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Post-doctoral position available: Neural crest development in Xenopus

Posted by on November 20th, 2012

SCHOOL OF BIOLOGICAL SCIENCES, UNIVERSITY OF EAST ANGLIA


 


POST DOCTORAL RESEARCH ASSOCIATE POSITION AVAILABLE


 


Neural Crest Development in Xenopus


 


£30,122 to £35,938 per annum


 

A Post Doctoral Research Associate position to investigate the Regulation of Neural Crest development by transcriptional pausing is available in the lab of Dr. Grant Wheeler, School of Biological Sciences, University of East Anglia.

 

The neural crest (NC) is a multipotent stem cell-like population that migrates and differentiates into many cell types within the developing embryo. The drug Leflunomide has been identified by ourselves in collaboration with others, as inhibiting neural crest development in Xenopus embryos as well as inhibiting melanoma growth in mouse xenograft assays (White et al. 2011). Leflunomide is proposed to act by blocking elongation during RNA polymerase II mediated transcription. Transcriptional pausing and elongation have recently been implicated in regulating stem cell differentiation and have been shown to be dependent upon chromatin modification. This project will expand upon these results to further understand the role of transcriptional pausing and elongation in regulating Neural Crest development. The work will be carried out in the lab of Dr. Grant Wheeler (grant.wheeler@uea.ac.uk).

 

White RM, Cech J, Ratanasirintrawoot S, Lin CY, Rahl PB, Burke CJ, Langdon E, Tomlinson ML, Mosher J, Kaufman C, Chen F, Long HK, Kramer M, Datta S, Neuberg D, Granter S, Young RA, Morrison S, Wheeler GN, Zon LI. (2011) DHODH modulates transcriptional elongation in the neural crest and melanoma. Nature. 471:518-22

 

You must have a PhD or equivalent qualification in molecular developmental biology and fulfil elements of the person specification. This full time post is available from 1 February 2013 and is available for at least 21 months.

 

Closing date: 12 noon on 18 December 2012.

 

Further particulars and an application form are available on our website: www.uea.ac.uk/hr/jobs/ or Tel. 01603 593493 (Ref: RA900)
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PhD position available: The role of microRNAs in neural crest development

Posted by on November 20th, 2012

SCHOOL OF BIOLOGICAL SCIENCES, UNIVERSITY OF EAST ANGLIA


 


PhD POSITION AVAILABLE


 


The role of microRNAs in neural crest development


 

MicroRNAs (miR) are short, non-coding RNAs around 22 nucleotides long. They block gene expression either by translational repression or by causing the degradation of the mRNAs they bind to. They are involved in controlling various mechanisms during development by regulating gene expression at the post-transcriptional level. Some are highly conserved amongst diverse organisms and many of them have highly specific spatio-temporal expression patterns during development.

 

The Neural Crest (NC) are multipotent cells that arise at the border between the ectoderm and the neural plate. They give rise to tissues such as craniofacial muscle, peripheral and enteric nerves and pigment cells. In adults NC derived tissues can give rise to neuroblastoma and melanoma. We have been interested in studying neural crest development for a number of years.

 

We have recently carried out a project determining the expression patterns in Xenopus embryos of 195 miRs by wholemount in situ hybridisation (WISH). Some of these miRs showed expression in the NC.

 

The aim of this project will be to further characterize the expression of these miRs in NC as well as using Next Generation Sequencing (NGS) to identify other miRs expressed in NC and to then look at the function of some of these during NC development and to identify the target mRNAs they bind to.

 

White RM, Cech J, Ratanasirintrawoot S, Lin CY, Rahl PB, Burke CJ, Langdon E, Tomlinson ML, Mosher J, Kaufman C, Chen F, Long HK, Kramer M, Datta S, Neuberg D, Granter S, Young RA, Morrison S, Wheeler GN, Zon LI. (2011) DHODH modulates transcriptional elongation in the neural crest and melanoma. Nature. 471:518-22

 

Muhammad Abu-Elmagd, Carla Garcia-Morales and Grant N. Wheeler (2006). Frizzled 7 mediates canonical Wnt signalling in neural crest induction. Developmental Biology, 298:285-298

