With all the chaos in my brain right now jumping between projects that are all urgent, I am Yoda. My overarching goal for the summer is to keep momentum on postdoc projects and wrap a few up into preprints (at least).

April (and I guess May?) Goals recap

Green Crab Pilot Experiment:

• Investigated specific metabolite and lipid pathways

West Coast Green Crab Experiment:

• Finished all extractions, PCRs, and gels!
• Genotyped remaining 2023 crabs
• Revised TTR analysis with all genotype data

Cold Acclimation Green Crab Experiment:

• Planned this summer’s experiments!
• Tested experimental conditions
• Designed new SMC primers
• Tested new SMC primer protocol
• Designed a restriction digest

Killifish Methylation and Expression:

• Ran BAT_analysis and BAT_DMRcalling with new genome
• Reran analysis allowing for one sample to have missing data per treatment group
• Updated methods and results

Other:

• Planned and started recruited participants for the RIE2 hackathon!
• Advertised RIE2 database
• Booked flights and hotels for SEB
• Started workshopping NSF ORCC proposal ideas

June Goals

Green Crab Pilot Experiment:

• Finalize metabolomics analysis
• Finalize lipidomics analysis
• Update methods
• Update results

West Coast Green Crab Experiment:

• Genotype-specific mortality analysis
• Update summer notebook
• Identify samples for metabolomics and lipidomics sequencing
• Start manuscript

Cold Acclimation Green Crab Experiment:

• Develop heart rate protocol
• Obtain and label remaining MA crabs
• Genotype MA crabs
• Run MA experiment!
• Obtain and label WA crabs
• Start genotyping WA crabs

Killifish Methylation and Expression:

• Create general methylation figure
• DMR adjacency analysis
• Create DMR figure
• Identify SNPs in DMR
• Update methods
• Update results

Other:

• Make poster for SEB
• Continue developing ideas for NSF ORCC proposal
• Work on CEABiGR reviewer comments
• Finalize participant list for the RIE2 hackathon
• Plan RIE2 hackathon launch event

Deep Freeze

Things that are not immediate enough to be on the backburner, so they’re stuck in the deep freeze.

Coral Transcriptomics:

These are things I need to do and can probably knock out in a week, but I think they’re a lower priority right now for me since there’s more momentum on other projects.

• Revise abstract
• Write discussion
• Write introduction

Hawaii Gigas Methylation:

I’ll return to this when I have a good draft of the coral paper.

• Finish methylKit contingency tests
• Conduct a randomization test for DML identification
• Integrate other epigenetic datasets
• Update methods and results
• Revise discussion

Zebrafish DNMT:

I’ll think about this once I have a robust killifish paper draft.

• Identify a stress condition to use for the zebrafish based on disease factors or conditions that are known to induce changes in methylation
• Determine physiological endpoints to assess for embryos
• Construct a project timeline