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Open Access Research article

Protein evolution in two co-occurring types of Symbiodinium: an exploration into the genetic basis of thermal tolerance in Symbiodinium clade D

Jason T Ladner*, Daniel J Barshis and Stephen R Palumbi

Author Affiliations

Department of Biology, Stanford University, Hopkins Marine Station, 93950, Pacific Grove, CA USA

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BMC Evolutionary Biology 2012, 12:217  doi:10.1186/1471-2148-12-217

Published: 12 November 2012

Additional files

Additional file 1: Table S1:

Total number of sequence reads and average read length for each coral branch after quality trimming and adapter clipping.

Format: XLSX Size: 56KB Download file

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Additional file 2: Table S2:

Clade specific sequences used to quantitatively characterize Symbiodinium communities using high-throughput transcriptome sequence data.

Format: XLSX Size: 23KB Download file

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Additional file 3: Table S3:

Symbiodinium community characterizations with read counts broken down by individual loci.

Format: XLSX Size: 44KB Download file

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Additional file 4: Figure S1:

Correlation between estimates of Symbiodinium community composition.

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This file can be viewed with: Adobe Acrobat Reader

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Additional file 5: Table S4:

Read/contig counts at each step along the process of obtaining high-quality Symbiodinium de novo assemblies.

Format: XLSX Size: 10KB Download file

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Additional file 6: Table S5:

4-taxa (ABCD) analyses testing dN/dS along the clade D lineage.

Format: XLSX Size: 66KB Download file

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Additional file 7: Table S6:

3-taxa (BCD) analyses testing dN/dS along the clade D lineage.

Format: XLSX Size: 154KB Download file

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Additional file 8: Table S7:

4-taxa (ABCD) analyses testing dN/dS along the clade C lineage.

Format: XLSX Size: 67KB Download file

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Additional file 9: Table S8:

3-taxa (BCD) analyses testing dN/dS along the clade C lineage.

Format: XLSX Size: 59KB Download file

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Additional file 10: Table S9:

Results of the Gene Ontology enrichment analyses of four different subsets of orthologs.

Format: XLSX Size: 46KB Download file

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Additional file 11: Table S10:

Loci exhibiting significantly elevated and/or depressed dN/dS along both the clade C and clade D lineages.

Format: XLSX Size: 55KB Download file

Open Data