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Postbaccalaureate Program to Diversify STEM: Stowers Research Scholars

Posted by , on 19 January 2022

Closing Date: 4 February 2022

https://www.stowers.org/gradschool/research-scholars

The Stowers Institute for Medical Research (Kansas City, Missouri) is now accepting applications for Stowers Research Scholars, a mentored 1-year postbaccalaureate research fellowship. Through guided research experience and academic career mentoring, this program aims to increase the number of NIH-defined underrepresented students in fundamental biological research.  This year we are accepting up to three students.

This opportunity is open to US citizen or permanent residents from diverse backgrounds with a BA or BS in a STEM field who are interested in pursuing graduate education in basic biological sciences.  Compensation is highly competitive and prior laboratory experience is not required.

For further information and to apply, please visit:
https://www.stowers.org/gradschool/research-scholars

Application Deadline: February 4, 2022
Program Dates: June 6, 2022 – June 16, 2023 (flexible)
Contact: postbac@stowers.org

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Developing news

Posted by , on 18 January 2022

Welcome to our light-hearted look at the goings-on in the world of developmental biology in the last two weeks (or so).

Focus on funding

Training advice and opportunities

  • On-the-job training?:
  • General advice for academics

Outreach

  • A beautiful story on the impact an individual can make on a child’s life by engaging with them:
  • Foldscope in Africa

PreLights on #devbio

If you would like to contribute to our ‘Developing news’ blog, please get in touch at thenode@biologists.com. If you are interested in writing preLights, you can find more information here.

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Categories: Discussion, Education, Funding, Highlights

SciArt profile: Diego Galagovsky

Posted by , on 17 January 2022

In our first SciArt profile of 2022, we hear from Diego Galagovsky, a postdoc with a passion for using cartoons to communicate science.

Where are you originally from and what do you work on now?

I am originally from Salta, Argentina. After moving to Buenos Aires for my PhD, then Dijon, France for a postdoc, I now live in Jena, Germany where I am working on a second postdoc.

Were you always going to be a scientist?

Since I was very young, I have been curious and interested in understanding how things work. As far as I remember, I got interested in dinosaurs when I was 4 or 5 years old and that became the gateway into science. I started reading books, increasing in complexity and getting interested in all areas of science, reading about animals, ecology, evolution, anthropology and history, physics and astronomy. In school and later in high school, I adored all classes linked to science, and especially biology. And as a kid I would always say that I wanted to be a scientist.

And what about art – have you always enjoyed it?

At the same time, I always enjoyed artistic expression. As a kid I took crafts classes and learned the basics for drawing. It was fun. I was always combining it with my love for science, drawing animals, dinosaurs and planets. I also loved cartoons and learned to draw by copying my favourite characters. Later, I became interested in comic books and started trying to emulate the style and make my own.

The X-Flies
I like X-Men comics a lot. For an article about mutations, I did this homage to the cover of 1961 X-Men #1. I liked the characters and would love to continue using them for more articles.


What or who are your most important artistic influences?

My love for cartoons and comic books has had the greatest impact on my style. I take a lot of my inspiration from cartoons I loved throughout my life and from my favourite comic books. I also like visual arts and design in general, so I try to mix in whatever I find nice and appealing. My main interest is in experimenting and learning something new every time I decide to make a drawing.

Loop
I participated in Inktober 2021. It was an excuse to work hard on drawing and try new things. Here I paid tribute to a beloved fly line, the Curly-O balancer line. Balancer lines have rearranged chromosomes which I depict here next to the fly.

How do you make your art?

I work mainly digitally. I like the results I obtain, and I also find it comfortable because I can work almost anywhere, it takes up little space and allows me to work on several projects at the same time. I have been interested in digital art since I was very little. As a kid I never had access to fancy software or someone to teach me. I remember using basic software and pushing it as far as I could. With the popularization of the internet, I finally started learning to use more professional software design. I learned enough to then start self-teaching and experimenting. Regarding the process of my work, it usually involves a lot of thinking until I get the final idea for the subject and the composition. Then as I work it starts evolving and the initial idea starts changing. It is a very rewarding and stimulating process. 

Morgan Genetics
One of the first articles I wrote on our website was about genetics. I wrote about Mendel and Morgan. To illustrate it I drew the crosses Morgan performed with his white-eyed mutant, as if he was drawing them with ink and watercolours.

Does your art influence your science at all, or are they separate worlds?

Now I am working mainly on drawings and illustrations that connect directly to my scientific interests. I am doing works that are aimed at not only being aesthetically pleasing but also educational. I want them to be interesting enough to attract people to learn about science.

My art also influences my science in the sense that it has helped me better communicate my projects and my results. I like visual storytelling and understanding this language has helped me a lot with the communication aspect of my scientific work. I’ve also done figures and graphical abstracts for others in which I infused a bit of the artistic interests I had at the time.

Mutant
On our website, we did an article about mutations and I illustrated the use of x-rays to generate mutations in the style of horror/super-hero over-the-top origin story comic books.

What are you thinking of working on next?

I have been working on projects that involved thinking fast and working on a short schedule. As part of trying to work on science education and dissemination, I have been trying to take on challenges online that involve producing drawings every day, like Inktober or now an Advent Calendar featuring Drosophila flies and the science we do with them. I have also made a sticker app for WhatsApp with the same objective, and now I plan to explore that further: can we use stickers to interest people in science? Next, I want to experiment with the visual storytelling format of comic books, and how to use it to tell science online in a more engaging way. I have many ideas I want to explore in those areas.


You can find Diego on Twitter, Instagram and Facebook as well as his website: sci-flies.com

Thanks to Diego and all the other SciArtists we have featured so far. You can find the full list hereWe’re always on the lookout for new people to feature in this series – whatever kind of art you do, from sculpture to embroidery to music to drawing, if you want to share it with the community just email thenode@biologists.com (nominations are also welcome!)

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Weinstein Cardiovascular Development and Regeneration Conference

Posted by , on 13 January 2022

Do not miss the Weinstein Cardiovascular Development and Regeneration Conference in Marseille (France) on 12-14th May, our first time in the South of France.

We are grateful to all our sponsors and specifically the Company of Biologists

To get information about the program, registration, and housing, visit the website:

Weinstein Conferences – Cardiovascular Development & Regeneration (weinstein-conferences.org)

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Categories: Events

Genetics Unzipped podcast: How the zebra got its stripes – when maths and molecules collide

Posted by , on 13 January 2022

Alan Turing
Alan Turing, Image via Wikimedia Commons

In the first episode of a new season of Genetics Unzipped, the Genetics Society podcast, presenter Kat takes a trip back to the 1950s to find out how one of the world’s greatest minds – Alan Turing – revealed the maths behind some of the deepest mysteries of life, from the patterning of stripes on a zebra to the spots on a leopard, and even the formation of bones in your own body.

Genetics Unzipped is the podcast from The Genetics Society. Full transcript, links and references available online at GeneticsUnzipped.com.

Subscribe from Apple podcasts, Spotify, or wherever you get your podcasts.

Head over to GeneticsUnzipped.com to catch up on our extensive back catalogue.

If you enjoy the show, please do rate and review on Apple podcasts and help to spread the word on social media. And you can always send feedback and suggestions for future episodes and guests to podcast@geneticsunzipped.com Follow us on Twitter – @geneticsunzip

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CENTURI PhD call 2022 | 10 open positions in Marseille

Posted by , on 11 January 2022

Closing Date: 28 February 2022

The Turing Centre for Living Systems (CENTURI) wishes to attract talented PhD students to the Luminy campus. To do so, CENTURI will fund up to 10 PhD positions to start in 2021. PhD students will work in an interdisciplinary life science environment, and have backgrounds in any of the following fields: cell or developmental biology, immunology, neurobiology, biophysics, theoretical physics, computer science, bioinformatics, applied mathematics, engineering.

Candidates can either apply to one of the advertised CENTURI projects or submit their own project, providing that they meet the application criteria and that their application is supported by at least 2 host labs.

PhD students will be co-supervised by two or three supervisors from our community. Candidates can apply to a maximum of three projects.

Do not hesitate to contact the projects’ supervisors for more information.

Check out our projects: http://centuri-livingsystems.org/recruitment/

Applications must be submitted via the project’s application form and must be written in english. 

Deadline for application: February 16, 2022

Duration: 3 years

On-site or video interviews: April 26 to April 27, 2022

Expected profile – selection criteria

Candidates will be evaluated based on the following criteria:

  • Academic achievements
  • Past research experience (internships, master thesis)
  • Interest to work in a multidisciplinary research environment
  • Enthusiasm and communication skills

To apply please fill the form associated to each project. Applications must include the following documents, in English (compiled into a single PDF file):

  • CV
  • cover letter
  • transcript of your MSc’s grades (M1 and M2 if available)

2 letters of recommendation must also be sent by your references. Please note that an automatic email will be sent to them so that they can upload their recommendation letter. We invite you to contact them to make sure that they have received the notification email.


Who are we?

