Urban Barcode Research Project Team Poison Frogs Team
Program:
Urban Barcode Research Project
Year:
2021-22
Research Topic:
Biodiversity & trade
Taxonomic Group Studied:
Animals: Vertebrate

Project:

Mitochondrial Phylogenomics versus Nuclear-Based Phylogenies of Poison Frogs: NGS-Based Mitogenomes, COX1 Barcodes, and Their Co
Students:
Ruby Lin, Ravindra Mangar
Institution:
St. John's University, Queens
Mentors:
Juan C Santos

Abstract:

The mitochondrial genome contains the COX1 gene used for barcoding in the molecular identification and systematics in a wide variety of species. Using mitogenomes derived from RNAseq data of 10 different poison frog species, we will estimate phylogenies based on the whole mitochondrial genome and only COX1 sequences. For this purpose, total RNA would be sent to GeneWiz for Next-Generation Sequencing. When data are returned, we will use bioinformatics to derive the mitochondrial genomes, annotate these sequences, and isolate the COX1 gene. Our host lab (Santos lab) will provide us with nuclear genes of the same 10 species in our project. We will compare the mitochondrial and COX1 phylogenies with the one derived from nuclear genes. For this purpose, we will analyze and contrast topologies, nodal supports, and tip (species) placement differences between all three phylogenies of this study. We expect to find that the mitogenome and the COX1 phylogenies agree in most comparisons.

Poster:

DNA Barcoding Poster
View team poster (PDF/PowerPoint)

Team samples: