Ragweed transcriptome

Isoform and gene level transcriptomes for common ragweed.After filtering out low quality reads and sequencing adapters with Trimmomatic, a total of 11.8 million read pairs from a single genotype (from Oklahoma) were used in the transcriptome assembly with Trinity. After the primary transcriptome-assembly, we combined isoforms into contigs covering entire length of the genes. First, isoforms that were > 95% identical, potentially representing allelic splitting, were merged with CD-HIT, and the resulting contigs (93,857) used to make “SuperTranscripts” with Lace. The final gene-level transcriptome consists of 58,644 contigs with a E90N50 (N50 estimated for contigs comprising 90% of the total expression) of 2510 bp. The isoform (after CD-HIT) and gene (after LACE) level transcriptomes are provided.