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Abstract Detail


Genomics / Proteomics

Der, Joshua P. [1], Wolf, Paul G. [1].

Exploratory analyses of genomic sequences in the bracken fern, Pteridium aquilinum.

The development of genomic resources in ferns (i.e. monilophytes) has lagged far behind that in other plants, primarily due to the relatively large genome sizes and high chromosomes numbers found in ferns. Ferns are the second largest clade of land plants, and represent an important lineage for comparative studies examining various aspects of the evolution of land plants, including reproductive and life history strategies, genome structure and function, and the genetic/evolutionary consequences of polyploidy. While development of genomic tools has been focused on model organisms and crop plants, next-generation DNA sequencing technology promises to make genome-scale sequence data accessible in non-model organisms. Here, we present an early exploration into the genome of bracken, a representative of Dennstaedtiaceae, a clade emerging near the base of the modern (i.e. polypod) fern lineage. We utilize high-throughput short-read sequence data obtained from a half plate run on the Roche 454 Genome Sequencer FLX instrument and de novo assembled using MIRA, to examine gene density, organellar sequences, synteny, repetitive sequences (including transposable elements, simple sequence repeats, and gene duplications). Our assembled dataset consists of more than 25,000 contigs and more than 10 Mb of total consensus sequence. Additionally, we are in the process of developing genome-wide expressed sequences derived from gametophyte tissue.


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1 - Utah State University, Department of Biology, 5305 Old Main Hill, Logan, UT, 84322-5305, USA

Keywords:
Roche 454
Genome
monilophyte.

Presentation Type: Oral Paper:Papers for Topics
Session: 9
Location: Cottonwood B/Snowbird Center
Date: Monday, July 27th, 2009
Time: 8:45 AM
Number: 9003
Abstract ID:912


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