Shotgun proteomics of thermally challenged Caribbean reef corals (NCEI Accession 0227133)

In this work, I took a proteome profiling approach to characterize the cellular biology of 16 coral samples from a laboratory-based thermal stress experiment. The specific goal of this work was to uncover proteins involved in the high-temperature response of the Caribbean reef coral Orbicella faveolata from three sites in the Florida Keys National Marine Sanctuary.
Coral colonies from two inshore (Cheeca Rocks [UKI1] & The Rocks [UKI2]) and one offshore reef (Little Conch [UKO2]) were cored in situ, with cores later brought to the “Experimental Reef Laboratory” (PI Ian Enochs, NOAA) housed at the University of Miami’s Rosenstiel School of Marine and Atmospheric Sciences (RSMAS). After laboratory acclimation, the samples were exposed to either 33°C for 5 days or 32°C days for 31 days, with control corals maintained at 30°C. Proteins were extracted from a subset of samples representing multiple coral genotypes exposed to the experimental treatment conditions for 5 or 31 days and sequenced with nano-liquid chromatography followed by mass spectrometry. In this submission, I have uploaded a draft of the manuscript describing these data (“Mayfield et al. Coral Reefs;” with the formal publication likely to be published in 2021), 16 RAW files generated by the mass spectrometer, 16 MZML (open-access mass spectrometry mass peak data) files, 16 MZID (open-access mass spectrometry results) files, and a tab-delineated file that describes which samples were analyzed ("Mayfield et al. online supplemental data file"). This file also contains a worksheet that defines field-specific jargon and explains how to interpret the output from the analytical instrument (the Q Exactive™ mass spectrometer from Thermo-Fisher Scientific). I have also uploaded the supplemental material that accompanies the to-be-published article since it includes all methodological details. The peak data were queried against both conceptually translated O. faveolata and Symbiodiniaceae dinoflagellate transcriptomes (described in Aguilar et al. in review); both (as fasta files) have been uploaded, as well.