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Developing a Genome Browser for a Non-model Vertebrate, Poecilia reticulata.

Title: Developing a Genome Browser for a Non-model Vertebrate, Poecilia reticulata. .
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Embargoed until Apr 22, 2020

Name(s): Kyle, Kathleen Elizabeth, author
Hughes, Kimberly A, author
Vera, Daniel L, author
Type of Resource: text
Genre: text
Date Issued: 2018-04-22
Physical Form: computer
Physical Form: online resource
Extent: 1 online resource
Language(s): English
Abstract/Description: Due to their high degree of color-polymorphism and well-known natural history, guppies have long been a popular organism to study in evolutionary biology as a model of adaptation and variation. They are not, however, a classic model organism and as such there are currently few tools available to assist in genomic analysis of this species. The advent of next-generation sequencing, with its increasing throughput, speed, and affordability, has allowed for the development of significant genomic resources for many species not previously studied at the genomic level. The guppy Poecilia reticulata has several such resources including an assembled genome and several RNA-seq data sets. Prior to this project, these varying data sets were in many different locations and in formats not easily interpreted without complicated software toolkits. A genome browser offers consolidated, graphical representation of large-scale genomic data that facilitates human interpretation of the massive amounts of genetic information in biological databases. The purpose of this research was to develop a genome browser representation of the P. reticulata genomic data using the UCSC Genome Browser features to serve as a permanent, integrated, and scalable data hub for researchers interested in this non- traditional model organism. This research also aimed to further annotate the genome by performing new analyses such as GC percent, genome coverage, and repetitive element masking on the existing data. The browser along with these annotations serves as a powerful tool for future research and as a step towards further integration of genomics and evolutionary and ecological study.
Identifier: FSU_libsubv1_scholarship_submission_1461312302 (IID)
Keywords: biology, visualization, genomics, computational biology, guppy, evolution, ecology
Persistent Link to This Record: http://purl.flvc.org/fsu/fd/FSU_libsubv1_scholarship_submission_1461312302
Owner Institution: FSU