Identification of potential constitutive and tissue-specific promoters and regulatory motifs in Glycine max through datamining of publicly available sequence data

This is a study of gene regulation in soybean (Glycine max), specifically at the level of transcription. Analysis was performed on publicly available soybean EST data, deposited in the NCBI UniGene database, combined with the soybean genome sequence. EST libraries were grouped based on the tissue they were created from. Grouped libraries were selectively filtered to find constitutive, leaf-preferential (not in seed or seed coat), and root-specific transcripts. Transcripts were annotated using G. max and Arabidopsis thaliana databases. Gene ontology term enrichment tools were used to visualize the functions of abundant transcripts for the constitutive, leaf-preferential and root-specific groups. Promoter motif analysis was performed on the promoters for the most highly expressed transcripts of each expression category. The analysis identified many probable constitutive, leaf-preferential and root-specific promoters, as well as several over-represented motifs.

Name thesis:degree_name

M.S.

Level thesis:degree_level

Thesis

Discipline thesis:degree_discipline

Bioinformatics

Grantor

University of Illinois at Urbana-Champaign

Year dc:date

2013

Author dc:creator

• Keating, Kathleen

Contributors dc:contributor

• Hudson, Matthew E.

• bioinformatics
• transcription
• datamining
• regulatory motifs
• soybean
• promoters

Statement dc:rights

• Copyright 2012 Kathleen Keating

Language dc:language

en

Handle dc:identifier

http://hdl.handle.net/2142/42489

OAI identifier oai:identifier

oai:www.ideals.illinois.edu:2142/42489