Valeria Yartseva was the winner of last year’s Society for Developmental Biology (SDB) meeting poster competition. Her prize was to attend the spring meeting of the British Society for Developmental Biology (BSDB), held jointly with the British Society for Cell Biology at the University of Warwick in the UK. Continuing the interview chain, Valeria interviewed Mathew Tata, who won the poster prize at the meeting. Matthew’s prize will be to attend the SDB meeting in Boston, USA, in the summer.

VY: Congratulations on winning the BSDB poster prize Mathew.

MT: Thank you very much!

VY: Can you tell us a little about your lab?
MT: I work in the lab of Professor Christiana Ruhrberg at the Institute of Ophthalmology, at University College London, in the UK. As a lab we work on the development and disease of blood vessel growth. In particular, I work on the development of the mammalian brain. I want to understand how brain vessels are involved in brain development and how they may contribute extrinsic signals.

VY: How long have you been in this lab?

MT: Too long! I have overstayed my welcome and have been there for 4 years now.

VY: That is actually quite short for the States. That is considered being an over-achiever!

MT: Yes, I guess it is quite normal.

VY: Could you briefly tell us what your poster is about?

My poster is about how the vasculature is important in stemness within the mammalian CNS. The interaction between blood vessels and Vascular Endothelial Growth Factor with stem cells in the adult has been well characterised.  However, very little is known about their role in the embryo. I wanted to know whether there was any correlation between the blood vessels and neural development in the embryo, and specifically the effect of blood vessels in embryonic neuroprogenitor cells. I showed that there was a spatiotemporal correlation between embryonic neurogenesis and blood vessel growth. In addition, I discovered that if you take away blood vessel growth in the embryonic hindbrain using mouse mutant models, neuroprogenitor cells rapidly exit the cell cycle and terminally differentiate, and this impairs the growth of that area of the nervous system.  We haven’t yet identified the candidate niche molecule, but we have a few ideas.

VY: That sounds really fascinating. What is the single experiment that you are most proud of?

MT: They have all been equally painful! I would say that the first time I actually observed neuroprogenitor cell processes interacting with vessels was very exciting.  Everything I had seen up until then was highly ambiguous, so it was nice to confirm that I was in the right area and was looking at the problem from the right perspective. There is still much to be learnt about it though!

VY: Have you won a poster prize at a meeting before?

MT: I only won one at my university, but that was a small affair, nothing at this scale. So I am a bit humbled.

VY: What is next for you?

MT: That is the 10 billion dollar question! I am still very much in love with research and I really enjoy being at the bench. But there are other things that interest me as well, like communication and I especially enjoy teaching. At the moment I am just enjoying pursuing my thesis and trying to get a paper out (as the old story goes). I think I will be looking at postdocs for sure.

VY: And will you be attending the SDB meeting later this year?

MT: Absolutely!

VY: Thank you so much, this has been a pleasure!

MT: Thank you!

(9 votes)

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8th Young Embryologist Network Conference

27th May 2016

09:15-18.00 UCL Institute of Child Health

Registration and abstract submission are now open!

The 8th Young Embryologist Network Conference aims to bring together developmental biologists from across the UK (and beyond) to discuss their work.

This year, YEN is honoured to have Professor Paul Martin from the University of Bristol present The Sammy Lee Memorial Lecture. As well as three talk sessions and a poster break, we will also have imaging session to discuss the latest advances in microscopy and live imaging techniques. Additionally, we have included a novel session to discuss the recent development over human and mouse embryology that will be presented by Dr Srinivas (University of Oxford) and Dr Niakan (The Francis Crick Institute).

As in previous years, this meeting is completely free thanks to the generosity of our sponsors: The Company of Biologists, New England Biolabs, REGEN, F1000, Cambridge Bioscience, Promega and UCL Institute of Child Health.

