Wednesday, August 31, 2011

Alas, a lack!

Ah... after a summer of interviewing and negotiating, the faculty position in the school of pharmacy fell through and I'm back on the job market - not that I ever really left completely.  In many ways, I'm bummed because I liked the people, it seemed like a supportive and collaborative environment, and I am tired of applying for jobs.  At least this happened now... its that season - academic job market season.  Full of wishful ads and piles of applications currently labeled 'TO DO'. The season seems to have started a little early this year.  Last year the deadlines huddled around October and November, the year before October to December. Now deadlines are well into September. 

My mentors all seem optimistic now that I've got a Science paper and it looks like I'll have a paper in press very soon in a Nature Publishing Group journal (in revision after good reviews but not yet accepted).  Optimism is a very nice luxury when its not you that has to wait to be weighed against a deep pool of candidates.  I do hope that they're right.  I guess here's to hoping.

Monday, August 8, 2011

Developmental Biology - Frog day

Sparked by journal club discussion today, I'm going to try to finish plugging the DMC Developmental Biology Workshop.  In case you're interested, we discussed a Science article on establishing anterior-posterior polarity when planarians regenerate ... in human-speak, how the a flatworm determines whether to make a new head or tail.  We were disappointed that in the end, they found a player in the mechanism but didn't actually find the way the heads or tail decision is made.  :-(   But... to come back to the workshop, my experience cutting and hacking at planarians to make a 2 headed worm helped me evaluate, understand and critique the paper.

So... Frog Day.  We had a preview of the slimy, squirmy critters the day before when we helped collect eggs and testes.  Frog day was dedicated to the frog embryo.  It was an amazing nod to the cutting-edge and to history.

32-cell stage frog embryos

First was a look forward. One can imagine that as the embryo cleaves, that you just pinch the existing membrane around the cytoplasm to get many new cells.  To test this, we inhibited the actin cytoskeleton during cleavage - the mechanism by which the membrane 'pinches' along the cleavage furrow.  Without actual cleavage and fascinating thing occurs - white stripes start appearing in the pigmented animal half.

What are these stripes - they're new membrane that is being laid down during cleavage.  So its not just a pinching.  New material must also be added.  Interestingly, as time continues, the orientation of the would-be cleavages are preserved.  This is most likely because the mitotic spindle orientations remain uninterrupted.

In the afternoon, we went back in time to revisit THE classic frog developmental biology experiment - the Spemann Organizer.  This is an embryo manipulation experiment in which pieces of embryos are transplanted.  I never in a million years thought I would recreate this landmark experiment.  Yet, some how I successfully excised a piece of the dorsal lip - through which cells invaginate during gastrulation.  Then transferred the piece of dorsal lip into a new embryo in an attempt to make a second access - a Siamese twin.  We also did a modification of this experiment with later stage neurula-stage embryos.  I did eight transplants hoping to have some survive and one actually twin.  Well, I got 3 to twin to varying degrees!!  One of them was even better than a twin.  I made a triplet.  The easiest way to count heads is to look for a black dot, called the cement gland - this helps the tadpole attach to the bottom until its able to swim.

Hall of fame from the class.  The one in the middle with 2 visible black dots is mine.

Twinned neurula (earlier stage).  Note that the future notochord (line down the middle) splits near the bottom.
 Successfully completing these experiments made the gift from the instructors even more amazing -- every participant got a Hans Spemann spider plant.  Spider plants constantly make new plants as offshoots that resemble spiders hanging on threads (thus the name).  I now have an offshoot of an offshoot of an offshoot, etc, originating from a spider plant in Hans Spemann's office.  An amazing legacy that I hope to continue with any developmental biology students that come to work in (hopefully) my future lab.  I've already started a lineage with an african violet which served as a thesis present for some of my best friends from graduate school.  For a marine biologist, I seem to have a soft spot for cloning plants.

Wednesday, August 3, 2011

the waiting game part 2

Science is often a game of rush, work, rush, work, then wait...  Get proposals in, then wait months to hear if you got money to do more science.  For deep-sea research, you plan for months, get on a ship, throw instruments in the water and wait... hoping the instruments will be there and have worked when you return to pick them up.  If all went well, at the end of all that waiting, you'll have a brilliant data set to write up for an article.  Submit the manuscript and then wait... wait to hear from the editor, wait to hear from the reviewers... wait to hear from the reviewers again... Well, part two of the publishing waiting game is over.  I got the first round of reviews back. Overall... I'm quite happy. Great reviews - text edits and maybe one minor experiment.  As a co-author said, especially "positive in today's era of vicious reviewing."

Side note on vicious reviewing.  A couple of articles have popped up recently addressing the state of scientific review. But they're not harping on author misconduct or missing a technical flaw.  Instead the articles have a new perspective - a reviewer's job is advance science, not to tear it down, not to write the ms yourself, and not to advance your own career.  But it is so much easier to "destroy than to construct."

A quick guide to writing a solid peer review (Co-author is Kimberly A. Nicholas, DISCCRS V) – EOS – July 12, 2011 -