Data from: Microsatellite analyses across three diverse vertebrate transcriptomes (Acipenser fulvescens, Ambystoma tigrinum, and Dipodomys spectabilis)

Doyle JM, Siegmund G, Ruhl JD, Eo SH, Hale MC, Marra NJ, Waser PM, DeWoody JA

Date Published: July 28, 2014

DOI: http://dx.doi.org/10.5061/dryad.49s43

 

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Title Ambystoma tigrinum gill transcriptome contigs
Description We extracted RNA from the gills of three A. tigrinum individuals. cDNA libraries were sequenced on a 454 Genome Sequencer. Sequences from all gill libraries were pooled and assembled into contigs using PCAP.
Download salgill.txt (4.368 Mb)
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Title Ambystoma tigrinum lung transcriptome contigs
Description We extracted RNA from the lungs of six A. tigrinum individuals. cDNA libraries were sequenced on a 454 Genome Sequencer. Sequences from all lung libraries were pooled and assembled into contigs using PCAP.
Download sallung.fasta (9.369 Mb)
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Title Ambystoma tigrinum skin transcriptome contigs
Description We extracted RNA from the skin of three A. tigrinum individuals. cDNA libraries were sequenced on a 454 Genome Sequencer. Sequences from all skin libraries were pooled and assembled into contigs using PCAP.
Download salskin.txt (3.480 Mb)
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Title Ambystoma tigrinum spleen transcriptome contigs
Description We extracted RNA from the spleens of six A. tigrinum individuals. cDNA libraries were sequenced on a 454 Genome Sequencer. Sequences from all spleen libraries were pooled and assembled into contigs using PCAP.
Download salspleen.txt (8.347 Mb)
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Title Dipodomys spectabilis kidney transcriptome contigs
Description We extracted RNA from the kidneys of 4 individuals. Kidney cDNA libraries was sequenced on a 454 Genome Sequencer. 454 sequence reads from all kidney samples were pooled and assembled into contigs using PCAP.
Download KRATKidney.contigs.bases.fasta (10.98 Mb)
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Title Dipodomys spectabilis spleen transcriptome contigs
Description We extracted RNA from the spleens of 4 individuals. Spleen cDNA libraries were sequenced on a 454 Genome Sequencer. 454 sequence reads from all kidney samples were pooled and assembled into contigs using PCAP.
Download KRATSpleen.contigs.bases.fasta (11.74 Mb)
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Title Acipenser fulvescens ovary transcriptome contigs
Description We extracted RNA from the ovary of a single individual. The cDNA library was sequenced on a 454 Genome Sequencer and reads were assembled into contigs using PCAP.
Download female_contigs.fasta (18.93 Mb)
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Title Acipenser fulvescens testes transcriptome contigs
Description We extracted RNA from the testes of a single individual. The cDNA library was sequenced on a 454 Genome Sequencer and reads were assembled into contigs using PCAP.
Download male_contigs.fasta (2.855 Mb)
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Title Assembly summary statistics
Download assembly summary statistics.xlsx (11.58 Kb)
Download README.txt (658 bytes)
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Title Contig msatcommander output
Download contig msatcommander output.xlsx (668.7 Kb)
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Title Microsatellite variability
Download microsatellite variability.xlsx (10.38 Kb)
Download README.txt (658 bytes)
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Title Singleton msatcommander output
Download README.txt (658 bytes)
Download singleton msatcommander output.xlsx (1.853 Mb)
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When using this data, please cite the original publication:

Doyle JM, Siegmund G, Ruhl JD, Eo SH, Hale MC, Marra NJ, Waser PM, DeWoody JA (2013) Microsatellite analyses across three diverse vertebrate transcriptomes (Acipenser fulvescens, Ambystoma tigrinum, and Dipodomys spectabilis). Genome 56(7): 407-414. http://dx.doi.org/10.1139/gen-2013-0056

Additionally, please cite the Dryad data package:

Doyle JM, Siegmund G, Ruhl JD, Eo SH, Hale MC, Marra NJ, Waser PM, DeWoody JA (2013) Data from: Microsatellite analyses across three diverse vertebrate transcriptomes (Acipenser fulvescens, Ambystoma tigrinum, and Dipodomys spectabilis). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.49s43
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