PMC

The un-rooted maximum likelihood tree was constructed using the proposed general time reversible (GTR) nucleotide substitution model with discrete gamma. Bootstrap replicate (n = 1000) recovery rates are shown at the internal nodes, when clusters were supported at a level of >80%. Scale = nucleotide substitutions per site.

Predicted signal peptides are shown in upper case and conserved amino acid sites are indicated by an asterisk (100% similarity) or a dot (90% similarity) below the alignment. The N-terminal signal peptide region and C-terminal cysteine-rich domain are underlined. Boxed amino acids show potential proprotein convertase (PC) cleavage sites, which recognize the consensus motif [R/K]-[R/K], or [R/K]-(X)n-[R/K], where n = 2, 4 or 6.

(A) Cluster of most down-regulated genes in thermally stressed M. faveolata showing fold changes, rank of most down-regulated genes, and clone IDs according to data available under GEO accession: GSE10630. (B) Heat map of log₂-transformed signal intensities of Amil-SCRiP gene expression shown as ratios of successive developmental stages. Pre-settlement = ratio of pre-settlment over prawn chip; Post-settlement = ratio of post-settlement over pre-settlement; Adult = ratio of adult over post-settlement. CloneID annotations are available under GEO accession: GSE11251. Note that same numbering does not imply orthology between SCRiPs from different coral species.