Open Access Highly Accessed Research article

Transcriptome characterization and polymorphism detection between subspecies of big sagebrush (Artemisia tridentata)

Prabin Bajgain1, Bryce A Richardson2, Jared C Price3, Richard C Cronn4 and Joshua A Udall1*

Author Affiliations

1 Plant and Wildlife Science Department, Brigham Young University, Provo, UT 84602, USA

2 Rocky Mountain Research Station, USDA Forest Service, Provo, UT 84606, USA

3 Computer Science Department, Brigham Young University, Provo, UT 84602, USA

4 Pacific Northwest Research Station, USDA Forest Service, Corvallis, OR 97331, USA

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BMC Genomics 2011, 12:370  doi:10.1186/1471-2164-12-370

Published: 18 July 2011

Additional files

Additional file 1:

Distribution of protein domain vs number of contigs. The number of contigs on Y-axis represents total number of contigs that had a match against a protein domain. Only the top 25 most common domains (of 3065 domains found) are illustrated in the figure.

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Additional file 2:

The distribution and sequences of putative sagebrush homologs of enzymes involved in terpenoid and coumarin synthesis pathways. The data consists of contigs of each subspecies annotated as terpenoid and coumarin pathway enzymes, as well as the contigs that resulted from combined assembly. The nucleotide sequences of the putative genes (contigs from the combined assembly) have also been included in the file.

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Open Data

Additional file 3:

A list of contigs containing discriminatory SNPs between ssp. tridentata and ssp. vaseyana including contig name, SNP position, base for each subspecie, read count per base, flagged contigs with >13 SNPs, and SNPs that were found to be heterogeneous when the parameter of homogeneity was raised to 99%.

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Additional file 4:

Additional details of SSRs including frequencies of di- and tri-nucleotide repeats.

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Additional file 5:

Details of SNP and SSR primers used for polymorphism validation and the list of big sagebrush individuals used during the project.

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Additional file 6:

Results for SNP validation during sequence capture.

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