 

 

Deadline for application November 30th 2012


For further info contact Dr. Grant Wheeler


Email: grant.wheeler@uea.ac.uk

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Postdoctoral Position in Skeletal Patterning

Posted by on April 10th, 2012

A postdoctoral position studying skeletal development is available in the laboratory of Dr. Amy Merrill at the University of Southern California’s Center for Craniofacial Molecular Biology (CCMB).  CCMB offers a highly supportive and interactive environment with a strong research profile in craniofacial development and repair.  Work conducted in the Merrill laboratory integrates human genetics and developmental biology to study normal and abnormal craniofacial development.  We are looking for an enthusiastic candidate who will carry out an independent research project aimed at understanding spatiotemporal signals that pattern bone and cartilage.  Ideal applicants will be highly motivated and have recently completed doctoral training in Developmental Biology.  


Please provide a cover letter, CV, and contact information for three references by email to: amerrill@usc.edu

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A wave from Quintay

Posted by on January 31st, 2012

The International course on Developmental Biology was a great experience, both instructive and mind-opening. All the students were shuttled to the remote and very small fishing village of Quintay, where the CIMARQ, the investigation centre where the course took place, is located. Originally a whaling station, this centre is dedicated to the instruction of professionals in the area of marine resources and has various branches of research mainly based in repopulation strategies of different species ranging from Sea Urchins to the delicious Conger eel or Sole fish. Their main objective is to provide small scale fish-farming to the general community. In fact, on the day of our arrival, after a Lecture on the history of and the main, original questions in Development by Dr. Roberto Mayor, we were given a short practical on Sea Urchin gamete harvesting and fertilization. This was followed by a very instructive tour of CIMARQ and its various projects, from seaweed culture (which is the main source of food for Sea Urchins) to the Conger and Cole fish tanks (see below). This course was unique in that it covered a wide range of developmental models instead of focusing on one or two: Throughout the twelve days of the course we had two days of each: Zebrafish, Xenopus, Planarian, Drosophila and Chick (plus a symposium and a first day tour). While including such a variety of different models may seem too optimistic (especially for just two days of each!), the truth is that the course was a huge success as proved by the fact that most of the experiments were successful. Our day schedule started with lectures and lab work in the morning. Then lunch, after which we spent most of the time in the lab and, after dinner, everyone attended presentations, by students, about their research. This part (the presentations) was a very good innovation this year and, given its success, it will probably continue in future courses. The discussions were very productive, and, from a student’s point of view, it was great having peak scientists listening, criticizing and suggesting experiments for my research. It was also good to share our areas of research between students since it was very different from the casual exchange of area of research in informal gossip. So, on to the course.

Zebrafish module

Zebrafish was coordinated by Dr. Kate Whitlock. The first Lecture was on Zebrafish basics (rearing and genetics) and embryo morphology. We then proceeded to the lab in which work consisted of cataloging the effects of different concentrations of alcohol in zebrafish development by observation under dissecting microscope of live embryo general morphology and craniofacial development. Afterwards, we carried out an immunohistochemistry protocol for the detection of neuron and neural crest markers so as to further characterize the effects of ethanol in early development. To sum up the results, I would say that the message ¨Vertebrate development and alcohol don’t mix¨ was extremely clear: The deleterious effects on general and craniofacial development were patent even without the need for immunohistochemistry. The second lecture by Kate focused on neural crest development and how neural crest cells migrate and interact with the neural tube and placodes to give origin to the olfactory system At the lab, we studied gene expression of three main neuron and neural-crest marker genes (shh, sox10 and six4b) using in-situ hybridization. Finally, we observed fluorescent-tagged transgenic lines and we compared the results with those of immunohistochemistry and hybridization.