We are looking for talks and posters from PhD students and Post-docs on Evo-Devo, Stem Cell and Developmental Biology

The deadline for abstract submission is Midnight 5th of May 2016.

For more information go to our website!

(2 votes)

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What is Bento Lab?

Bento Lab is a minimal molecular biology laboratory, containing the essentials tools for genetic analysis. There’s a centrifuge, a PCR thermocycler to copy DNA, and a system for gel electrophoresis, to visualise DNA.

How was the idea of Bento Lab born?

Bento Lab was born out of a series of workshops and projects that my co-founder Bethan and I undertook since 2012. We were very interested in exploring how different groups outside of academia and industry interacted with emerging biosciences, groups such as artists and designers, parents and teachers, and hobby scientists. In particular, we were fascinated by the maker community, a growing network of enthusiasts engaging with electronics, computing and other technologies as a hobby. In molecular biology, a small but growing community of Do-it-yourself biologists was emerging, analogous to the maker community. We thought this was very interesting and could potentially play a really interesting role of fostering hands-on literacy for topics like genetics.

But we noticed quickly, that the community was still in its infancy. There were many interesting open hardware projects, but for many newcomers the lack of guidance could be a bit frustrating. Seemingly every week, emails would be sent to the mailing list asking how to get started. Because there were no easy to use and affordable starter tools, for many their initial spark of interest didn’t turn into a longer-term hobby. Bethan and I saw a real need for an infrastructure for engaging with molecular biology as an ambitious beginner, something that could accompany you on the journey from someone with an interest to a seasoned citizen scientist or even a professional. We saw that these things existed in other communities, for example with Arduino in electronics. This is what we had in mind for Bento Lab.

Kickstarter and beyond

Of course, we are only at the beginning. What’s very exciting is that we got such an overwhelming amount of support for our Kickstarter campaign. For the past 6 months we have beta-tested Bento Lab devices with users from all around the world, and we are very excited to work with all of our Kickstarter supporters in the coming months and see their projects come to life.

We’ve also designed a Starter Kit for Bento Lab with experiments designed for learning all the basic procedures, how to interpret results, how to ask for help, how to be a responsible scientist – all those aspects. With this project, we don’t just want to build an easy-to-use laboratory, but foster a community.

Although we reached our target for funding on Kickstarter, we have two more exciting stretch goals that we’re moving towards. We’ve been approached by many schools and teachers about using Bento Lab in the classroom and this is really exciting for us. If we reach £150,000 in funding, we can fund a pilot programme to work with teachers, education organisations and academic partners to create teaching materials for hands-on genetics in the classroom. Personally, I think this could be really significant and I would have loved to have done practical genetics experiments when I was in school.

If you know of anyone who you think we should talk to for the Bento Lab project in general or the educational pilot in particular, please get in touch, we’d love to hear from you.

(18 votes)

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Here you can find out more about our video protocol on using light sheet microscopy to image zebrafish eye development.

Light sheet fluorescence microscopy has quickly become a popular technique in developmental biology. This method is very gentle to the samples, with fast acquisition speed and allows capturing the samples from any angle or from multiple angles at the same time (so called multi view imaging) (Stelzer, 2015). Such multi view imaging overcomes the degradation of the signal in Z axis and allows imaging of large specimens with high and almost isotropic resolution. The fact that light sheet microscopy is trending was confirmed when it was voted the method of the year 2014 by Nature Methods.

The major obstacle to mainstream adoption of this method was until recently the technical complexity for many biologists without a background in optics and computer science (Reynaud et al., 2015). The good news is that things have started to change and performing successful light sheet experiments is getting easier. For some time now, there are commercially available light sheet microscopes, which are easy to operate and the software solutions are not lagging behind, with plugins to process the resulting datasets as clickable GUIs (Amat et al., 2015; Preibisch et al., 2014; Preibisch et al., 2010) or Zeiss own solution in ZEN software. One word of warning, your hardware still has to be prepared to handle large volumes of data.

