Genetic Architecture and Simulation in Statistical Genomics

This lecture delves into the genetic architecture and simulation of phenotypes, exploring the distribution of gene effects, phenotype distributions, heritability, and more. Through detailed explanations and visual aids, the discussion covers topics like accumulation of gene effects, heritability, and the role of genes in determining phenotype outcomes. Various simulations and visualizations help understand how phenotypes exhibit normal distribution based on genetic factors. The content also touches on the impact of individual gene effects on phenotype variation, providing insights through examples and statistical analyses.

• Statistical genomics
• Genetic architecture
• Phenotype simulation
• Heritability
• Gene effects

mcal Follow

Uploaded on Mar 06, 2025 | 0 Views

Download Presentation

Please find below an Image/Link to download the presentation.

The content on the website is provided AS IS for your information and personal use only. It may not be sold, licensed, or shared on other websites without obtaining consent from the author.If you encounter any issues during the download, it is possible that the publisher has removed the file from their server.

You are allowed to download the files provided on this website for personal or commercial use, subject to the condition that they are used lawfully. All files are the property of their respective owners.

The content on the website is provided AS IS for your information and personal use only. It may not be sold, licensed, or shared on other websites without obtaining consent from the author.

Presentation Transcript

1. HOST-SYMBIONT POPULATION GENOMICS Intraspecific variability in methanogenic symbionts of marine anaerobic ciliates Facilitator: JOHANA ROTTEROVA, University of Rhode Island jrotterova@uri.edu Mentor: CORINNA BREUSING, University of Rhode Island Researcher: ROXANNE BEINART, University of Rhode Island 02/09/2022

2. HOST-SYMBIONT POPULATION GENOMICS archaea-eukaryotes symbioses in anoxic coastal sediments of New England populations of single host species isolated from various locations analyzing the intraspecific genetic variability of methanogenic archaeal endosymbionts of genus Methanocorpusculum hosted by a marine anaerobic ciliate Metopus sp. F25B

3. HOST-SYMBIONT POPULATION GENOMICS Goals Phylogenetic analysis of 18S/ITS/16S strain specific diversity of host and symbionts including publicly available environmental sequences Transcriptomics of host to create a reference for the genome Population genomics - genetic variability of symbionts within 1 host - 7 single cells/pop. - 15 pop./species - 1 species Napflin et al. 2019 DOI: 10.7717/peerj.8013

4. HOST-SYMBIONT POPULATION GENOMICS Timeframe from January 2022 to June 2022 What I hope to learn using HPC Andromeda vs Brown s HPC Oscar adapting scripts for new HPC and data type creating pipelines (using RCORRECTOR, TRINITY, TRIMMOMATIC, Spades, WINSTONCLEANER, GB Tools, RAST-TK, CHECKM, ..) developing github repository for the project (https://github.com/jorottero/Metopid_host-symbiont_popgen)

5. HOST-SYMBIONT POPULATION GENOMICS Goals for Next Month Move data from Brown to URI HPC Get all needed softwares Prepare scripts and pipelines Phylogenetic analyses Transcriptome assembly and optimization (challenge - contaminations, genetic code)

6. HOST-SYMBIONT POPULATION GENOMICS Help needed (if any) queues/priorities conda/mamba environment uploading needed softwares (RCORRECTOR, RAST-TK, WINSTONCLEANER ) interactive use

7. Acknowledgements Gaurav Khanna (URI) Kevin Bryant (URI)