Xenopus module

Xenopus was the next chapter in this course and, again, experiments were very successful (albeit with a lot of effort). We began with a lecture from Dr. John Gurdon on the history of Xenopus as a Development model and classic experiments followed by a focus on the regulation of induction by molecule gradients. In the lab, we tried some of those same experiments ourselves: After a brief introduction by Roberto Mayor on egg collection and fertilization, we injected GFP mRNA into two, four and eight cell embryos. The next step was to create Nieuwkoop recombinants by separating vegetable and animal poles from different embryos and then setting them one against the other so that the vegetable pole would induce growth and mesoderm tissue in the animal pole. The following task was to graft neural crest tissue from GFP labeled neurulas into normal ones. Although it took some practice, after a few hours we successfully observed neural crest cells migrating under the ectoderm. On the second day, Roberto took the stand for a lecture on the post-fertilization phenomena of the Xenopus embryo and on the development and function of the neural crest. The final (and most challenging) experiment was to perform a Spemann organizer graft. After about five or ten minutes of dissection, John Gurdon displayed, with a proud smile, a clean and very neat graft. Although John definitely made it look easy, I had like four or five embryos which attest to the contrary. This was the price of success however as, although most of us agreed that it was harder than it looked, we managed to come up with several grafts which, at least, looked quite tidy. Due to a power shortage (and consequent rise in temperature of the incubator) we were unable to photograph many of those embryos, but the truth is that we were all very satisfied with our achievements.

Planarian module

Planarian was an interesting module in that it is a relatively new model and that we didn’t focus on embryogenesis but on regeneration instead (although we did have a very interesting lecture on planarian embryogenesis, which involves very rare and interesting processes). Planarians have unparalleled regeneration capacities and can regenerate a whole organism from a very small portion of the parent planarian. Dr. Alejandro Sánchez Alvarado was the scientist who established planarians as research models and it was great having him! Alejandro’s lecture on the establishment of planarians as regeneration research models and the similarities and differences between regeneration and embryogenesis was astounding. In the lab, we started out by cutting up worms in as many ways as we could think of. Over the following days, we got to see strange or downright weird forms of planarians as they regenerated the parts we had cut off. A second experimental part of this module consisted of dissociating cells, staining with Hoechst and observing  the cellular morphology of neoblasts (stem cells) among other cell types. In the third part we observed the differences in target proteins and tissue-specific markers between worms under normal conditions and worms either treated with RNAi or cut in half. I particularly enjoyed taking photos of these last worms showing the progressive regeneration of these systems and comparing the velocity and sequence of events that lead to the new worms. This was one of my favorite modules since I didn’t practically know anything about planarians past what I studied in an early zoology course (which seemed boring at the time) and, now, I can’t read enough about them!

Drosophila module

This module was taught by Drs Trudi Schüpbach, Eric Wieschaus and John Ewer. The first lecture, by Eric Wieschaus, was an interactive talk about fly genetics and fly crossing. We discussed the screen with which he identified genes that regulated embryogenesis. This was incredible and very instructive, because most of the time, we read about results without taking into account the real work that had to be done to obtain them. In the lab, we carried out several observational experiments: We were given embryos from unknown crosses and had to hypothesize what the parents´ phenotypes were by peeling embryos or bleaching them, followed by immersion in halocarbon oil or fixing in hoyers mountant. Another part of the practical consisted of analyzing mRNA expression (or localization) and observing embryo morphology and movement using transgenic lines. With the help of Trudi Schüpbach, we  also dissected ovaries and looked at oogenesis in transgenic lines with either GFP-tagged histones or a membrane-bound GFP. The second day, lead mainly by John Ewer, we focused on later stages of development. John gave a lecture about larval growth, physiology and metamorphosis concentrating on the reorganizing of the neural system during the pupal stage. In the lab we learned how to locate and remove imaginal discs from 3rd instar larvae and we watched the retraction and regrowth of sensory neuron axonal arbors and dendrites during the pupal stage Worthy of mention was Eric’s incredible enthusiasm with experiments and his loud cheering when the results were revealed (captured in photo). For me, all of the faculty of the course were extremely good professors: Their lectures were very clear and they were all very open to questions or doubts and were very watchful and helpful in the lab. Eric, however, was something else. I can’t actually explain how or why, but, as an example, he took it upon himself to single handedly sharpen most of our pincers to ease embryo peeling and larval dissection!