We recently contributed a video protocol (Icha, Schmied et al., 2016) to document a versatile light sheet microscopy experimental pipeline using a commercial microscope and an open source software solution for data processing. Specifically, we used the Lightsheet Z.1 microscope from Zeiss and the Multiview reconstruction application in Fiji to process the data. We demonstrated our approach by imaging several stages of retinal development in zebrafish. The general application for our pipeline would be long-term time-lapse imaging of morphogenetic processes during development using single or multi view acquisition. The protocol will take you through the essential steps of a light sheet microscopy experiment from mounting the sample to processing the data. The most complicated step is not taking the images, but the subsequent combination of image information from multiple views together. The solution we use is embedding fluorescent beads around the sample to register the different views onto each other and thereby to reconstruct the imaged volume of the sample.

In the associated text, you will find a step-by-step protocol including all the experimental details plus troubleshooting in the discussion section. This should be especially useful for the newcomers to the light sheet fluorescence microscopy field.

This video protocol was created as a collaboration between the Norden lab (twitter @NordenLab) and the Tomancak lab (twitter @PavelTomancak) at MPI-CBG in Dresden. Enjoy and don’t hesitate to contact us in case you have questions. The full video is also available on the Norden lab website.

Other useful links:

EMBO course in Light sheet microscopy 2016

SPIM – Light Sheet Microscopy Literature Database

Open source hardware: DIY light sheet microscopes

Open SPIM wiki page

Open SPIN microscopy

Nature Methods method of the year 2014 thematic issue

References:

Amat, F., Höckendorf, B., Wan, Y., Lemon, W. C., McDole, K. and Keller, P. J. (2015). Efficient processing and analysis of large-scale light-sheet microscopy data. Nat Protoc 10, 1679–1696.

Icha, J., Schmied, C., Sidhaye, J., Tomancak, P., Preibisch, S., Norden, C. (2016). Using Light Sheet Fluorescence Microscopy to Image Zebrafish Eye Development. J Vis Exp 110, e53966.

Preibisch, S., Amat, F., Stamataki, E., Sarov, M., Singer, R. H., Myers, E. and Tomancak, P. (2014). Efficient Bayesian-based multiview deconvolution. Nat Meth 11, 645–648.

Preibisch, S., Saalfeld, S., Schindelin, J. and Tomancak, P. (2010). Software for bead-based registration of selective plane illumination microscopy data. Nat Meth 7, 418–419.

Reynaud, E. G., Peychl, J., Huisken, J. and Tomancak, P. (2015). Guide to light-sheet microscopy for adventurous biologists. Nat Meth 12, 30–34.

Stelzer, E. H. K. (2015). Light-sheet fluorescence microscopy for quantitative biology. Nat Meth 12, 23–26.

(4 votes)

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Enrico Coen: winner of the 2016 BSDB Waddington Medal

The Cheryll Tickle Medal revealed

Elena Scarpa: the BSDB Beddington Medal winner

Summary of all BSCB/BSDB awards

(1 votes)

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The Novo Nordisk Foundation Section for Basic Stem Cell Biology, Danish Stem Cell Center, Faculty of Health and Medical Sciences University of Copenhagen

The University seeks to appoint three Group Leaders in Pancreatic Cancer, Stem Cell Biology and Bioengineering to The Novo Nordisk Foundation Section for Basic Stem Cell Biology (BasicStem) at the Danish Stem Cell Center (DanStem) to commence as soon as possible. The positions are for six years with possible extensions depending on the outcome of a peer reviews.

Background

The Danish Stem Cell Center (DanStem) is an international research center at the University of Copenhagen. The overall scientific goal is to develop new stem cell-based therapeutic approaches, currently in the area of diabetes and cancer addressing basic questions in stem cell and developmental biology and seeking to identify the factors that govern the development of different cell types in the body. Read about DanStem at www.danstem.ku.dk/.

