Table 1.
Real-time PCR assays. Twenty-nine real-time PCR assays developed for the model reef coral Pocillopora damicornis and its endosymbiotic Symbiodinium populations were conducted with the triplicate biological replicates sampled at each of two temperature treatments [control (27 °C) and high (30 °C)] at each of two sampling times (2 and 36 weeks; n = 12 samples in total). When a significant correlation was documented between Illumina- and real-time PCR-derived data (P < 0.05), a ‘Y’ has been placed in ‘Correlation between techniques?’ column. When Illumina-derived expression of a gene was found to be up-regulated at high temperature, the sampling time(s) at which such a change was documented has/have been included in the right-most column
| Biological processGene (abbreviation) | Contig name/# | Compartment | Reference | Results-Table | Results – Fig. | Correlation between techniques? | Up-regulated at high temperature? |
|---|---|---|---|---|---|---|---|
| Metabolism | |||||||
| carbonic anhydrase (ca)† | comp301310_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S1a–c | Y | 36 weeks only |
| amylase | comp378549_c0_seq1 | Host coral | Mayfield et al. (2014c) | S2 | S1d–f | Y | 2 weeks only |
| transketolase | comp47495_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S3a–c | Y | |
| zinc-induced facilitator-like 1-like (zifl1-l) | comp47495_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S3d–f | Y | |
| nitrate transporter 2 (nrt2)† | Contig6284 | Symbiodinium | Mayfield et al. (2013a) | S3 | S3g–i | Y | |
| Molecular transport/redox balance/osmoregulation | |||||||
| ion transporter (iontrans) | comp1089337_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S1g–i | 36 weeks only | |
| sulfotransferase (sftase) | comp1050556_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S1j–l | ||
| mitochondrial carrier protein (mcp) | comp298112_c0_seq1 | Host coral | Mayfield et al. (2014c) | S2 | S1m–o | Y | 2 weeks only |
| voltage-dependent ion channel (vdic) | comp1050556_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S3j–l | Y | 2 weeks only |
| potassium channel (K+ channel) | comp517306_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S3m–o | Y | 2 weeks only |
| calcium channel (Ca2+ channel) | comp1535924_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S3p–r | Y | |
| Cell adhesion (host coral genes only) | |||||||
| lectin | comp19963_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S1p–r | Y | 36 weeks only |
| selectin | comp1535924_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S1s–u | Y | 2 weeks only |
| Photosynthesis (Symbiodinium genes only) | |||||||
| RuBisCO (rbcL)† | Contig12235 | Symbiodinium | Mayfield et al. (2012a) | S3 | S3s–u | Y | |
| photosystem I subunit III (psI)† | comp114066_c1_seq2 | Symbiodinium | Mayfield et al. (2012a) | S3 | S3v–x | Y | |
| phosphoglycolate phosphatase (pgpase)† | comp101919_c0_seq2 | Symbiodinium | Crawley et al. (2010) | S3 | S3y–aa | Y | |
| Stress response | |||||||
| heat shock protein 70 (hsp70)† | contig2062 | Host coral | Putnam et al. (2013) | S2 | S2a–c | ||
| cu-Zn superoxide dismutase (cu-zn-sod)† | comp2083_c0_seq1 | Host coral | Mayfield et al. (2014c) | S2 | S2d–f | ||
| heat shock protein 40 (hsp40)† | comp17042_c0_seq1 | Symbiodinium | Mayfield et al. (2014c) | S3 | S4a–c | Y | |
| heat shock protein 70 (hsp70)† | Contig 7114 | Symbiodinium | Mayfield et al. (2009) | S3 | S4d–f | Y | |
| heat shock protein 90 (hsp90)† | comp2083_c0_seq1 | Symbiodinium | Mayfield et al. (2014c) | S3 | S4g–i | Y | Both times |
| ascorbate peroxidase (apx1)† | comp90407_c0_seq1 | Symbiodinium | Mayfield et al. (2012a) | S3 | S4j–l | Y | |
| ubiquitin ligase (ubiqlig)† | comp784314_c0_seq1 | Symbiodinium | Mayfield et al. (2014c) | S3 | S4m–o | Y | 2 weeks only‡ |
| Glycoprotein | |||||||
| von Willebrand factor α (vwfα) | comp880232_c0_seq1 | Host coral | Mayfield et al. (2014c) | S2 | S2g–i | 36 weeks only | |
| DNA replication | |||||||
| DNA polymerase (DNAp) | comp144001_c0_seq1 | Host coral | Mayfield et al. (2014c) | S2 | S2j–l | ||
| chromosome segregation protein (smc-csp) | comp880232_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S2m–o | ||
| Other processes | |||||||
| green fluorescent protein-like chromoprotein (gfp-like cp) | comp818_c0_seq1 | Host coral | Mayfield et al. (2013d) | S2 | S2p–r | Y | 36 weeks only‡ |
| ciliary dynein (cildyn) | comp144001_c0_seq1 | Symbiodinium | Mayfield et al. (2014c) | S3 | S4p–r | Y | 2 weeks only |
| RNA helicase | comp324200_c0_seq1 | Symbiodinium | Mayfield et al. (2013d) | S3 | S4s–u | Y | 2 weeks only |
a-priori-selected (prior to assembly) target gene.
up-regulation corroborated by real-time PCR.