Chick module

The chick embryo was the last model and one of the most challenging, not only because of the complexity of dissection and grafting, but also because of how tired we were. After learning how to set up New cultures, we performed two experiments: Node grafts and cutting embryos in half. The first experiment, which is analogous to the one done in Xenopus, was intended to demonstrate how Hensen’s Node induces other tissues. In the second experiment we separated posterior and anterior halves of the embryo and observed their development, since the cells of each half reorganized and redefined the embryo axis. As professor Claudia Linker pointed out, in both of these experiments we had an impressive success rate (>90%), something most of us were very proud of! Additionally, we learned two other very useful techniques which were applied on embryos that were not removed from the egg: Embryo injection with either DNA or a fluorescent label and electroporation of the DNA-injected embryos. Although the success rate was lower, we did get to see some embryos with pretty neat dye labels and even a few good electroporations. Claudio Stern gave two more lectures on the molecular regulation and timing of neural specification and induction and a very interesting and comprehensive one integrating molecular and cellular processes that control, occur during and give rise to gastrulation.

Summing up…

As a student, I was extremely grateful to have had the opportunity to participate in this course. All the faculty were extremely helpful, friendly and sympathetic. In my experience, the closest I can get to scientists of the stature as the faculty of this course is by asking questions at lectures (if I’m extremely lucky). Sharing at least two days with them was very productive and actually giving them) a short presentation was incredible! I was given very good advice on how to guide my research and I also had some very interesting questions (the sort of that great minds usually ask)! Apart from the advantages/tricks/advice I learned for the model I currently work with, this course was very mind-opening: I learned about models that I practically had never heard of before and I feel comfortable about working, for example, with Zebrafish , Xenopus or Chick, three models I never though I would do experiments with! I’m currently thinking about how I can relate my research to one of these models and, hopefully, get my hands dirty working a few months in a lab which uses such models. I would strongly recommend this course for anyone with a strong curiosity and willing to take a look ¨outside the box¨. Please contact me at gersabio@gmail.com if you have any particular doubts about the course or this article and this is the course website: http://biodesarrollo.unab.cl/I wanted to shout out a special thanks for the three organizers: Alfredo Molina, Ariel Reyes and Roberto Mayor, without whom this course would not have occurred, for their dedication and very good will.


Germán Sabio
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Interview with Beddington Medal winner Carlos Carmona-Fontaine

Posted by on May 11th, 2011

Each year, the British Society for Developmental Biology awards the Beddington Medal for the best PhD thesis in developmental biology. At the 2011 BSDB meeting, this award went to Carlos Carmona-Fontaine, who completed his PhD in Roberto Mayor’s lab at UCL. Now a postdoc at Sloan-Kettering Institute in New York, Carlos returned to the UK to present his thesis work at the BSDB meeting. He gave a brilliant talk that included comparisons between insect migration and neural crest cell movement, as well as an auditory interpretation of the effect of chemo-attractants on harmonic collective cellular movement. Everyone in the audience (including Carlos’ parents!) enjoyed the talk immensely. I caught up with Carlos at the end of the conference to talk a bit more about locusts, music, and the trick to a successful PhD thesis.

Congratulations on the Beddington Medal. What was your thesis about?

Thank you. My thesis was about neural crest migration. Neural crest cells are a cell population in the embryo that can differentiate into different kinds of cells. But before differentiating, they have to migrate, and the way they do that is as a group of cells. This is called collective migration. What was interesting to me was that neural crest cells seem to be able to self-organise in order to get this coherent, co-ordinated movement, so I studied which kinds of cell-cell interaction allow for these coherent group movements.

Your Beddington talk yesterday covered a lot of ground. You were even talking about locust migration. What do locusts have to do with cells?

I had found a paper in Current Biology, by the group of Iain Couzin, about locust collective movement. I noticed that the kind of interactions they described were so similar to the interactions I was finding in neural crest cells, that I thought similar rules may apply, and we started collaborating.
Obviously locusts are very different to cells, but in mathematical terms the interactions between locusts or between migrating cells are very, very similar. If you look at attraction and repulsion, for example, “attraction” in insects could be a visual cue, whereas in cells it could be a chemo-attractant, but at the end of the day, mathematically speaking, they are the same thing: simple interactions that allow collective movement.