CENTURI brings together leading institutes in biology, physics, mathematics, computer science and engineering to decipher the complexity and dynamics of living systems.  CENTURI offers an exceptional international environment for the development of interdisciplinary projects, in developmental biology, immunology and neurosciences.

CENTURI is mainly located on the Luminy campus of Aix-Marseille University and is affiliated to Aix- Marseille University, CNRS, INSERM and École Centrale Marseille.

Website: centuri-livingsystems.org

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Science visualization trends of 2021

Posted by , on 10 January 2022

Reviewing a year of Data Visualizations

At the end of the year people take stock and reminisce. This also applies to data visualization scientists, who like to review the best visualizations of 2021. I enjoy Maarten Lambrechts summary of all the “Best of 2021” posts [note added: by now this post is included in his list!].

While musing whether to keep or toss my Nature print issues (still undecided!), I browsed through all the science visualizations of 2021. Well, I mainly checked the biology and medicine figures as I really do not understand enough of physics to comment on their charts and plots. Some visualizations and themes really stood out to me – so I decided to summarize the top 10 science visualization trends of 2021 for you.

[Notes: (1) all photos show anonymous excerpts for educational purposes from Nature articles 2021. (2) because of technical difficulties this article was already posted on my personal site.]

  1. Viva viridis!

The viridis color-scheme is now omnipresent. Viridis was developed by Stefan van der Walt and Nathaniel Smith in 2015 as the default sequential color map for matplotlib. Their goal was to create a color scheme in which color changes are perceptually uniform, and to replace the non-linear Jet/Rainbow-color schemes used previously for sequential data.

Viridis quickly gained popularity as we can see in the many examples below. By now viridis is however no longer only used for sequential data. Instead we also see it being applied to diverging and categorical data, which may be not exactly ideal at times. But for now, let’s celebrate the end of rainbow color schemes!

2. Still trending: axis breaks

Yes, axis breaks, necessary or not, are unfortunately still a thing in 2021. And so far, no end in sight. Every time I teach a Data Viz Course, I challenge the students that all axis breaks are avoidable – I have yet to see one where the break really was necessary. Send me yours!

3. Hello slope-charts

In 2016 the #BarBarChart initiative called for a ban of bar charts for data distributions. They were successful and I have not any in 2021. At that time, Tracey Weissgerber published a notable paper encouraging the use of a slope chart for dependent observations. It seems the science world listened again: numerous papers now use slope charts to illustrate dependent measurements of specimens, for example mice before and after treatment, responders and non-responders in cohorts etc.

4. tSNE, UMAP, PCA

There don’t seem to be any papers that don’t have at least one dimension reduction plot. t-SNE, UMAP and PCA are omnipresent. These plots are however rarely explained in articles and figure legends, and I suspect even more rarely understood by audiences. In my courses participants are often not familiar with them – not surprising given that they are a recent addition in statistics and still heavily researched in the vis community! To educate your students refer them to these resources from Claus O. Wilke and StatQuest.

5. Mixing charts

A big fashion trend of 2021 was mixing styles and patterns, and it seems this did spill over to the visualization world. Researchers have become quite experimental with mixing chart types (see also earlier post). I’ve seen a number of scatter plots showing the data distribution summarized along each axis: above for the x-axis and left for the y-axis. I’ve also seen pie charts summarizing the quadrants of a scatter-plot, charts mixing violin and box-plots, of course box-plots with data points, and many more.

6. Pictograms

Often novel insights come from a new methodological approach. To familiarize audiences with a new method, papers now regularly include a sketch of the experimental procedure. And, good news, these have begun to look rather nice and clear, whether it’s a stool preparation method, an approach stem cell differentiation, or for a mouse neurobiology set-up.

7. Pictograms for labeling

Pictograms are not only used for explaining procedures, but also often help to quickly orient audiences. Pictograms are for example used instead of text: I’ve seen pictograms as a title, pictogram to name a leaf in a phylogenetic tree, or even a pictogram chart. Overall pictograms seem to be most popular in mouse molecular genetics and evolutionary biology. Go figure.

8. Images now come with scale bars!

Scale bars in images are apparently here to stay. A few years ago, I had noticed that scale information was quite often missing in scientific images, even in high profile journals. Eventually this observation prompted a collaborative project to systematically screen the quality of image data in publications.

This year the tide has definitely shifted. Except for a few cases, scale bars are now visibly placed on all images; even in plant and histology images, two fields so far quite notorious for omitting scale information.

9. Colors in images: still problematic

Despite many recent efforts, most recently a technology feature in nature feat. your truly, no end is in sight for images that generously mix red and green, making it illegible for many color-blind people. In addition, often images that show false-color scales do not come with a legend explaining the color intensities.

A glimpse of hope: I’ve seen a color legend once this year (still without quantities in legend), which is already a 100% increase from previous years! And, rescue is near, with QUAREP we have a collaborative consortium addressing quality of light microscopy. Join our working group that develops guidelines for image visualization in publications!

Include legends for intensity values – ideally with quantifications.

10. More space for figures!

Figures get more space in publications. This is quite easy in electronic publications, but also in print editions half or even full-page figures are becoming a sight. This makes it quite enjoyable to read some of the figures, which before were entirely illegible due to being squeezed into a small space.

More space for figures means less space for other sections of a paper. Often materials and methods are now entirely moved to the supplementary materials and citations are limited to a few only.

The figure below for example each took up 2/3 of a page – lovely!

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BSDB Gurdon Summer Studentship Report – Rufus Morgan

Posted by , on 5 January 2022

Regionalising the nervous system: the steps to produce spinal cord.

The nervous system is one of the first structures that develops during embryogenesis. However, the process by which regional identity is established in this system remains unclear and is a long-standing unanswered question of developmental biologists. The Metzis lab aims to elucidate some of the molecular mechanisms defining regional identity in the nervous system during its initial development. To address these questions, the group uses embryonic stem cells (ESCs) as an in vitro model of neural development combined with high throughput sequencing approaches and comparisons to in vivo mouse models. Previous research has demonstrated that the generation of spinal cord requires the activity of the transcription factor CDX2 (1, 2), but it is still unknown exactly how this happens at the molecular level. My project focussed on identifying potential downstream targets of CDX2, using a combination of experimental and computational approaches.

The Hox family are a set of transcription factors that have fascinated developmental biologists for decades due to their role in patterning the body plan and their conservation across Bilateria (animals with left-right symmetry). Interestingly, it’s found that these genes have distinct rostro-caudal domains of expression in the developing spinal cord (3) and are expressed in a colinear fashion (4). Hox genes are regulated by CDX transcription factors (5, 6), so the main aim of my project was to predict which Hox genes are directly regulated by CDX2during the emergence of spinal cord. This could elucidate potential Hox genes that act in conjunction or as a result of Cdx2 upregulation to promote spinal cord identity.

I initially approached this project by processing and analysing high throughput sequencing data from previous mRNA-seq experiments (7). This allowed me to identify gene expression patterns that occur during the differentiation of pluripotent ESCs into hindbrain versus spinal cord progenitors in vitro. I then evaluated these predictions by performing RT-qPCR to confirm that the published data from the mRNA-seq dataset matched the in vitro differentiations being conducted in the lab using the same protocol. I found that in general the predictions made were reproducible (Figure 1), so I finally went about verifying if CDX2 occupied the Hox genes that I had predicted, by analysing ChIP-seq datasets from previous studies (2, 8).

Figure 1: (A) Schematic of how mouse ESCs differentiate to neural progenitors in vitro with hindbrain (top; HB), or spinal cord (bottom; SC) identity. Both progenitors are produced with basic fibroblast growth factor (bFGF) treatment from day (D) 0 to D2. Hindbrain progenitors are treated with bFGF for another day and then Retinoic acid (RA) and Sonic Hedgehog (SHH) is added from D3 to D5 to promote the generation of motor neuron progenitors. Spinal cord progenitors are generated following a brief pulse of bFGF and active WNT signalling conditions from D2 to 3 (light orange shading; Adapted from Metzis et al., 2018). (B) Immunofluorescence imaging shows hindbrain progenitors express PHOX2B, indicating visceral motor neuron identity, whilst this identity is suppressed under spinal cord conditions. (C) RT-qPCR analysis of Cdx2, Hoxb4 and Hoxb9 expression at different days of the in vitro differentiation from ESCs, verifying predictions made from mRNA-seq data (Gouti et al. 2014).

It was exciting but challenging completing my own independent research project for the first time, and it forced me to step outside my comfort zone and grow quickly. A good example of this was using 384-well plates for the first time during qPCR. It was daunting to plan each plate, calculate the reagent needed and pipette each one out in a reproducible manner. Initially it took me a long time and I made mistakes; nevertheless, I soon got the hang of it and could do them with my eyes closed! Furthermore, having had no previous experience in coding, I initially struggled to successfully output any results. However, the dry lab aspect of this project taught me to be perseverant and explore your options, as there is often more than one way to get to the correct result. Over this summer I have also learnt to think more deeply about why I am doing a specific experiment, what it can teach me, and what my next steps will be after obtaining the results.

