Saturday, September 7, 2019
Sunday, May 21, 2017
Pan-American Society for
Evolutionary Developmental Biology
August 19-23, 2017 University of Calgary
It's Canada 150th! All National parks are free, Calgary is will be celebrating,
so join the Celebrations!
REASON 1: The most exciting Evo Devo meeting I have ever attended with over 300 participants last year UC Berkeley!
The meeting was organized by Nipam Patel, Chris Lowe, Karen Sears, and myself and it brought in the "who's who" of evodevo. Many of my colleagues said this was the most exciting evodevo meeting they have attended! It mostly ran smooth with the exception that the poster boards blew over half way through!i
REASON 2: The talks are really exciting and broad: from animals and plants to unicellular organisms, from Canada to the USA to Latin America ... We are all Evo Devo!!
This cover by Nipam sums it all up! At these meetings we all have the chance to sit and listen to each other, different subdisciplines, and organisms weaving together the grand story of evolution and development.
A beautiful cover photo any Edward Zattara for the JEZB:MDE
Issue for EvoDevo in Latin America
The participants weaved together their own interests, we have a lot of work to do together to integrate all the sub disciplines of EvoDevo
REASON 3: Celebrate the contributions of the Pioneers and talented Early-career investigators of Evodevo. Last year we celebrated the contributions of Rudy Raff for the Pioneers Award and this year we celebrate those of Sean Carroll, who gave a keynote at last year's evodevo.
The amazing Chesea Specht presents Natalia Pabon-Mora with Early-Career Award
The renowned Greg Wray made the trip to PanAm from Singapore to present Rudy Raff with the Society's first Pioneer's Award
Neelima Sinha (left) and Sean Caroll (right) pose for a picture after their keynote addresses. Sean Carroll is this year's Pioneers Award winner.
REASON 4: The workshops are informative and discuss hot topics in our field.
We had workshops by leaders of Evodevo on Education, Women in Science, CRISPR, Evodevo in Latin America, and even more!
REASON 5: It's fun and stimulating to hang out with my cool EvoDevo colleagues and friends and discussing the depths of Evodevo!
There are two receptions and many opportunities to chat and catch up with your colleagues and friends!
Reason 6: I get to finally visit the marvelous and enigmatic Burgess Shale, something I have wanted to see !!!
Ever since the publication of Gould's This Wonderful Life I have wanted to visit the Burgess Shale! My dream is about to come true ...
Please register and join us this summer in Calgary! http://www.evodevopanam.org/2nd-biennial-meeting.html
Thursday, May 4, 2017
This week my former PhD student Rajendhran Rajakumar was visiting the lab to finish some experiments. He is a Postdoctoral Fellow in Martin Cohn's lab at the University of Florida chasing ancestral genetic potentials in sharks and will soon begin his second Postdoc at Harvard University in Nobert Perimon's lab where he will master the art of the fly before coming back to his beloved ants.
Rajee Rajakumar in Action at the Entomology Conference 2016
Rajee came back to finish some critical experiments for his next big paper. His enthusiasm and positive attitude renergized the lab, and we ate lots of sharwerma and fish and chips, so come back anytime Rajee!
Here is Rajee, master manipulating the ants:
Lets hope those experiments work! I love when my former students come back and I get the chance to see how they have matured and become independent scientists, it makes me feel very very proud, after all their success is my success ... We need more young and aspiring minds in Science. As for Rajee, I have no doubt he will reach for the stars and make it big, and soon I will be visiting his lab to learn new techniques and he will pay for my shawarma and fish and chips.
Welcome back Rajee!
04 May 2017
Sunday, October 2, 2016
Saturday, February 27, 2016
A conference titled "Genetic Control of Development and Evolution" was held at the Pasteur Institute in Paris in the autumn of 2015. The conference was a tribute to François Jacob for his contribution to the study of gene regulation. With the help of QCBS funding I was able to present my work at this conference.
My poster at the conference was about endosymbiotic bacteria of ants of the genus Camponotus. We show that the symbiont has driven major rearrangements in early egg development in order to ensure stable endosymbiosis and transmission to the next generation. I received excellent feedback at the conference that helped understand the data in a better light.