Besides locusts and cells, you also included some music in your talk. Can you explain what that was about?

One of the striking things of collective movement is not only that the cells remain together, but that they move in a coordinated way. I considered this to be harmonic movements, and was thinking of a way to represent that.
Then I heard a concert by Steve Reich. He’s a 21st century composer – one of my favourites. He has this piece called “Drumming”, which is only percussion. There’s a specific moment with a lot of xylophones and some drums, and they all seem to coordinate in this very random pattern. I was just amazed by this piece.
This gave me the idea of representing cell coordination in a similar way. It ended up as something a lot less musically pleasing than what Steve Reich does, but the idea came from there.

What are you doing now? Are you still working on neural crest cells?

No. I started a postdoc in New York about a month ago, and there I will eventually work on computer models of tumour growth. But the project is not entirely defined yet, and the idea is to explore a little bit at this point.

Do you have any advice for new PhD students?

Don’t stress, have fun – and pay attention to mathematical, and more quantitative means of biology. Even if you’re not an expert in mathematics, you can still try to get some inspiration from more physical and mathematical points of view. And have fun.


Read more:
ResearchBlogging.orgCarmona-Fontaine, C., Matthews, H., Kuriyama, S., Moreno, M., Dunn, G., Parsons, M., Stern, C., & Mayor, R. (2008). Contact inhibition of locomotion in vivo controls neural crest directional migration Nature, 456 (7224), 957-961 DOI: 10.1038/nature07441

Bazazi, S., Buhl, J., Hale, J., Anstey, M., Sword, G., Simpson, S., & Couzin, I. (2008). Collective Motion and Cannibalism in Locust Migratory Bands Current Biology, 18 (10), 735-739 DOI: 10.1016/j.cub.2008.04.035
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Mapping the cardiac neural crest in the frog’s heart

Posted by on April 27th, 2011

The Node’s staff asked me to write a short “behind the scenes” on our paper just released in the May 15 issue of Development, “Cardiac neural crest is dispensable for outflow tract septation in Xenopushttp://dev.biologists.org/lookup/doi/10.1242/dev.061614

In the summer of 2008 when Dr. Young-Hoon Lee joined my laboratory from Chonbuk National University for a sabbatical we discussed a number of potential projects, and very quickly decided to analyze the contribution of the neural crest to the cardiovascular system in Xenopus laevis. This was a project that we considered several years earlier when Dr. Lee was a postdoc in my lab, but at the time Young-Hoon opted for a different line of research. To address this question we started using the lipophilic dye DiI to label the putative cardiac neural crest in neurula stage embryos. We found that the label cells were consistently excluded from the outflow tract septum. We were a little skeptical about this result, because of what we know of the cardiac neural crest in other species, but mostly because only a small number of neural crest cells is being labeled by DiI injection, and we could not exclude the possibility that unlabelled neural crest cells were contributing to the outflow tract septum. We then decided to move to a tissue transplantation system, where entire segments of the neural crest from RFP-labeled embryos were grafted onto an unlabeled host embryo. These experiments are not trivial and I have to give credit to Young-Hoon for his persistence and exceptional technical skills. Again in these experiments RFP-labeled neural crest cells were exclusively confined to the aortic sac and arch arteries and never populated the outflow tract cushions, confirming our initial observations using DiI. Consistent with these observations, upon cardiac neural crest ablation the outflow tract and the spiral septum developed normally and expressed the molecular markers specific to these lineages. This was a surprise. In chick and mouse the cardiac neural crest provide the separation for the systemic and pulmonary circulations at the arterial pole, remodeling the outflow tract into two vessels by forming the aorticopulmonary septum. In zebrafish where there is no separation between both circulations cardiac neural crest cells contributes myocardial cells to all regions of the heart. In Xenopus we were expecting to find something that was in between fish and amniotes. This is not the case - in frogs cardiac neural crest cells stop their migration before entering the outflow tract. Our next challenge was to determine the embryonic origin of Xenopus outflow tract septum. We were greatly helped in this quest by a recent study from the group of Michael Kuhl at Ulm University (Germany) that carefully mapped the cardiogenic lineages in Xenopus (Gessert and Kuhl. 2009. Dev Biol 334: 395-408). By transplantation of GFP-labeled regions of the cardiogenic mesoderm we found that the septum was derived from the second heart field, presumably by epithelial-to-mesenchymal transformation of the endocardial cells lining the cardiac cushions.