Although difficult, I found my project in the Metzis lab thoroughly enjoyable, and the experience gained was invaluable. I learnt to always approach intimidating tasks quickly and get stuck in, which was also really helped by the fact that the lab team were supportive and would guide me through new techniques. I learnt to always have a plan B – it is unlikely everything will go perfectly the first time, so preparing for that eventuality is necessary to not slow down your workflow too much.

This project has opened my eyes to what a professional research lab is like but also the questions and challenges present in the field of developmental biology. It has encouraged me to think more deeply about what we don’t already know about this field, and potentially some unanswered questions that I could look to answer in the future. I have had an amazing summer at the Metzis lab, and I very much look forward to getting back to the bench to explore those unanswered questions!

A picture of me and the lab team!

1.         Metzis V, Steinhauser S, Pakanavicius E, Gouti M, Stamataki D, Ivanovitch K, et al. Nervous System Regionalization Entails Axial Allocation before Neural Differentiation. Cell. 2018;175(4):1105-18.e17.

2.         Mazzoni EO, Mahony S, Peljto M, Patel T, Thornton SR, McCuine S, et al. Saltatory remodeling of Hox chromatin in response to rostrocaudal patterning signals. Nat Neurosci. 2013;16(9):1191-8.

3.         Carpenter EM. Hox genes and spinal cord development. Dev Neurosci. 2002;24(1):24-34.

4.         Wellik DM. Hox patterning of the vertebrate axial skeleton. Dev Dyn. 2007;236(9):2454-63.

5.         Amin S, Neijts R, Simmini S, van Rooijen C, Tan SC, Kester L, et al. Cdx and T Brachyury Co-activate Growth Signaling in the Embryonic Axial Progenitor Niche. Cell Rep. 2016;17(12):3165-77.

6.         Neijts R, Amin S, van Rooijen C, Deschamps J. Cdx is crucial for the timing mechanism driving colinear Hox activation and defines a trunk segment in the Hox cluster topology. Dev Biol. 2017;422(2):146-54.

7.         Gouti M, Tsakiridis A, Wymeersch FJ, Huang Y, Kleinjung J, Wilson V, et al. In vitro generation of neuromesodermal progenitors reveals distinct roles for wnt signalling in the specification of spinal cord and paraxial mesoderm identity. PLoS Biol. 2014;12(8):e1001937.

8.         Mahony S, Edwards MD, Mazzoni EO, Sherwood RI, Kakumanu A, Morrison CA, et al. An integrated model of multiple-condition ChIP-Seq data reveals predeterminants of Cdx2 binding. PLoS Comput Biol. 2014;10(3):e1003501.

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Categories: Education, Lab Life, Research, Uncategorized

December in preprints

Posted by , on 5 January 2022

Welcome to our monthly collection of preprints on developmental and stem cell biology (and related fields). The list includes a number of more unusual model organisms including squirrels, hippos, the crustacean Parhyale hawaiensis, deer mice, sticklebacks, mouse lemurs and Agaricomycetes

The preprints this month are hosted on bioRxiv and arXiv – use these links to get to the section you want.

Developmental biology

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

midline represses Dpp signaling and target gene expression in Drosophila ventral leg development
Lindsay A. Phillips, Markle L. Atienza, Jae-Ryeon Ryu, Pia C. Svendsen, Lynn K. Kelemen, William J. Brook

Lrig1 and Wnt dependent niches dictate segregation of resident immune cells and melanocytes in murine tail epidermis
Susanne C. Baess, Annika Graband, Kristin Seré, Martin Zenke, Catherin Niemann, Sandra Iden

Mouse presomitic mesoderm explants from Miyazawa, et al.

Glycolytic flux-signaling controls mouse embryo mesoderm development
Hidenobu Miyazawa, Marteinn T. Snaebjornsson, Nicole Prior, Eleni Kafkia, Henrik M. Hammarén, Nobuko Tsuchida-Straeten, Kiran R. Patil, Martin Beck, Alexander Aulehla

Single-cell protein analysis reveals metastable states during the transition to a sensory organ fate
Ritika Giri, Shannon Brady, Richard W. Carthew

Different temporal requirements for the LRR transmembrane receptors Tartan and Toll-2 in the formation of contractile interfaces at compartmental boundaries
Thomas E. Sharrock, Guy B. Blanchard, Jenny Evans, Bénédicte Sanson

Differential regulation of SHH signaling and the developmental control of species-specific jaw size through neural crest-mediated Gas1 expression
Zuzana Vavrušová, Daniel B. Chu, An Nguyen, Jennifer L. Fish, Richard A. Schneider

A self-generated Toddler gradient guides mesodermal cell migration
Jessica Stock, Tomas Kazmar, Friederike Schlumm, Edouard Hannezo, Andrea Pauli

Revisiting the Role of Notch in Nephron Segmentation: Notch is Required for Proximal, Not Distal Fate Selection During Mouse and Human Nephrogenesis
Kathryn Duvall, Lauren Bice, Alison J. Perl, Naomi Pode Shakked, Praneet Chaturvedi, Raphael Kopan

Prdm16 and Notch functionally and physically interact during artery development
Manu Beerens, Jore Van Wauwe, Sander Craps, Margo Daems, KC Ashmita, Chris Finck, Shane Wright, Nicholas D. Leigh, Calum A. MacRae, Aernout Luttun

Plexins Promote Hedgehog Signaling Through Their Cytoplasmic GAP Activity
Justine M. Pinskey, Tyler M. Hoard, Xiao-Feng Zhao, Nicole E. Franks, Zoë C. Frank, Alexandra N. McMellen, Roman J. Giger, Benjamin L. Allen

Drosophila optic lobe from Prasad, et al.

Differentiation signals from glia are fine-tuned to set neuronal numbers during development
Anadika R. Prasad, Matthew P. Bostock, Inês Lago-Baldaia, Zaynab Housseini, Vilaiwan M. Fernandes

Target of Rapamycin drives unequal responses to essential amino acid depletion in egg laying
André N. Alves, Carla M. Sgrò, Matthew D. Piper, Christen K. Mirth

Cavefish cope with environmental hypoxia by developing more erythrocytes and overexpression of hypoxia inducible genes
Corine M. van der Weele, William R. Jeffery

Direct and latent effects of ocean acidification on the transition of a sea urchin from planktonic larva to benthic juvenile
Narimane Dorey, Emanuela Butera, Nadjejda Espinel-Velasco, Sam Dupont

Distribution map of peristaltic waves in the chicken embryonic gut reveals importance of ENS and inter-region cross talks along the gut axis
Yuuki Shikaya, Yuta Takase, Ryosuke Tadokoro, Ryo Nakamura, Masafumi Inaba, Yoshiko Takahashi

Altricial bird early-stage embryos express the molecular ‘machinery’ to respond to maternal thyroid hormone cues
Suvi Ruuskanen, Mikaela Hukkanen, Natacha Garcin, Nina Cossin-Sevrin, Bin-Yan Hsu, Antoine Stier

A Notch-dependent transcriptional mechanism controls expression of temporal patterning factors in Drosophila medulla
Alokananda Ray, Xin Li

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development
Junil Kim, Michaela Mrugala Rothová, Linbu Liao, Siyeon Rhee, Guangzheng Weng, Eyal David, Ido Amit, Morteza Chalabi Hajkarim, Joshua M. Brickman, Kyoung Jae Won

From the formation of embryonic appendages to the color of wings: Conserved and novel roles of aristaless1 in butterfly development
Erick X. Bayala, Nicholas VanKuren, Darli Massardo, Marcus Kronforst

Coupling adipose tissue architecture and metabolism via cytoophidia
Jingnan Liu, Yuanbing Zhang, Youfang Zhou, Qiao-Qi Wang, Kang Ding, Suwen Zhao, Pengfei Lu, Ji-Long Liu

ESR2 regulates indian hedgehog signaling in neonatal rat ovary
Iman Dilower, V. Praveen Chakravarthi, Eun B. Lee, Subhra Ghosh, Shaon Borosha, Richita Roy, Saeed Masumi, Anohita Paul, Hindole Ghosh, Michael W. Wolfe, M. A. Karim Rumi

Reemployment of Kupffer’s vesicle cells into axial and paraxial mesoderm via transdifferentiation
Takafumi Ikeda, Kiichi Inamori, Toru Kawanishi, Hiroyuki Takeda

Retinoid-X Receptor Agonists Increase Thyroid Hormone Competence in Lower Jaw Remodeling of Pre-Metamorphic Xenopus laevis tadpoles
Brenda J. Mengeling, Lara F. Vetter, J. David Furlow

pop-1/TCF, ref-2/ZIC and T-box factors regulate the development of anterior cells in the C. elegans embryo
Jonathan D. Rumley, Elicia A. Preston, Dylan Cook, Felicia L. Peng, Amanda L. Zacharias, Lucy Wu, Ilona Jileaeva, John Isaac Murray

Calcium signalling in the mouse epidermal basal layer from Moore, et al.