Group Leader in Pancreatic Cancer

Particular interest in basic and disease-oriented pancreatic cancer biology

Group Leader in Stem Cell Biology

Particular interest in addressing fundamental questions in stem cell biology by using single cell behaviour analysis

Group Leader in Bioengineering

Particular interest in addressing fundamental questions in stem cell biology using bioengineering approaches. Experience with materials science and/or devices (e.g. microfluids) would be an advantage.

The Group Leaders duties will primarily consist of:

• Developing a strong research program.
• The Group Leaders must be willing to synergize with other DanStem scientists and contribute to common activities at DanStem such as seminars and PhD courses.
• The Group Leaders are expected to take full responsibility for training and supervision of young researchers, for management of each of their own group, and for publication/dissemination of research results.
• The Group Leaders are expected to actively contribute to teaching activities and education activities
• Academic assessments

The closing date for applications is 23.59 pm, May 1st, 2016

Apply online: http://employment.ku.dk/all-vacancies/?show=795295

Only online applications will be accepted.

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‘Rising Star’ fellowships will be very prestigious and highly competitive positions, designed to attract the very best ‘rising stars’ of academic research. ‘Rising star’ packages will be funded at approximately £0.2m per annum and can involve collaboration with relevant commercial or third sector organisations

‘Rising Star’ applications can be submitted at any time.

Eligibility Criteria

Rising Star Fellowships applicants should meet the eligibility criteria set out below:

Applicants should have over 7 years of experience since completion of PhD (or equivalent degree) and scientific track record showing great promise
Applicants should have an excellent research proposal
Applicants can be of any nationality
Applicants must submit a completed application form and associated documents (supervisor form, ethics form, and CV)
Applications must comply with the fundamental ethic principles as detailed in the ethics section
Applicants must have the support of their chosen host institution

Link

(1 votes)

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Post doctoral position available to study the genetic and epigenetic control of stem cell attributes and pluripotency, focusing on the neural crest gene regulatory network (NC-GRN). Neural crest cells are stem cell-like progenitors that migrate extensively and whose genesis was central to the evolution of vertebrates. Misregulation of components of the NC-GRN underlies numerous human diseases and congenital disorders. Studies involve post-translational regulation of known network components, and use of proteomics and next generation sequencing to identify novel components. 

Highly motivated applicants with a PhD and strong background in cell and molecular biology and/or developmental biology are encourage to apply. Please send a CV, brief description of research interests, and the names of three references to:

Carole LaBonne, PhD (clabonne@northwestern.edu)
Department of Molecular Biosciences
Northwestern University, Evanston, IL 602028

(No Ratings Yet)

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The 2016 Spring meeting of the British Society for Development Biology (held jointly with the British Society for Cell Biology) will start this Sunday at the University of Warwick and the Node will be there!

Pop by The Company of Biologists’ stand to chat with Cat, our community manager, and collect our new freebies! If you are a fan of our ongoing series on model organisms in developmental biology you may like to take a copy of our brand new booklet, which includes a selection of some of the earlier posts in the series. Thank you to all the authors of the posts who gave us permission to use their text and images and helped us put this booklet together!

We also have a new set of postcards featuring beautiful images from the Woods Hole Embryology course. Make sure to come to the stand to collect yours!

This meeting is also a great opportunity to chat with other people at The Company of Biologists. Development’s executive editor Katherine Brown, and reviews editor Seema Grewal will also be at the meeting, and Nicky Le Blond, who runs our travelling fellowships and grant program and organises our fabulous workshops, will be at the stand on Tuesday. Cat and Katherine will also be leading discussion tables on social media and publishing respectively at the Careers Workshop on Sunday afternoon, so plenty of chances to say hello. We look forward to meeting you then! If you can’t make it to the meeting you can always follow us on Twitter. The Node will be tweeting using the hashtag #cbdb16

(1 votes)

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