The picture below shows a lateral view of a host Xenopus laevis embryo after transplantation of both an RFP-labeled neural crest graft (red) and a GFP-labeled second heart field graft (green).



How to explain these differences in the deployment of cardiac neural crest across species? With a single ventricular chamber the separation of the pulmocutaneous and systemic blood is incomplete in frogs. Therefore a possible explanation is that in species that have an evolutionary need for a fully divided circulation the neural crest was recruited into the outflow tract septum to help complete the separation of both circulations at the arterial pole of the heart.
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In Development this week (Vol. 138, Issue 9)

Posted by on April 12th, 2011

Here are the research highlights from the current issue of Development:

Cranial neural crest development: p53 faces up


The tumour suppressor p53 plays multiple roles in the prevention of cancer but its developmental functions are less clear. Here (see p. 1827), Eldad Tzahor and colleagues elucidate the key role that p53 plays in craniofacial development. During embryogenesis, cranial neural crest (CNC) cells give rise to the facial bones, cartilage and connective tissues. Neural crest development involves an epithelial-mesenchymal transition (EMT) that converts epithelial cells into migratory mesenchymal cells, which delaminate from the neural tube. Notably, EMT is an early step in tumour progression. The researchers report that craniofacial development is disrupted in p53 knockout mouse embryos. Then, they show that p53 is expressed in CNC progenitors in chick embryos but that its expression decreases as these cells delaminate from the neural tube. Moreover, p53 gain-of-function results in fewer migrating CNC cells, whereas p53 loss-of-function increases the EMT/delamination of CNC cells. These and other findings suggest that p53 coordinates CNC growth and EMT/delamination processes during craniofacial development.



Oiling the wheels of Hippo signalling


The Hippo signalling pathway, a conserved tumour suppressor pathway, is involved in other developmental processes in addition to proliferation control. For example, Hippo signalling in the posterior follicle cells (PFCs) of Drosophila ovaries is required for oocyte polarisation. Now, Trudi Schüpbach and colleagues report that a phospatidylinositol 4-kinase (PI4KIIIalpha), which catalyses the production of membrane phospholipids, is required in PFCs for oocyte polarisation and Hippo signalling (see p. 1697). The researchers isolated mutations in CG10260, which encodes PI4KIIIalpha, while screening for Drosophila genes required in follicle cells for oocyte polarisation. They show that PI4KIIIalpha loss in PFCs leads to oocyte polarisation defects similar to those caused by mutations in the Hippo signalling pathway, and that PI4KIIIalpha mutations cause misexpression of Hippo targets. Notably, the apical membrane localisation of Merlin, which is required for Hippo signalling, is lost in PI4KIIIalpha mutant PFCs, presumably because of changes in the cell membrane’s lipid composition. Together, these data reveal a new link in the Hippo signalling pathway.



Nu-age transposon silencing


The nuage, a perinuclear structure of unknown function, is present in the germline cells of many organisms. Now, on p. 1863, Haifan Lin and colleagues reveal a function for the Drosophila germline nuage. This structure contains Aubergine and Argonaute 3 (AGO3), two of the three PIWI proteins that are essential for germline development. PIWI proteins bind to PIWI-interacting RNAs (piRNAs) and function in transposon silencing. The researchers report that Partner of PIWIs (PAPI), a novel nuage component, is a TUDOR-domain protein that interacts with all three PIWI proteins through symmetrically dimethylated arginines in their N-terminal domains. This interaction is essential for AGO3 recruitment to the nuage and for transposon silencing. Importantly, the AGO3-PAPI complex associates with the P-body component TRAL/ME31B complex in the nuage and transposon activation occurs in tral mutant ovaries. Thus, the interaction in the nuage between the piRNA pathway and mRNA-degrading P-body components is involved in transposon silencing. The researchers suggest, therefore, that the nuage safeguards the germline genome against deleterious retrotransposition.



