From email communication with Alex and Micah.
1. Time of day and height 2016 (from calendar and field notes):
Case inlet: T July 19 12:15 -1.8
Skok: Wed July 20 11:51 -1.8
Willapa: Th July 21 9:28 -1.7
I believe Port Gamble was T July 19 11:11 -1.6 and Fidalgo Bay was W July 20 12:12 -1.7′
2. The animals were pretty uniformly placed ~0.5m from the sensors at the same tide height. We had instruments in all habitat patches but did not get data from all of them.
3. Oysters were young of the year – probably ~2 months old.
4. I hate questions like that. I would answer along the lines of "it was beyond the scope of this paper" which is true since this paper is a lot about the development of the method and exploring protein results, ya? I would love to see an analysis combining the different things that we measured but that is complicated. For one, I don’t think we did protein and fatty acid on all of the same individuals. I remember adjusting the samples to try to do the same oysters but can’t remember how much overlap there was. If you would like, we could see if looking at growth or FA helps interpret some of the patterns you talk about in the current paper.
Collection dates for the first outplant (June to July 2016) and the second outplant (July to August 2016):
07.19.16: Oysters collected from Case Inlet at ~12:15pm
07.20.16: Oysters collected from Fidalgo Bay at ~12:15pm, and from Skokomish at ~12:00pm
07.21.16: Oysters collected from Port Gamble Bay at ~12:30pm, and from Willapa at ~9:15am
8.17.16: Oysters collected from Case Inlet at ~11:45am
8.18.16: Oysters collected from Fidalgo Bay at ~11:45am, and from Skokomish at ~11:30am
08.19.16: Oysters collected from Port Gamble Bay at ~12:00pm, and from Willapa Bay at ~8:45am
The timing of dissections varied a little, depending on how many people were there to help, but I believe that they were always completed within 3hrs of collection. Alex – I know you did some solo dissections at SK/WB. Do your field notes/memories reflect a 3hr window?
The tidal height at PG, SK, and WB was roughly -1ft MLLW; at CI & FB it was roughly -2.5ft MLLW.
The instruments and oysters were very close to each other (photo from PGE attached). The lateral distance was less than 1m, and the tidal height was the same for the animals and the instruments.
The oysters were 2-3months old at the time of outplant.
Regarding the reviewer comments, you could respond by circling back to the central goals and questions of the proteomics work. From the perspective of WDNR, we wanted to explore whether proteomics could provide a tool to diagnose stress in a species of high ecological and economic importance. If the techniques developed through this project were used as a diagnostic tool on animals collected from the field, we wouldn’t know the growth rate of that animal – we’d have expression patterns only. So to me, it actually makes sense to confine the manuscript to proteomics.