| Abstract Detail
Comparative Genomics/Transcriptomics VIRE, JAMES [1], NOYES, RICHARD DAVID [1]. Transcriptome analysis of sexual, apomictic, and parthenogenetic genotypes in Erigeron (Asteraceae). Erigeron (Asteraceae) serves as a model for the study of different modes of plant reproduction. In addition to sexual reproduction, there are members within the genus that are capable of asexual seed reproduction via apomixis. This experiment develops rnaseq resources for Erigeron including transcriptome assembly, annotation, and functional characterization for closely sexual, apomict, and parthenogenetic genotypes. Multiple transcriptome assemblies were constructed for each reproductive type through de novo, genome-guided, or hybrid assembly approaches using Trinity and PASA. Quality metrics were obtained from RSEM. Analyses estimated a total gene count of 99702 (apomict), 90864 (parthenogen), and 47235 (sexual), which had 90341, 73350, and 24388 isoforms respectively. The N50 contig size was 1877 (apomict), 1958 (parthenogen), and 1595 (sexual), with 91.84%, 98.26%, and 97.72% of reads mapping to the transcriptomes as proper pairs respectively. Transcriptomes analyzed with BUSCO, revealed that the apomict, parthenogen, and sexual transcriptomes had 92.6%, 92.8%, and 75.9% of the 1440 orthologs queried, respectively. Comprehensive transcriptome annotation was carried out with Trinotate. These annotated assemblies provide insights into gene content and expression differences among the different reproductive types.
Log in to add this item to your schedule
1 - University Of Central Arkansas, Department Of Biology, Lewis Science Center 180, Conway, AR, 72035, USA
Keywords:
Asteraceae
Transcriptome
Bioinformatics
Erigeron
apomixis.
Presentation Type: Oral Paper
Session: 10, Comparative Genomics and Transcriptomics
Location: Fort Worth Ballroom 5/Omni Hotel
Date: Monday, June 26th, 2017
Time: 2:15 PM
Number: 10004
Abstract ID:529
Candidate for Awards:None |