Tissue-wide coordination of calcium signaling regulates the epithelial stem cell pool during homeostasis
Jessica L Moore, Feng Gao, Catherine Matte-Martone, Shuangshuang Du, Elizabeth Lathrop, Smirthy Ganesan, Lin Shao, Dhananjay Bhaskar, Andy Cox, Caroline Hendry, Bastian Rieck, Smita Krishnaswamy, Valentina Greco

A NEUROGENIC GENE EXPRESSION SIGNATURE SUPPORTS HUMAN THERMOGENIC ADIPOSE TISSUE DEVELOPMENT IN VIVO.
Javier Solivan-Rivera, Zinger Yang Loureiro, Tiffany DeSouza, Anand Desai, Qin Yang, Raziel Rojas-Rodriguez, Pantos Skritakis, Shannon Joyce, Denise Zhong, Tammy Nguyen, Silvia Corvera

A single cell transcriptional roadmap for human pacemaker cell differentiation
Alexandra Wiesinger, Jiuru Li, Lianne J Fokkert, Priscilla Bakker, Arie O Verkerk, Vincent M Christoffels, Gerard J.J. Boink, Harsha D. Devalla

| Morphogenesis & mechanics

Alveoli form directly by budding led by a single epithelial cell
Astrid Gillich, Krystal R. St. Julien, Douglas G. Brownfield, Kyle J. Travaglini, Ross J. Metzger, Mark A. Krasnow

Restricted proliferation during neurogenesis contributes to regionalization of the amphioxus nervous system
Giacomo Gattoni, Toby GR Andrews, Elia Benito-Gutiérrez

Coagulation Factor IIIa (f3a) Knockdown in Zebrafish Leads to Defective Angiogenesis and Mild Bleeding Phenotype
Saravanan Subramaniam, Jiandong Liu, Craig Fletcher, Ramani Ramchandran, Hartmut Weiler

Hemicentin mediated type IV collagen assembly strengthens juxtaposed basement membrane linkage
Claire A. Gianakas, Daniel P. Keeley, William Ramos-Lewis, Kieop Park, Ranjay Jayadev, Qiuyi Chi, David R. Sherwood

A combined transcriptional and dynamic roadmap of single human pancreatic endocrine progenitors reveals proliferative capacity and differentiation continuum
Belin Selcen Beydag-Tasöz, Joyson Verner D’Costa, Lena Hersemann, Federica Luppino, Yung Hae Kim, Christoph Zechner, Anne Grapin-Botton

3D segmentation of cell constriction in Drosophila embryos from Fuentes and He

Cell polarity determinant Dlg1 facilitates epithelial invagination by promoting tissue-scale mechanical coordination
Melisa A. Fuentes, Bing He

Embryo-scale epithelial buckling forms a propagating furrow that initiates gastrulation
Julien Fierling, Alphy John, Barthélémy Delorme, Alexandre Torzynski, Guy Blanchard, Claire Lye, Grégoire Malandain, Bénédicte Sanson, Jocelyn Étienne, Philippe Marmottant, Catherine Quilliet, Matteo Rauzi

LRRFIP2 modulates the response to hypoxia during embryonic cardiogenesis
Laura Ben Driss, Christophe Houbron, Florian Britto, Alain Schmitt, Morgane Le Gall, Philippe Daubas, Pascal Maire

Tissue-specific inhibition of protein sumoylation uncovers diverse SUMO functions during C. elegans vulval development
Aleksandra Fergin, Gabriel Boesch, Nadja R. Greter, Simon Berger, Alex Hajnal

Patterned mechanical feedback establishes a global myosin gradient
Hannah J. Gustafson, Nikolas Claussen, Stefano De Renzis, Sebastian J. Streichan

Local mechanical stimuli shape tissue growth in vertebrate joint morphogenesis
Ester Comellas, Johanna E Farkas, Giona Kleinberg, Katlyn Lloyd, Thomas Mueller, Timothy J Duerr, Jose J Muñoz, James R Monaghan, Sandra J Shefelbine

Cell-state transitions and collective cell movement generate an endoderm-like region in gastruloids
Ali Hashmi, Sham Tlili, Pierre Perrin, Alfonso Martinez-Arias, Pierre-François Lenne

An interplay between cellular growth and atypical fusion defines morphogenesis of a modular glial niche
Maria Alexandra Rujano, David Briand, Bojana Ðelić, Pauline Spéder

The microRNA miR-132 is a key regulator of lymphatic vascular remodelling
Valeria Arcucci, Musarat Ishaq, Sally Roufail, B. Kate Dredge, Andrew G. Bert, Emily Hackett-Jones, Ruofei Liu, Katherine A. Pillman, Stephen B. Fox, Steven A. Stacker, Gregory J. Goodall, Marc G. Achen

The developing kidney actively negotiates geometric packing conflicts to avoid defects
Louis S. Prahl, John M. Viola, Jiageng Liu, Alex J. Hughes

Nuclear lamins promote protrusion dynamics and collective, confined migration in vivo
Lauren Penfield, Denise J. Montell

Slit-Robo Signalling Establishes a Sphingosine-1-Phosphate Gradient to Polarise Fin Mesenchyme and Establish Fin Morphology
Harsha Mahabaleshwar, P.V. Asharani, Tricia Loo Yi Jun, Shze Yung Koh, Melissa R. Pitman, Samuel Kwok, Jiajia Ma, Bo Hu, Fang Lin, Xue Li Lok, Stuart M. Pitson, Timothy E. Saunders, Tom J. Carney

A transient apical extracellular matrix relays cytoskeletal patterns to shape permanent acellular ridges on the surface of adult C. elegans
Sophie S. Katz, Trevor J. Barker, Hannah M. Maul-Newby, Alessandro P. Sparacio, Ken C.Q. Nguyen, Chloe L. Maybrun, Alexandra Belfi, Jennifer D. Cohen, David H. Hall, Meera V Sundaram, Alison R. Frand

Epistatic genetic interactions govern morphogenesis during sexual reproduction and infection in a global human fungal pathogen
Sheng Sun, Cullen Roth, Anna F. Averette, Paul M. Magwene, Joseph Heitman

α-catenin links integrin adhesions to F-actin to regulate ECM mechanosensing and rigidity-dependence
Abhishek Mukherjee, Shay Melamed, Hana Damouny-Khoury, Malak Amer, Lea Feld, Elisabeth Nadjer-Boger, Michael Patrick Sheetz, Haguy Wolfenson

| Genes & genomes

Single amino-acid mutation in a Drosophila melanogaster ribosomal protein: an insight in uL11 transcriptional activity
Heloise Grunchec, Jerome Deraze, Delphine Dardalhon-Cumenal, Valerie Ribeiro, Anne Coleno-Costes, Karine Dias, Sebastien Bloyer, Emmanuele Mouchel-Vielh, Frederique Peronnet, Helene Thomassin

eIF4A2 targets developmental potency and histone H3.3 transcripts for translational control of stem cell pluripotency
Dan Li, Jihong Yang, Xin Huang, Hongwei Zhou, Jianlong Wang

Developing Hydra tentacles from Vogg, et al.

The transcription factor Zic4 acts as a transdifferentiation switch
Matthias Christian Vogg, Jaroslav Ferenc, Wanda Christa Buzgariu, Chrystelle Perruchoud, Panagiotis Papasaikas, Paul Gerald Layague Sanchez, Clara Nuninger, Céline Delucinge-Vivier, Christine Rampon, Leonardo Beccari, Sophie Vriz, Stéphane Vincent, Brigitte Galliot, Charisios D. Tsiairis

Non-random sister chromatid segregation mediates rDNA copy number maintenance in Drosophila
George J. Watase, Yukiko M. Yamashita

GLP is critical for oogenesis exhibiting a G9A-independent role in transcriptional repression
Hannah Demond, Courtney W Hanna, Juan Castillo-Fernandez, Fátima Santos, Evangelia K Papachristou, Anne Segonds-Pichon, Kamal Kishore, Clive S D’Santos, Gavin Kelsey

Platr4 is an ESC-specific lncRNA that exhibits its function downstream on meso/endoderm lineage commitment
Rasmani Hazra, Lily Brine, Libia Garcia, Brian Benz, Napon Chirathivat, Michael M. Shen, John Erby Wilkinson, Scott K. Lyons, David L. Spector

The dual role of N6-methyladenosine on mouse maternal RNAs and 2-cell specific RNAs revealed by ULI-MeRIP sequencing
You Wu, Xiaocui Xu, Meijie Qi, Chuan Chen, Mengying Li, Rushuang Yan, Xiaochen Kou, Yanhong Zhao, Wenqiang Liu, Yanhe Li, Xuelian Liu, Meiling Zhang, Chengqi Yi, Hong Wang, Bin Shen, Yawei Gao, Shaorong Gao

Linker histone H1FOO is required for bovine preimplantation development by regulating lineage specification and nucleosome assembly
Shuang Li, Yan Shi, Yanna Dang, Bingjie Hu, Lieying Xiao, Panpan Zhao, Shaohua Wang, Kun Zhang

