Nematostella Care

Protocol for care during non-experimental time

For the next few weeks, I’ll be helping take care of Nematostella vectensis anenomes in our lab. These anemones are clonal lines from individuals collected from various marshes in Massachusetts and North Carolina. By familiarizing myself with the animals a bit more, I’ll have a better idea of what capacity we have for future experiments.

Preparing to feed

  1. Grab the brine shrimp eggs from the freezer and head down to the Nematostella room
  2. Disconnect the air line for the live shrimp and clip to the aerator. Let the shrimp settle for a few minutes such that the unhatched eggs remain on the top.
  3. Obtain a large glass dish for live brine shrimp, a filter, and a small glass container to hold the filter. Place the filter in the small glass container.
  4. Place the aerator on a shelf and carefully drain only the live shrimp into the glass container. Pour the live shrimp into the filter.
  5. Rinse the live shrimp in the filter with half-strength seawater, then fill the container with half-strength seawater.

Feeding

To feed the anemones, squeeze 3-7 drops of shrimp into the various holding containers. The number of drops depends on the size of the container. It’s best to place shrimp near anemones that have longer extended tentacles. Since the anemones are not being experimented with currently, they do not need to be fed an exact amount. The anemones can always be checked a few minutes after they are fed to see if there are still live shrimp remaining, or to add extra shrimp.

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October 2021 Goals

gibbs

After a month-long vacation, I’m in Woods Hole and I’m now a Postdoctoral Scholar :open_mouth: So as much as I’d like to be like Gibbs and leap over my responsibilities like a flying loaf of bread, it’s time to get back to it and make the most of the next 18 months.

August Goals Recap

Gigas Gonad Methylation:

  • Addressed reading committee edits!

Hawaii Gigas Methylation:

-Addressed reading committee edits! I was pretty low on time (and energy) so I didn’t do more than the minimum requirements

Dissertation:

  • Format published chapters using Huskydown in this Github repository. There were several things that were a bit annoying to figure out since I needed to use Latex for certain things like tables, but now I have a pretty nice template for individual papers.
  • Submitted my dissertation and it was approved!

Other:

  • Cleaned out office and reorganized -80ºC freezer
  • Put a plan together for finishing remaining projects

October Goals

Gigas Gonad Methylation:

  • Revisit genes with DML and association with enrichment
  • Update methods and results
  • Rework discussion to include more direct comparisons to other oyster methylation papers

Hawaii Gigas Methylation:

  • Clean up any remaining comments
  • Send manuscript to Maria to get methods information
  • Email Rajan and ask for input
  • Review DSS script and determine if I should go back to methylKit for better interpretation
  • Extract SNPs with EpiDiverse and create a relatedness matrix
  • Look at methylation islands and non-methylated regions
  • Examine overlaps between DML and other epigenomic datasets from Sascha

Coral Transcriptomics:

  • Review Maggie’s extraction protocol and previous work
  • Determine if metatranscriptomics, metabolomics, and/or methylation analysis are viable options

Other:

  • Complete onboarding
  • Think about goals and potential projects for postdoc
  • Outline a project for NSF PRFB and contact letter writers
  • Identify additional papers for ocean acidification and reproduction review
  • Complete review for Scientific Data

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Dissertation!

I learned how to use R Markdown and Latex together to format my final dissertation! Repo can be found here: https://github.com/yaaminiv/dissertation

Things that were annoying to figure out: table formatting, figure formatting, making things horizontal vs. vertical.