The conference was a broad update on gene regulation with reference to development and evolution. Since Jacob and Monod a lot has been learnt about gene regulation. Enhancers, the DNA elements that regulate the levels, timing and spatial extent of gene expression was one of the major themes of the conference. Many presenters showed how suboptimal binding sites make optimal enhancers wherein weak binding sites and ‘half’ binding sites play a major role in specificity of gene expression. Michael Levine of University of Berkley, uses artificial enhancers generated by mutating transcription factor binding sites and the spacing between them. He showed that native enhancers are weak in comparison to artificially generated optimized strong enhancers. The native enhancers are more specific, the stronger enhancers show mis-expression. Kenneth Zaret of the University of Pennsylvania showed that the recognition sites of Pioneer Factors (proteins that initiate release of chromatin bound DNA making it active) are half of the recognition sites of other transcription factors. This feature allows them to bind while allowing the other side of DNA to remain bound to histones. This binding is not sufficient and requires cooperativity and recruitment of other factors meaning many of these bindings are abortive, hence improved specificity. Justin Crocker from Howard Hughes Medical Institute - Ashburn, showed that in the shaven baby locus of Drosophila the relative affinity and specificity of binding sites have an inverse relationship implying that high affinity binding sites may actually bind other genes and decrease specificity. When he changes a low affinity site into a high affinity site it results in mis-expression. He also showed that in different species low affinity binding sites are poorly conserved but are functional in their respective contexts. Marion Guéroult-Bellone from CNRS Montpellier showed how in vitro expression assays are different from in vivo data in terms of levels of expression and reiterated a known fact that spacing between binding sites regulates levels of expression. François Spitz of EMBL Heidelberg showed that long distance enhancers act dynamically activating several genes at the same time where an appropriate TATA box is found at specific optimal distances from it. They use a reporter assay with one enhancer and test for all expressed regions of about 200 kbp region in both directions. If the enhancer was flipped, it affected a reporter at a similar distance in the opposite direction and resulted in a pattern mirroring its activity albeit only when appropriate TATA boxes fell in its range of activity. This pattern of activation is consistent with Topologically Associating Domains; meaning in 3D when a piece of DNA falls in the vicinity of another piece of DNA they interact regardless of their base-pair distance.
Another major theme of the conference was chromatin remodeling for gene regulation. Edith Heard from Curie Institute in Paris talked about mono-allelic gene expression in mammals. Repression of the X-chromosome copies in females is well-known, she showed that the X-chromosome that gets inactivated is randomly chosen such that two females, even if identical twins, are different. In addition there are two inactivation waves initiated by the Xist locus. The first one initiates early during development and is maintained throughout development, this one is initiated by the paternal locus. The second one is initiated at the blastocyst stage that initially kicks in both alleles and then stabilizes to persist in one allele inactivating it and not does not do so in the other allele that stays active. This means that females are mosaics due to random X-inactivation. Gerarld Crabtree of Stanford talked about BAF complexes that are polycomb repressor complexes (PRCs), which seem to be opposing both PRC1 and PRC2 regulating both assembly and disassembly of chromatin. Bluma Lesch of Whitehead Institute Cambridge, USA showed that developmental regulatory genes remain in the poised state in the Germline in which they contain opposing histone states H3K4me3 and H3K27me3 and are transcriptionally repressed. They continue in the poised state in the gamete stage and this phenomenon is conserved from drosophila to mammals.
A couple of interesting talks used transcriptome sequence analysis to establish relatedness of cells or tissues. Jacob Musser of EMBL Heidelberg used this method to test for relatedness between dinosaurs feathers/scales and bird feathers using scales on the feet of chickens. Principle component analysis of transcriptome sequences of chicken feathers, chicken scales (of feet), chicken nails, alligator scales, and alligator nails show relatedness between bird feathers (not scales of feet) with alligator scales. Alexander Van Oudenaarden of Hubrecht Institute, Utrecht has managed to find a way to separate single cells from the bone marrow blood precursors and RNA sequence them one cell at a time to look for shared expressed sequences. He then correlates their spatial proximity or distance with the number of shared genes. This analysis confirms some of known relationships in tissue precursors and points to spatial information in precursor cells of bone marrow, a site for multiple stem cells. Shahragim Tajbakhsh of Pasteur Institute – Paris showed that the shared program for development of the craniofacial muscles and esophagus muscles is not conserved in birds (birds do not need to chew and swallow). But interestingly basal animals (Ciona being one) have this program. He suggested that the birds might have lost it and more interestingly the craniofacial muscle developmental program may actually have been coopted from the esophageal program.
Patricia Wittkopp of University of Michigan does experimental evolution in Drosophila and yeast from different wild and lab sources. She has developed a system with two different cis-alleles for the same gene, each driving a different FP (red/yellow) in the same organism; meaning the same trans-acting background driving two different cis-alleles. Using this system she shows that there is higher cis-regulatory divergence in an evolving population, implying that cis regulatory divergence may be favored by natural selection. She also uses induced C->T and G->A mutations and compares them with natural occurring polymorphisms, which showed that natural polymorphism form a subset of induced mutations in terms of noise indicating that noise is selected against in natural selection.
Overall great fun and highly inspiring!
Monday, January 4, 2016
Saturday, November 14, 2015
Check out this video to see why the Abouheif Lab collects ants in the Sky Islands of Arizona. In short, Sky Islands are a replicated natural experiment for evodevo studies, a unique opportunity to study predictability of evolution in respond to past, present, and future climate change!