Ocean-Warming During Embryogenesis Programs a Lasting Transcriptomic Signature in Fishes
Daniel M. Ripley, Terence Garner, Samantha A. Hook, Ana Veríssimo, Bianka Grunow, Timo Moritz, Peter Clayton, Holly A. Shiels, Adam Stevens

Intron dynamics reveal principles of gene regulation during the maternal-to-zygotic transition
Kent Riemondy, Jesslyn C. Henriksen, Olivia S. Rissland

Histone demethylome map reveals combinatorial gene regulatory functions in embryonic stem cells
Pratibha Tripathi, Pushkar Dakle, Majid Mehravar, Varun K. Pandey, Michael J. Bullen, Zhongming Zhang, Dhaval Hathiwala, Marc Kerenyi, Andrew Woo, Alireza Ghamari, Alan B. Cantor, Lee H. Wong, Jonghwan Kim, Kimberly Glass, Guo-Cheng Yuan, Luca Pinello, Stuart H. Orkin, Partha Pratim Das

Tissue- and ethnicity-independent hypervariable DNA methylation states show evidence of establishment in the early human embryo
Maria Derakhshan, Noah J. Kessler, Miho Ishida, Charalambos Demetriou, Nicolas Brucato, Gudrun E. Moore, Caroline H.D. Fall, Giriraj R. Chandak, Francois-Xavier Ricaut, Andrew M. Prentice, Garrett Hellenthal, Matt J. Silver

Chromatin state transition underlies the temporal changes in gene expression during cardiomyocyte maturation
Chia-Yeh Lin, Yao-Ming Chang, Hsin-Yi Tseng, Yen-Ling Shih, Hsiao-Hui Yeh, Po-Li Chen, Chien-Chang Chen, Yu-Ting Yan, Cheng-Fu Kao

| Stem cells, regeneration & disease modelling

Reprogrammed iBlastoids contain amnion-like cells but not trophectoderm
Cheng Zhao, Alvaro Plaza Reyes, John Paul Schell, Jere Weltner, Nicolas Ortega, Yi Zheng, Asa K Bjorklund, Janet Rossant, Jianping Fu, Sophie Petropoulos, Fredrik Lanner

Enteroids from Zeve, et al.

Robust differentiation of human enteroendocrine cells from intestinal stem cells
Daniel Zeve, Eric Stas, Joshua de Sousa Casal, Prabhath Mannam, Wanshu Qi, Xiaolei Yin, Sarah Dubois, Manasvi S. Shah, Erin P. Syverson, Sophie Hafner, Jeffrey M. Karp, Diana L. Carlone, Jose Ordovas-Montanes, David T. Breault

Single cell RNA-seq identifies developing corneal cell fates in the human cornea organoid
George Maiti, Maithe Rocha Monteiro de Barros, Nan Hu, Mona Roshan, Karl J Wahlin, Shukti Chakravarti

Effects of α-crystallin gene knockout on zebrafish lens development
Mason Posner, Kelly Murray, Brandon Andrew, Stu Brdicka, Alexis Butterbaugh-Roberts, Kirstan Franklin, Adil Hussen, Taylor Kaye, Emmaline Kepp, Mathew McDonald, Tyler Snodgrass, Keith Zientek, Larry David

Impact of carbon monoxide on early cardiac development in an avian model
Filipa Rombo Matias, Ian Groves, Mari Herigstad

Induced reprogramming of adult murine cardiomyocytes to pluripotency in vivo
Irene de Lázaro, Tiara L Orejón-Sánchez, Christina M Tringides, David J Mooney

Single-cell resolution of MET- and EMT-like programs in osteoblasts during zebrafish fin regeneration
W. Joyce Tang, Claire J. Watson, Theresa Olmstead, Christopher H. Allan, Ronald Y. Kwon

FUCCI-based live imaging platform reveals cell cycle dynamics and identifies pro-proliferative compounds in human iPSC-derived cardiomyocytes
Francesca Murganti, Wouter Derks, Marion Baniol, Irina Simonova, Katrin Neumann, Shahryar Khattak, Kaomei Guan, Olaf Bergmann

Human embryos arrest in a quiescent-like state characterized by metabolic and zygotic genome activation problems
Yang Yang, Liyang Shi, Xiuling Fu, Gang Ma, Zhongzhou Yang, Yuhao Li, Yibin Zhou, Lihua Yuan, Ye Xia, Xiufang Zhong, Ping Yin, Li Sun, Zhang Wuwen, Isaac A. Babarinde, Yongjun Wang, Xiaoyang Zhao, Andrew P. Hutchins, Guoqing Tong

RNAi screen of RING/U-box domain ubiquitin ligases identifies critical regulators of tissue regeneration in planarians
John M. Allen, Madison Balagtas, Elizabeth Barajas, Carolina Cano Macip, Sarai Alvarez Zepeda, Ionit Iberkleid, Elizabeth M. Duncan, Ricardo M. Zayas

Kismet/CHD7/CHD8 affects gut biomechanics, the gut microbiome, and gut-brain axis in Drosophila melanogaster
Angelo Niosi, Nguyên Henry Võ, Punithavathi Sundar, Chloe Welch, Aliyah Penn, Yelena Yuldasheva, Adam Alfareh, Kaitlin Rausch, Takhmina Rukhsar, Jeffery Cavanaugh, Prince Yadav, Stephanie Peterson, Raina Brown, Alain Hu, Any Ardon-Castro, Darren Nguyen, Robert Crawford, Wendy Lee, Mikkel Herholdt Jensen, Eliza J. Morris, Kimberly Mulligan

Retinoic acid signaling mediates peripheral cone photoreceptor survival in a mouse model of retina degeneration
Ryoji Amamoto, Grace K. Wallick, Constance L. Cepko

Prolyl-hydroxylase inhibitor-induced regeneration of alveolar bone and soft tissue in a mouse model of ligature-induced periodontitis
Elan Zebrowitz, Tetsuhiro Kajikawa, Kamila Bedelbaeva, Azamat Aslanukov, Sam Bollinger, Yong Zhang, David Sarfatti, Jing Cheng, Phillip B. Messersmith, George Hajishengallis, Ellen Heber-Katz

Snrpb, the gene mutated in CCMS, is haploinsufficient and required in neural crest cells for proper splicing of developmentally important genes essential for craniofacial morphogenesis
Sabrina Shameen Alam, Shruti Kumar, Marie-Claude Beauchamp, Eric Bareke, Alexia Boucher, Nadine Nzirorera, Reinnier Padilla, Si Jing Zhang, Jacek Majewski, Loydie A. Jerome-Majewska

External sensory organs in Parhyale legs from Almazán, et al.

Regenerated crustacean limbs are precise replicas
Alba Almazán, Çağrı Çevrim, Jacob M. Musser, Michalis Averof, Mathilde Paris

Monosomy X in isogenic human iPSC-derived trophoblast model impacts expression modules preserved in human placenta
Darcy T. Ahern, Prakhar Bansal, Isaac Faustino, Yuvabharath Kondaveeti, Heather R. Glatt-Deeley, Erin C. Banda, Stefan F. Pinter

Myosin phosphatase target subunit 1 governs integrity of the embryonic gut epithelium to circumvent atresia development in medaka, Oryzias latipes
Daisuke Kobayashi, Kazuhiko Matsuo, Tetsuaki Kimura, Satoshi Ansai, Hayato Yokoi, Shigeo Takashima, Tadao Kitagawa, Takahiro Kage, Takanori Narita, Tomoko Jindo, Masato Kinoshita, Kiyoshi Naruse, Yoshiro Nakajima, Masaki Shigeta, Shinichiro Sakaki, Satoshi Inoue, Rie Saba, Kei Yamada, Takahiko Yokoyama, Yuji Ishikawa, Kazuo Araki, Yumiko Saga, Hiroyuki Takeda, Kenta Yashiro

Manipulating the microbiome alters regenerative outcomes in Xenopus laevis tadpoles via lipopolysaccharide signalling
Phoebe A. Chapman, Campbell B. Gilbert, Thomas J Devine, Daniel T. Hudson, Joanna Ward, Xochitl C. Morgan, Caroline W. Beck

Over-expression of wild-type ACVR1 in fibrodysplasia ossificans progressiva mice rescues perinatal lethality and inhibits heterotopic ossification
Masakazu Yamamoto, Sean J. Stoessel, Shoko Yamamoto, David J. Goldhamer

A phenotypic rescue approach identifies lineage regionalization defects in a mouse model of DiGeorge syndrome
Gabriella Lania, Monica Franzese, Adachi Noritaka, Marchesa Bilio, Annalaura Russo, Erika D’Agostino, Claudia Angelini, Robert G. Kelly, Antonio Baldini

Chemical induction of gut β-like-cells by combined FoxO1/Notch inhibition as a glucose-lowering treatment for diabetes
Takumi Kitamoto, Yun-Kyoung Lee, Wendy M. McKimpson, Hitoshi Watanabe, Nishat Sultana, Wen Du, Jason Fan, Bryan Diaz, Hua V. Lin, Rudolph L. Leibel, Sandro Belvedere, Domenico Accili

