostasis in common bean (Phaseolus vulgaris L.).
Environmental Science: Nano. -
García-Estrada, Ruvalcaba-Villagrán, Sánchez-Fonseca et al. (2026)
Phytohormones in fungi: inter-kingdom modulators or fungal self-controlling elements?
Microbiology and Molecular Biology Reviews, e00261-25.
- 🪵 Weekend woodworker
- 🍳 Experimental chef