Invading heart morphogenesis with NFATC1


During cardiac morphogenesis, proepicardium cells envelop the myocardium to form the epicardium. Some epicardial cells subsequently undergo epithelial-to-mesenchymal transformation and invade the myocardium as epicardium-derived cells (EPDCs). This invasion step underlies the formation of the coronary vessels and fibrous matrix of the mature heart but how is it regulated? Michelle Combs, Katherine Yutzey and co-workers now reveal that NFATC1 promotes EPDC invasion into myocardium (see p. 1747). NFATC1, they report, is expressed in EPDCs in mouse and chick embryos and loss of its expression in EPDCs in mice decreases coronary vessel and fibrous matrix invasion into the myocardium. Other experiments in mouse embryos, chicken embryo hearts and isolated proepicardium cells indicate that NFATC1 activation by RANKL in EPDCs promotes expression of the extracellular matrix-degrading enzyme cathepsin K, promoting EPDC invasion into the myocardium. These new insights into heart morphogenesis, the authors suggest, could aid the development of EPDC-based therapies for cardiac diseases.



Timely neural identity decision making


The timing of cell identity decisions must be closely regulated during brain development. In Drosophila neuroblasts, the sequential expression of several transcription factors, including Hunchback (Hb), controls the temporal generation of diverse neural progeny. Because Hb is necessary and sufficient to specify early-born neurons, its expression has to be downregulated to allow specification of late-born progeny. Now, on p. 1727, Chris Doe and colleagues report that two pipsqueak-domain proteins – Distal antenna (Dan) and Distal antenna-related (Danr) – restrict Hb expression in neuroblasts and limit the numbers of early-born neurons. They show that Dan and Danr function independently of Seven-up (Svp), an orphan nuclear receptor that also regulates Hb expression in neuroblasts. Importantly, Hb misexpression can induce Dan and Svp expression in neuroblasts, which suggests that Hb can limit its own expression through a negative-feedback loop. The researchers conclude that Dan/Danr and Svp act in parallel pathways to limit Hb expression and allow neuroblasts to switch from making early-born to making late-born neurons at the proper time.



Longitudinal axon connections notched up


Development of the segmented central nerve cords of vertebrates and invertebrates involves the formation of longitudinal axon connections between successive segments. To establish these connections, a pathway must be marked for pioneer axons to follow and then the pioneers’ motility along that pathway must be promoted. But what are the molecular mechanisms that control these processes? On p. 1839, Edward Giniger and co-workers show how Notch signalling directs both processes in the developing Drosophila CNS. They show that canonical Notch signalling in specialised glial cells causes the extrusion of a mesh of fine filopodia by nearby differentiating neurons and shapes this mesh into a carpet that links adjacent segments. Simultaneously, non-canonical Notch signalling in the pioneer growth cones suppresses Abl tyrosine kinase signalling, which stimulates filopodial development and presumably also reduces substratum adhesion, thereby promoting the ability of pioneer axons to follow the carpet across segment borders. Thus, two parallel but separate Notch functions establish the first longitudinal connections in the fly CNS.



And…


Review: Small RNAs in early mammalian development: from gametes to gastrulation



Small non-coding RNAs, such as microRNAs, endo-siRNAs and piRNAs, are expressed throughout mammalian development and, here, Nayoung Suh and Robert Blelloch review emerging roles for these RNAs in the early stages of mammalian development, from gamete maturation through to gastrulation.


See the review article on p.1653

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The amazing neural crest

Posted by on March 9th, 2011

The power of stem cells lies in the ability to give rise to many different cell types.  The stem cells found in the neural crest are no exception, and a recent Development paper describes the importance of Foxd3 in maintaining self-renewal and multipotency of these stem cells, and in regulating the fate choice of these cells.