Stem cell specific interferon stimulated gene expression is regulated by the formative pluripotency network through IRF1
Merrit Romeike, Stephanie Spach, Marie Huber, Songjie Feng, Gintautas Vainorius, Ulrich Elling, Christa Buecker

Drosophila renal stem cells enhance fitness by delayed remodeling of adult Malpighian tubules
Chenhui Wang, Allan C. Spradling

HSC-independent definitive hematopoietic cells persist into adult life
Michihiro Kobayashi, Haichao Wei, Takashi Yamanashi, David J Shih, Nathalia Azevedo Portilho, Samuel Cornelius, Noemi Valiente, Chika Nishida, Wenjin J Zheng, Joonsoo Kang, Jun Seita, Jia Qian Wu, Momoko Yoshimoto

Gdnf, a germ cell-derived factor, regulates zebrafish germ cell stemness through the creation of new spermatogonial niches (germ and Sertoli cells) and inhibition of spermatogonial differentiation in an autocrine and paracrine manners
Lucas B. Doretto, Arno J. Butzge, Rafael T. Nakajima, Emanuel R. M. Martinez, Beatriz Marques, Maira da Silva Rodrigues, Ivana F. Rosa, Juliana M. B. Ricci, Aldo Tovo-Neto, Daniel F. Costa, Guilherme Malafaia, Changwei Shao, Rafael H. Nóbrega

Comparison of biological features of wild European rabbit mesenchymal stem cells derived from different tissues
Marta Díaz-de Frutos, Alexandra Calle, María Zamora-Ceballos, Juan Bárcena, Esther Blanco, Miguel Ángel Ramírez

M-CSF-stimulated myeloid cells can convert into epithelial cells to participate in re-epithelialization and hair follicle regeneration during skin wound healing
Yunyuan Li, Hatem Nojeidi, Ruhangiz T. Kilani, Aziz Ghahary

Canalized morphogenesis driven by inherited tissue asymmetries in Hydra regeneration
Lital Shani-Zerbib, Liora Garion, Yonit Maroudas-Sacks, Erez Braun, Kinneret Keren

Macrophages break interneuromast cell quiescence by intervening the inhibition of Schwann cells in zebrafish lateral line
Meng-Ju Lin, Chia-Ming Lee, Wei-Lin Hsu, Bi-Chang Chen, Shyh-Jye Lee

Nerve-mediated amputation-induced stem cell activation primes distant appendages for future regeneration events in axolotl
Duygu Payzin-Dogru, Sarah E. Wilson, Steven J. Blair, Burcu Erdogan, Shifa Hossain, Louis V. Cammarata, Juan C. Velazquez Matos, Alan Y. Wong, Julia Losner, Sangwon Min, Hani Singer, Jessica L. Whited

Ret loss-of-function decreases enteric neural crest progenitor proliferation and restricts developmental fate potential during enteric nervous system development
Elizabeth Vincent, Sumantra Chatterjee, Gabrielle H Cannon, Dallas Auer, Holly Ross, Aravinda Chakravarti, Loyal A Goff

The origin of mouse extraembryonic endoderm stem cell lines
Jiangwei Lin

| Plant development

Control of Leaf Vein Patterning by Regulated Plasmodesma Aperture
Nguyen Manh Linh, Enrico Scarpella

TWISTED DWARF1 regulates Arabidopsis stamen development by differential activation of ABCB-mediated auxin transport
Jie Liu, Roberta Ghelli, Maura Cardarelli, Markus Geisler

Reactive oxygen species signalling is involved in alkamide-induced alterations in root development
Tonatiu Campos-García, Jorge Molina-Torres, Kirk Overmyer

Arabidopsis root tips from Martin, et al.

Ethylene signaling increases reactive oxygen species accumulation to drive root hair initiation in Arabidopsis
R. Emily Martin, Eliana Marzol, Jose M. Estevez, Gloria K. Muday

Tomato SlBES1.8 influences leaf morphogenesis by mediating gibberellin metabolism and signaling
Deding Su, Wei Xiang, Qin Liang, Ling Wen, Yuan Shi, Yudong Liu, Zhiqiang Xian, Zhengguo Li

Sugar Signaling Induces Dynamic Changes During Meristem Development to Regulate Flowering in Arabidopsis
Magdalena Musialak-Lange, Katharina Fiddeke, Annika Franke, Friedrich Kragler, Christin Abel, Vanessa Wahl

Rice leaves undergo a rapid metabolic reconfiguration during a specific stage of primordium development
Naomi Cox, Heather J. Walker, James K. Pitman, W. Paul Quick, Lisa M. Smith, Andrew J. Fleming

PIN-FORMED1 polarity in the shoot is insensitive to the polarity of neighbouring cells
Abdul Kareem, Neha Bhatia, Carolyn Ohno, Marcus G. Heisler

CHIQUITA1 maintains temporal transition between proliferation and differentiation in Arabidopsis thaliana
Flavia Bossi, Benjamin Jin, Elena Lazarus, Heather Cartwright, Yanniv Dorone, Seung Y. Rhee

| Evo-devo

Nuclear localization and transactivation of SYS-1/β-catenin is the result of serial gene duplications and subfunctionalizations
Arielle K Wolf, Lori C Adams-Phillips, Amanda N D Adams, Albert J Erives, Bryan T. Phillips

Cellular development and evolution of the mammalian cerebellum
Mari Sepp, Kevin Leiss, Ioannis Sarropoulos, Florent Murat, Konstantin Okonechnikov, Piyush Joshi, Evgeny Leushkin, Noe Mbengue, Céline Schneider, Julia Schmidt, Nils Trost, Lisa Spänig, Peter Giere, Philipp Khaitovich, Steven Lisgo, Miklós Palkovits, Lena M. Kutscher, Simon Anders, Margarida Cardoso-Moreira, Stefan M. Pfister, Henrik Kaessmann

Adaptive tail-length evolution in deer mice is associated with differential Hoxd13 expression in early development
Evan P. Kingsley, Emily R. Hager, Jean-Marc Lassance, Kyle M. Turner, Olivia S. Harringmeyer, Christopher Kirby, Beverly I. Neugeboren, Hopi E. Hoekstra

Gene loss during a transition to multicellularity
Berenice Jiménez-Marín, Jessica B. Rakijas, Antariksh Tyagi, Aakash Pandey, Erik R. Hanschen, Jaden Anderson, Matthew G. Heffel, Thomas G. Platt, Bradley J. S. C. Olson

X-ray of a stickleback from Wucherpfennig, et al.

Evolution of stickleback spines through independent cis-regulatory changes at HOXDB
Julia I. Wucherpfennig, Timothy R. Howes, Jessica N. Au, Eric H. Au, Garrett A. Roberts Kingman, Shannon D. Brady, Amy L. Herbert, Thomas E. Reimchen, Michael A. Bell, Craig B. Lowe, Anne C. Dalziel, David M. Kingsley

The evolution of ovary-specific gene expression in Hawaiian Drosophilidae
Samuel H. Church, Catriona Munro, Casey W. Dunn, Cassandra G. Extavour

Cell Biology

Spatial and temporal requirement of Mlp60A isoforms during muscle development and function in Drosophila melanogaster
Rohan Wishard, Mohan Jayaram, S. R. Ramesh, Upendra Nongthomba

Eukaryotic translation initiation factor eIF4E-5 is required for spermiogenesis in Drosophila melanogaster
Lisa Shao, Jaclyn M. Fingerhut, Brook L. Falk, Hong Han, Giovanna Maldonado, Yuemeng Qiao, Vincent Lee, Elizabeth Hall, Liang Chen, Gordon Polevoy, Greco Hernández, Paul Lasko, Julie A. Brill

Unraveling the roles of Mast4 in amelogenesis via regulating DLX3 and stem cell maintenance of mouse incisors
Dong-Joon Lee, Pyunggang Kim, Hyun-Yi Kim, Jinah Park, Seung-Jun Lee, Haein An, Jin Sun Heo, Min-Jung Lee, Hayato Ohshima, Seiya Mizuno, Satoru Takahashi, Han-Sung Jung, Seong-Jin Kim

EXOSC10/Rrp6 is essential for the eight-cell embryo/morula transition
Fabrice G. Petit, Soazik P. Jamin, Pierre-Yves Kernanec, Emmanuelle Becker, Guillaume Halet, Michael Primig

Control of G2 phase duration by CDC25B modulates the switch from direct to indirect neurogenesis in the neocortex
Mélanie Roussat, Thomas Jungas, Christophe Audouard, Francois Medevielle, Alice Davy, Fabienne Pituello, Sophie Bel-Vialar

CADHERIN mediated AMIS localisation
Xuan Liang, Antonia Weberling, Chun Yuan Hii, Magdalena Zernicka-Goetz, Clare Buckley

Pre-meiotic pairing of homologous chromosomes during Drosophila male meiosis
Thomas Rubin, Nicolas Macaisne, Ana Maria Vallés, Clara Guilleman, Isabelle Gaugué, Jean-René Huynh

