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kinoppyi authored Aug 12, 2024
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Expand Up @@ -14,29 +14,29 @@ As a PhD Student, I am examining the interactions between hosts and pathogens, s

**Host-Pathogen Interaction**: I study what happens during the infection of a plant by applying dual-RNA seq. When plants and pathogens interact with each other, many factors can influence the outcome of the disease. With my research, I want to understand these processes in the Cypress Canker Disease pathosystem, characterizing the gene expression of resistant and susceptible plants.

**Fungal Genomics**: Understanding how fungi cause disease is a key aspect of the genomic analyses I conduct in the context of plant pathology. Fungal genomiucs is a vibrant research topic within which it is possible to answer many questions of biological interest and reveal the secrets of these wonderful organisms.
**Fungal Genomics**: Understanding how fungi cause disease is a key aspect of the genomic analyses I conduct in the context of plant pathology. Fungal genomics is a vibrant area of research within which it is possible to answer many questions of biological interest and reveal the secrets of these wonderful organisms.

**Evolution and Coevolution**: One of the most interesting questions in biology consists in the understanding of the evolutionary mechanisms that lead certain organisms to become pathogens. When this aspect is further expanded, and we consider the reciprocal influence that pathogens and hosts exert on each other's populations, it allows to answer key question in the context of host-pathogen interaction. These answers provide key knowledge for a succesfull disease management.
**Evolution and Coevolution**: One of the most interesting questions in biology consists of the understanding of the evolutionary mechanisms that lead certain organisms to become pathogens. When this aspect is further expanded, and we consider the reciprocal influence that pathogens and hosts exert on each other's populations. This allows to answer key questions in the context of host-pathogen interaction, providing crucial knowledge for the succesfull management of plant diseases.

**Computational Biology**: I am a data analysis enthusiast. Since I took my first course on Statistics, I have never stopped coding! I have grown my skills over time and keep learning new computational methods as a passion. I mainly work with [Savio](https://research-it.berkeley.edu/services-projects/high-performance-computing-savio), which is the UC Berkeley computational cluster.
**Computational Biology**: I am a data analysis enthusiast. Since I took my first course on Statistics, I have never stopped coding! I have grown my skills over time and keep learning new computational methods as a passion. I mainly work with [Savio](https://research-it.berkeley.edu/services-projects/high-performance-computing-savio), which is UC Berkeley's computational cluster.

# My PhD Project
_My doctoral research focuses on understanding the host-pathogen interaction between Seiridium cardinale and Cupressus sempervirens. What are the genes involved in cypress resistance to Cypress Canker Disease (CCD)? How the effect of climate on gene expression during infection? These are some of the questions I try to answer._
_My doctoral research focuses on understanding the host-pathogen interaction between Seiridium cardinale and Cupressus sempervirens. What are the genes involved in cypress resistance to Cypress Canker Disease (CCD)? What is the effect of the climate on gene expression during infection? These are some of the questions I work to answer._

### Comparative Genomics
To assess the evolutionary relationship between Seiridium species, I am conducting a comparative genomics study. This analysis will help identify the genomic features that make Seiridium a lethal pathogen worldwide and explain why S. cardinale became a successful pathogen in the Mediterranean Basin.
To assess the evolutionary relationship between Seiridium species, I am conducting a comparative genomics study. This analysis will help identify the genomic features that make _Seiridium_ a lethal pathogen worldwide and explain why _S. cardinale_ has become such a potent pathogen in the Mediterranean Basin.

### Host-Pathogen Interaction
I apply Dual-RNA sequencing to study host-pathogen interactions. This involves inoculating cypress plants with Seiridium cardinale and extracting total RNA from infected tissues. The goal is to characterize the molecular pathways activated in resistant versus susceptible cypress clones post-infection.

### Climate Effects
To understand the impact of climate breakdown on the CCD pathosystem, I leverage California’s diverse climates. I placed sets of cypress plants in three locations:
To understand the impact of climate breakdown on the CCD pathosystem, I utilize California’s diverse climates. I placed sets of cypress plants in three locations:

- Coastal Area: Mediterranean climate with fog (18°C / 11°C)
- Bay Area: Mediterranean climate with cool summer (22°C / 12°C)
- Inland California: Mediterranean climate with hot summer (34°C / 14°C)

Plants are inoculated, and total RNA is extracted from symptomatic tissues to identify genes involved in the infection under different climatic conditions. This research aims to predict the impact of climate on cypress trees.
Plants are inoculated, and total RNA is extracted from symptomatic tissues to identify genes involved in the infection under different climatic conditions. This research aims to predict the impact of the climate on cypress trees health.

## Research Sites Map
_This map shows were the experiment sites are located._
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