After neural tube formation in the embryo, neural crest cells begin their migration away from the neural tube.  These cells generate a wide variety of differentiated cell types, including neurons, melanocytes, bone, smooth muscle, and cartilage.  Neural crest stem cells can be found in the neural crest population, yet the players regulating their self-renewal and multipotency were not yet understood.  Mundell and Labosky just reported the importance of a single protein – the forkhead transcription factor Foxd3 – in cell fate choice of the neural crest stem cells.  Without Foxd3, cells adopted more mesenchymal fates and cranial neural crest defects appeared.  In addition, Foxd3 mutant cultures of neural crest stem cells gave results showing that Foxd3 is important for maintaining the self-renewing and uncommitted multipotent state of the stem cells.  Image shows an 11.5 dpc cranial neural crest cell population with (left) or without (right) normal levels of Foxd3.  Without Foxd3, the increased appearance of Sox9 (red), marking osteochondral progenitors, suggests accelerated differentiation towards mesenchymal cell fates.



For a more general description of this image, see my post on EuroStemCell, the European stem cell portal.



BONUS!  The stunning unpublished image below, from the authors, shows a section through the headfolds in an 8-somite stage mouse embryo, with Foxd3 (red) and neural crest cells (green) labeled.




ResearchBlogging.orgMundell, N., & Labosky, P. (2011). Neural crest stem cell multipotency requires Foxd3 to maintain neural potential and repress mesenchymal fates Development, 138 (4), 641-652 DOI: 10.1242/dev.054718
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Phenologs and unlikely models

Posted by on September 1st, 2010

ResearchBlogging.org“You’re probably wondering why I’m here”, were the first words of Edward Marcotte’s talk at the SDB meeting last month. After all, he was about to speak about systems biology in a session on organogenesis. What followed was not only a new way to identify genes involved in developmental processes, but also a perfect example of the kind of unexpected discoveries that can be made using publicly available data.

Edward Marcotte is a bioinformatician at the University of Texas at Austin. His lab introduced the concept of phenologs to discover non-obvious disease models and candidate genes, and at the SDB meeting, as well as in a recent paper, he described exactly how “non-obvious” some of those models are: If a yeast model for angiogenesis doesn’t sound unlikely enough, the group also proposed a plant model for Waardenburg syndrome!

The concept behind phenologs is that a set of genes related to a phenotype in one organism may correspond to an orthologous set of genes in another organism. Orthologues are homologous genes between different species, but this does not necessarily mean that the same gene is linked to the same phenotype in both organisms. Marcotte looked at groups of orthologues: If a group of genes is linked to a certain phenotype in one organism, and that same group results in another phenotype in a second organism, then those two phenotypes are phenologs.


The concept of phenologs. (Figure 1B in the PNAS paper.)



In one practical example from the paper, known gene-phenotype associations from yeast were compared with known gene-phenotype associations from mice, using information from publicly available yeast and mouse genome databases. This showed that many genes that are associated with abnormal angiogenesis in mice have orthologous genes in yeast. Of course yeast doesn’t have a circulation system, so these genes can’t possibly be associated with angiogenesis in yeast, and indeed they’re not: In yeast, these same genes are involved in sensitivity to the hypercholesterolemia drug lovastatin. This suggests that lovastatin sensitivity in yeast could be a model for angiogenesis in vertebrates. To prove this, follow-up experiments showed that the transcription factor SOX13, which was identified as lovastatin-sensitive in yeast, is required for vascular development in Xenopus.

Even more surprising than finding angiogenesis genes in yeast, is that a similar comparison of phenologs suggests a plant model for Waardenburg syndrome. This disorder is caused by impaired neural crest development, and is marked by pigmentation defects and craniofacial malformations. Phenologs showed that many genes associated with Arabidopsis failing to grow in response to gravity (gravitropism) were orthologous to human genes mutated in Waardenburg syndrome, which suggests that other gravitropism genes may serve as starting points to look for other factors involved in neural crest migration.

While I was listening to this talk, I wondered whether the people who did the original yeast lovastatin screens could ever have imagined their data being used to find a new factor involved in angiogenesis. And the groups that identified gravitropism-related genes in Arabidopsis must never have thought that this could even remotely have anything to do with Waardenburg syndrome in humans! It illustrates exactly why it’s important to make data from screens and large-scale studies available to others: You often only use a small amount of the data, and buried among the rest of it is information that could be useful to people you’d never expect would benefit from it! The data in public databases speeds up research and opens up new subjects of investigation, and that is exactly why it’s there.

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