Cytoophidia in Drosophila ovarioles from Wu and Liu

CTP synthase does not form cytoophidia in Drosophila interfollicular stalks
Zheng Wu, Ji-Long Liu

The molecular logic of synaptic wiring at the single cell level
Jessica Velten, Rashi Agarwal, Patrick van Nierop, Katrin Domsch, Lena Bognar, Malte Paulsen, Lars Velten, Ingrid Lohmann

Ikaros family proteins regulate developmental windows in the mouse retina through convergent and divergent transcriptional programs
Awais Javed, Pierre Mattar, Allie Cui, Michel Cayouette

Sensory axons induce epithelial lipid microdomain remodeling and determine the distribution of junctions in the epidermis
Jeffrey B Rosa, Khaled Y Nassman, Alvaro Sagasti

The origins of placental mesenchymal stromal cells: Full spectrum flow cytometry reveals mesenchymal heterogeneity in first trimester placentae, and phenotypic convergence in culture
A.L. Boss, T. Damani, L.W. Chamley, J.L. James, A.E.S. Brooks

A particle size threshold governs diffusion and segregation of PAR-3 during cell polarization
Yiran Chang, Daniel J. Dickinson

De novo apical domain formation inside the Drosophila adult midgut epithelium
Jia Chen, Daniel St Johnston

Modelling

Mapping limb growth from Dalmasso, et al.

4D reconstruction of developmental trajectories using spherical harmonics
Giovanni Dalmasso, Marco Musy, Martina Niksic, Alexandre Robert-Moreno, Claudio Badía-Careaga, Juan J. Sanz-Ezquerro, James Sharpe

Continuum Theory for Planar Cell Polarity
Mohd Suhail Rizvi, Divyoj Singh, Mohit K. Jolly

Symmetry-Breaking in Plant Stems
Larry Harper, Greg Huey

On the origin of order
Jeffrey J. Fredberg

An Eulerian nonlinear elastic model for compressible and fluidic tissue with radially symmetric growth
Chaozhen Wei, Min W

Tools & Resources

Characterization of retinal development in 13-lined ground squirrels
Sangeetha Kandoi, Cassandra Martinez, Dana Merriman, Deepak A Lamba

A single-cell atlas of human fetal lung development between 14 and 19 weeks of gestation
Laurent Renesme, Flore Lesage, David Cook, Shumei Zhong, Satu Hänninen, Olli Carpén, Ivana Mižíková, Bernard Thébaud

Ureter single-cell and spatial mapping reveal cell types, architecture, and signaling networks
Emily E. Fink, Surbhi Sona, Uyen Tran, Pierre-Emmanuel Desprez, Matthew Bradley, Hong Qiu, Mohamed Eltemamy, Alvin Wee, Madison Wolkov, Marlo Nicolas, Booki Min, Georges-Pascal Haber, Oliver Wessely, Byron H. Lee, Angela H. Ting

Use of standard U-bottom and V-bottom well plates to generate neuroepithelial embryoid bodies
David Choy Buentello, Lena Sophie Koch, Grissel Trujillo-de Santiago, Mario Moisés Alvarez, Kerensa Broersen

Anatomic development of the upper airway during the first five years of life: A three-dimensional imaging study
Ying Ji Chuang, Seong Jae Hwang, Kevin A. Buhr, Courtney A. Miller, Gregory D. Avey, Brad H. Story, Houri K. Vorperian

Parhyale hawaiensis embryos from Sun, et al.

Identification and classification of cis-regulatory elements in the amphipod crustacean Parhyale hawaiensis
Dennis A Sun, Jessen V Bredeson, Heather S Bruce, Nipam H Patel

Modeling lung cell development using human pluripotent stem cells
Shuk Yee Ngan, Henry Quach, Joshua Dierolf, Onofrio Laselva, Jin-A Lee, Elena Huang, Maria Mangos, Sunny Xia, Christine E. Bear, Amy P. Wong

Rapid and robust directed differentiation of mouse epiblast stem cells into definitive endoderm and forebrain organoids
Daniel Medina-Cano, Emily K. Corrigan, Rachel Glenn, Mohammed Islam, Yuan Lin, Juliet Kim, Hyunwoo Cho, Thomas Vierbuchen

Single cell quantification of ribosome occupancy in early mouse development
Tori Tonn, Hakan Ozadam, Crystal Han, Alia Segura, Duc Tran, David Catoe, Marc Salit, Can Cenik

Single cell profiling of Hofbauer cells and fetal brain microglia reveals shared programs and functions
Alexis M Ceasrine, Rebecca Batorsky, Lydia L. Shook, Sezen Kislal, Evan A. Bordt, Benjamin A. Devlin, Roy H. Perlis, Donna K. Slonim, Staci D. Bilbo, Andrea G. Edlow

Single-cell transcriptome reveals insights into the development and function of the zebrafish ovary
Yulong Liu, Michelle E. Kossack, Matthew E. McFaul, Lana Christensen, Stefan Siebert, Sydney R. Wyatt, Caramai Kamei, Samuel Horst, Nayeli Arroyo, Iain Drummond, Celina E. Juliano, Bruce W. Draper

Transplantable human thyroid organoids generated from embryonic stem cells to rescue hypothyroidism
Mírian Romitti, Barbara de Faria da Fonsecaa, Gilles Doumont, Pierre Gillotay, Adrien Tourneur, Sema Elif Eski, Gaetan Van Simaeys, Laura Chomette, Helene Lasolle, Olivier Monestier, Dominika Figini Kasprzyk, Vincent Detours, Sumeet Pal Singh, Serge Goldman, Samuel Refetoff, Sabine Costagliola

A single-cell transcriptome atlas of human early embryogenesis
Yichi Xu, Tengjiao Zhang, Qin Zhou, Mengzhu Hu, Yao Qi, Yifang Xue, Lihui Wang, Zhirong Bao, Weiyang Shi

Rapid and efficient adaptation of the dTAG system in mammalian development reveals stage specific requirements of NELF
Abderhman Abuhashem, Anna-Katerina Hadjantonakis

Biological characteristics of two mesenchymal stem cell lines isolated from the umbilical cord and adipose tissue of a neonatal common hippo (Hippopotamus amphibius)
Jinpu Wei, Xiuxiu Dong, Bo Wang, Yajiang Wu, Wu Chen, Zhijun Hou, Chen Wang, Tao Wang

An expanded toolkit for Drosophila gene tagging using synthesized homology donor constructs for CRISPR mediated homologous recombination
Oguz Kanca, Jonathan Zirin, Yanhui Hu, Burak Tepe, Debdeep Dutta, Wen-Wen Lin, Liwen Ma, Ming Ge, Zhongyuan Zuo, Lu-Ping Liu, Robert W Levis, Norbert Perrimon, Hugo J Bellen

DNA force sensor from Jayachandran, et al.

A DNA-based optical force sensor for live-cell applications
Christina Jayachandran, Arindam Ghosh, Meenakshi Prabhune, Jonathan Bath, Andrew J. Turberfield, Lara Hauke, J&oumlrg Enderlein, Florian Rehfeldt, Christoph F. Schmidt

Heterogeneity and genomic loci of ubiquitous Cre reporter transgenes in zebrafish
Robert L. Lalonde, Cassie L. Kemmler, Fréderike W. Riemslagh, Andrew J. Aman, Jelena Kresoja-Rakic, Hannah R. Moran, Susan Nieuwenhuize, David M. Parichy, Alexa Burger, Christian Mosimann

A spectral demixing method for high-precision multi-color localization microscopy
Leonid Andronov, Rachel Genthial, Didier Hentsch, Bruno P. Klaholz

A Single-copy Knock In Translating Ribosome ImmunoPrecipitation (SKI TRIP) tool kit for tissue specific profiling of actively translated mRNAs in C. elegans
Laura E. Wester, Anne Lanjuin, Emanuel H. W. Bruckisch, Maria C. Perez Matos, Caroline Heintz, Martin S. Denzel, William B. Mair

Enhanced microvasculature formation and patterning in iPSC–derived kidney organoids cultured in physiological hypoxia
A. Schumacher, N. Roumans, T. Rademakers, V. Joris, M. Eischen-Loges, M. van Griensven, V.L.S. LaPointe

Extracellular Matrix protein gelatin provides higher expansion, reduces size heterogeneity, and maintains cell stiffness in a long-term culture of mesenchymal stem cells
Pankaj Mogha, Shruti Iyer, Abhijit Majumder

An improved organ explant culture method reveals stem cell lineage dynamics in the adult Drosophila intestine
Marco Marchetti, Chenge Zhang, Bruce A. Edgar

Label-free Cell Tracking Enables Collective Motion Phenotyping in Epithelial Monolayers
Shuyao Gu, Rachel M. Lee, Zackery Benson, Chenyi Ling, Michele I. Vitolo, Stuart S. Martin, Joe Chalfoun, Wolfgang Losert

Tabula Microcebus: A transcriptomic cell atlas of mouse lemur, an emerging primate model organism
The Tabula Microcebus Consortium, Camille Ezran, Shixuan Liu, Stephen Chang, Jingsi Ming, Olga Botvinnik, Lolita Penland, Alexander Tarashansky, Antoine de Morree, Kyle J. Travaglini, Kazuteru Hasegawa, Hosu Sin, Rene Sit, Jennifer Okamoto, Rahul Sinha, Yue Zhang, Caitlin J. Karanewsky, Jozeph L. Pendleton, Maurizio Morri, Martine Perret, Fabienne Aujard, Lubert Stryer, Steven Artandi, Margaret Fuller, Irving L. Weissman, Thomas A. Rando, James E. Ferrell Jr., Bo Wang, Iwijn De Vlaminck, Can Yang, Kerriann M. Casey, Megan A. Albertelli, Angela Oliveira Pisco, Jim Karkanias, Norma Neff, Angela Wu, Stephen R. Quake, Mark A. Krasnow

Agaricomycetes from Nagy, et al.

