September 2023 Goals

September 2023 goals and daily notebook entries.

Goals

Writing and manuscripts

  1. Write methods for histology manuscript
  2. Re-submit sediment stress to PeerJ
  3. Submit Astrangia review to Coral Reefs
  4. Full draft of dissertation proposal

Sample processing

  1. RNA extractions for AH - HI 2023
  2. Physiology processing for developmental time series 2023
    • Carbs
    • Lipids
    • Proteins
    • Cell counts
  3. Initial cell counts for Astrangia 2021
    • Count 20 samples and see how variable they are after homogenizing 2x

Data analysis

  1. E5 deep dive - lncRNA and miRNA
  2. Astrangia mRNA analysis

Daily log

September 11

  • Extracted RNA for AH samples (extraction post here)
  • Lab writing meeting
  • HW for writing class

September 12

  • Wrote paragraph for Astrangia review paper to link Astrangia biology and ecosystem management
  • Facilitated DIBP workshop (Fundamentals)
  • Writing class

September 13

  • Assisted Hollie w/ packing for HI
  • Redid figures and tables for sediment stress minor revisions
  • Lipid prep w/ Flo and Lauren

September 14

  • TERs for Hawaii and Bermuda – back to Colleen Travis
  • Catching up on emails (sediment stress, committee)
  • Writing methods for chapter 3 (developmental acclimatization) in dissertation proposal
  • Test of lipid assay on PCR plate – the reagents did not melt the plate, hooray!
  • Class

September 15

  • Lipid test assay w/ Lauren and Flo. Assay was a success!
  • Lab meeting

September 16

  • Extracted RNA for AH samples (extraction post here)

September 18

  • Revised Astrangia lit review manuscript and remade figure 3
  • Wrote biological hypotheses for my chapters 2 and 3 for dissertation proposal
  • Writing proposal meeting
  • Putnam lab writing meeting
  • Hawaii spawning meeting w/ Ariana and Ford
  • Hawaii 2023 data meeting w/ Ariana, Andrei, and Jen

September 19

  • Worked on biological hypotheses for proposal
  • Wrote out methods for chapter 4
  • Meeting w/ Ariana

September 20

  • e5 group paper discussion
  • Attempted to run standard curve for lipid assay, did not work
  • Resubmitted sediment stress to PeerJ
  • Worked on proposal timeline
  • Started sample desiccation for lipid assay tomorrow

September 21

  • Lipid assay test w/ Lauren. Tested assay w/ a variety of volumes for input material. Didn’t work but now we know why. We need to dilute the samples (keeping the same volume) and treat the standards like samples after the lipid extraction
  • Wrote methods for histology manuscript
  • Admin stuff for PeerJ submission

September 22

  • Carb assay w/ Lauren
  • Meeting w/ Amelia about parachute science DIBP workshop
  • E5 molecular mechanisms meeting
  • Lab meeting
  • Tape station on 4 samples that failed Qubit
  • Outline histology manuscript intro

September 24

  • Answered emails
  • Made tapestation notebook post

September 25

  • Ran 6 plates of soluble protein
  • Wrote prelim code for protein analysis
  • Lab writing meeting

September 26

  • Ran 2 plates of soluble protein
  • Meeting w/ Ariana - decided to elute in 65 uL to concentrate RNA
  • Ran lipid assay

September 27

  • Worked on dissertation proposal and outlined experiment for chapter 4
  • Facilitated DIBP workshop

September 28

  • Half day
  • Worked on biological hypotheses for chapters 2&3

September 29

  • Writing meeting w/ Ariana
  • Lab meeting
  • Worked on biological hypotheses for dissertation proposal
Written on September 11, 2023