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes
László G. Nagy, Peter Jan Vonk, Markus Künzler, Csenge Földi, Máté Virágh, Robin A. Ohm, Florian Hennicke, Balázs Bálint, Árpád Csernetics, Botond Hegedüs, Zhihao Hou, Xiao-Bin Liu, Shen Nan, Manish Pareek, Neha Sahu, Benedek Szathmári, Torda Varga, Hongli Wu, Xiao Yang, Zsolt Merényi

STRAIGHT-IN: A platform for high-throughput targeting of large DNA payloads into human pluripotent stem cells
Catarina Grandela, Albert Blanch-Asensio, Karina O. Brandão, Tessa de Korte, Loukia Yiangou, Mervyn P.H. Mol, Berend J. van Meer, Christine L. Mummery, Richard P. Davis

Light-sheet scattering microscopy to visualize long-term interactions between cells and extracellular matrix
Xiangda Zhou, Renping Zhao, Archana K. Yanamandra, Markus Hoth, Bin Qu

Search for temporal cell segmentation robustness in phase-contrast microscopy videos
Estibaliz Gómez-de-Mariscal, Hasini Jayatilaka, Özgün Çiçek, Thomas Brox, Denis Wirtz, Arrate Muñoz-Barrutia

A Combined Immunophenotypic And Transcriptional Single-Cell Map Of First Trimester Human Fetal Liver Hematopoiesis
Mikael N.E. Sommarin, Rasmus Olofzon, Sara Palo, Parashar Dhapola, Göran Karlsson, Charlotta Böiers

Single-cell transcriptome atlas of Drosophila gastrula 2.0
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Research practice & education

Scholar Metrics Scraper (SMS): automated retrieval of citation and author data
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An effective workshop on “How to be an Effective Mentor for Underrepresented STEM Trainees”
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The Effect of COVID-19 on the Postdoctoral Experience: a comparison of pre-pandemic and pandemic surveys
Andréanne. Morin, Britney A. Helling, Seetha. Krishnan, Laurie E. Risner, Nykia D. Walker, Nancy B. Schwartz

Improving Lab Culture through Self-Assessment: A Case Study
Soleil Hernandez, Raymond Mumme, Laurence Court, Daniel El Basha, Skylar Gay, Barbara Marquez, Yao Xiao, Kai Huang, Hana Baroudi, Wenhua Cao, Carlos Cardenas, Raphael Douglas, Jack Duryea, Zaphanlene Kaffey, Deborah Mann, Kelly Nealon, Tucker Netheron, Callistus Nguyen, Kyuhak Oh, Adenike Olanrewaju, Carlos Sjogreen, DJ Rhee, Jinzhong Yang, Cenji Yu, Lifei Zhang, Yao Zhao, Hamid Ziyaee, Mary Gronberg

Promising or problematic? Perceptions of active learning from STEM students with ADHD and specific learning disabilities
Mariel A. Pfeifer, Julio J. Cordero, Julie Dangremond Stanton

The Role of Mentoring in Promoting Diversity, Equity, and Inclusion in STEM Education and Research
Andrea G. Marshall, Zer Vue, Caroline B. Palavicino-Maggio, Elsie C. Spencer, Heather K. Beasley, Edgar Garza-Lopez, Zachary Conley, Kit Neikirk, Sandra A. Murray, Denise Martinez, Jamaine Davis, Lillian Brady, Haysetta D. Shuler, Derrick Morton, Antentor Hinton Jr.

Analysis of science journalism reveals gender and regional disparities in coverage
Natalie R. Davidson, Casey S. Greene

A remote lecture series roadmap to equity, diversity, and inclusion in STEM
Evan A. Boyle, Gabriela Goldberg, Jonathan C. Schmok, Jillybeth Burgado, Fabiana Izidro Layng, Hannah A. Grunwald, Kylie M. Balotin, Michael S. Cuoco, Keng-Chi Chang, Gertrude Ecklu-Mensah, Aleena K. S. Arakaki, Noorsher Ahmed, Ximena Garcia Arceo, Pratibha Jagannatha, Jonathan Pekar, Mallika Iyer, DASL Alliance, Gene W. Yeo

Enhancing Quantitative and Data Science Education for Graduate Students in Biomedical Science
Louis J. Gross, Rachel Patton McCord, Sondra LoRe, Vitaly V. Ganusov, Tian Hong, W. Christopher Strickland, David Talmy, Albrecht G. von Arnim, Greg Wiggins

Using a Champion-Oriented Mindset to Overcome the Challenges of Graduate School
Andrea G. Marshall, Caroline B. Palavicino-Maggio, Kit Neikirk, Zer Vue, Heather Beasley, Edgar Garza-Lopez, Sandra Murray, Denise Martinez, Jamaine Davis, Haysetta Shuler, Elsie C. Spencer, Derrick Morton, Antentor Hinton Jr

The Importance of Mentors and How to Handle More Than One Mentor
Andrea G. Marshall, Lillian J. Brady, Caroline B. Palavicino-Maggio, Kit Neirkirk, Zer Vue, Heather Beasley, Edgar Garza-Lopez, Sandra Murray, Denise Martinez, Haysetta Shuler, Elsie C. Spencer, Derrick Morton, Antentor Hinton Jr

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Community Manager for Microscopy Community Site FocalPlane

Posted by , on 4 January 2022

Journal of Cell Science and its publisher The Company of Biologists are seeking to appoint a new Community Manager to run our microscopy community website, FocalPlane.

Launched in 2020, FocalPlane is a curated and centralised platform for the microscopy community to share news and techniques, discuss issues relevant to the field and read about the latest research and events. We are now looking for an enthusiastic and motivated person with fresh ideas and a willingness to learn to join us to develop and maintain this site.

Core responsibilities of the position include:

• Creating and commissioning content for FocalPlane, including writing posts and soliciting content from the academic community, societies, companies and other organisations

• Providing user support and ensuring site functionality on a day-to-day basis

• Providing creative and practical input into the development of the site

• Maintaining and developing the site’s presence on social networking sites such as Facebook and Twitter

• Representing Journal of Cell Science and FocalPlane at international conferences

Essential skills:

• PhD in a relevant scientific field, ideally with experience of microscopy

• Willingness to grow and develop knowledge of microscopy

• Demonstrable ability to write for an online audience and/or produce social media content

• Clear understanding of the online environment as it applies to scientists

• Excellent interpersonal and communication skills

• Strong networking abilities online and in person

Desirable:

• Experience with additional media (e.g. video or podcasting)

• Experience with WordPress

• Contacts within the microscopy community

This is an exciting opportunity to develop a hub for the microscopy community – in a similar vein to the Company’s established community site for developmental biologists, the Node – and to engage with relevant people at all levels: academics, developers, facilities, institutes and companies. The Community Manager will work alongside an experienced in-house team, including the Executive Editor of Journal of Cell Science. Additional responsibilities may be provided for the right candidate.

The Company of Biologists exists to support biologists and inspire advances in biology. At the heart of what we do are our five specialist journals – Development, Journal of Cell Science, Journal of Experimental Biology, Disease Models & Mechanisms and Biology Open. All are edited by expert researchers in the field, and all articles are subjected to rigorous peer review. We believe that the profits from publishing the hard work of biologists should support scientific discovery and help develop future scientists. Our grants help support societies, meetings and individuals. Our workshops and meetings give the opportunity to network and collaborate.

The Company of Biologists is an inclusive organisation and we believe that everyone has a contribution to make. We want all our employees to feel included, valued and appreciated. We believe in equality of opportunity for all staff and encourage applications from all individuals regardless of sexual orientation, gender identity or expression, religion, ethnicity, age, neurodiversity, disability status and citizenship.

Applicants should send a CV along with a covering letter that summarises their relevant experience, and in particular any specific microscopy/image analysis skills, and includes links to any online activities, salary expectations, and details about why they are enthusiastic about this opportunity.

Applications and informal queries should be sent by email to recruitment@biologists.com by 31 January 2022. We may request written tests in advance of any interview.

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