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Catch up on Development presents… July webinar on plant development

Posted by , on 2 August 2024

The July 31st Development presents… webinar was chaired by Development Editor Dominique Bergmann (Stanford University) and featured three talks on plant development. Catch up on the talks below.

Sign up to upcoming Development presents… webinars and catch up on previous talks: https://thenode.biologists.com/devpres/

Martina Cerise (Max Planck Institute for Plant Breeding Research)

Talk and Q&A

Vicky Spencer (Gregor Mendel Institute)

Talk and Q&A

Gwendolyn K. Kirschner (The James Hutton Institute)

Talk and Q&A
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Open Biology Open Questions competition

Posted by , on 30 July 2024

We are excited to announce the launch of Open Biology’s inaugural Open Questions competition. Submit a pressing, understudied or interesting ‘open question’ in cellular and molecular biology.

Participants have the chance to win an overall prize of £1,000 and enjoy a full Article Processing Charge (APC) waiver – submit your article before 31 October 2024.

Find out more: https://royalsocietypublishing.org/rsob/oq-prize

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Sci-Art: Harnessing the power of creativity to promote more inclusive learning opportunities 

Posted by , on 24 July 2024

Over the past year and a half, I had the opportunity to participate in the UW-Madison Kohler Fellowship Program. In this program, an artist is paired with a scientist to create a science-art fusion project, some goals of which include fostering cross disciplinary communication and increasing the accessibility of scientific concepts through art. Though I was accepted into this program as a science fellow, my partner, Sharon Tang, and I both consider ourselves artist-scientists. Sharon is a PhD candidate in the Cell and Molecular Biology program and an avid muralist, while I’m a Genetics PhD candidate and composer/musician. Together we leveraged our scientific knowledge and artistic expertise to create “Genetic Symphonies: the building Hox of life”.   

A wooden podium has a music staff laser cut on the surface. The music staff bends and gradually transitions to a DNA double helix. On the music staff are 13 black buttons, with colored note stems. The podium reads “Genetic Symphonies: Building Hox of life” at the top left and contains a scannable QR code in the bottom left for users to obtain more information. A large rectangular speaker sits in the center of the podium with text to describe the installation to the right. The descriptive text reads: “Hox genes are important for development in both vertebrates and invertebrates. Unlike other genes, Hox genes must be activated in a specific order (head to tail) for development to occur. In vertebrates, there are 13 groups of Hox genes, represented here as 13 “building blocks”. Can YOU orchestrate the development of a human by using the music note buttons to activate Hox genes in the correct sequence? Each button turns on a building block with light and music. Take note of the color of the button stem and listen for the number of instruments playing to help you find the correct order.”
“Podium”: The control panel for “Genetic Symphonies: Building Hox of life” contains 13 black buttons arranged on a music staff that was laser cut into wood. The stem of each music note is color coded to match its corresponding Hox box. Buttons must be pressed in the correct order to activate Hox gene expression in the corresponding box.

As most developmental biologists know, Hox genes are transcription factors critical for patterning the skeletal axes. They also remain one of science’s biggest mysteries; we still have yet to determine what Hox genes actually regulate to control developmental and adult homeostatic processes. In addition to the mysterious mechanisms of action, Hox genes possess unique properties (clustered chromosomal arrangement, spatio-temporal expression pattern, regional restriction) that lend nicely to artistic manipulation and exploration. 

Sharon and I took advantage of these features to generate an interactive, multi-modal exhibit. In our exhibit, 13 paralogous groups of Hox genes are represented by 13 painted building blocks, affectionately referred to as “Hox boxes”. Likewise, there are 13 color-coded, randomized, buttons that control each “Hox box” on an accompanying podium. Participants must activate gene expression, via a button press, and determine the correct order of Hox gene activation (head to tail). Each correct button press produces light in the corresponding box and sounds a unique measure of music. With each successive, correct, button press participants develop their own genetic symphony and an abstract human figure via lights. By conveying development through both light and sound, we also increase the accessibility of our exhibit. 

Want to know more about Genetic Symphonies: Building Hox of life? Check out Behind Building: Hox ! At this site, you can find more information about the construction, fabrication, composition, and electronics of the exhibit. 

A large wooden panel is painted with green leaves and a river in the background. 13 painted, wooden boxes sit on top of the panel and are painted various colors to blend animals outlined with white lines, including an elephant, lizard, butterfly wing, squirrel, fish,and flamingo. Within all of the animals, a hidden, abstract human is lit up. This figure is reflected in the foreground on a tile floor. 
“Lights on”: When all 13 buttons are pressed in the correct order, a hidden abstract human figure illuminates from within the boxes. 
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New genome reveals ancient toolkit

Posted by , on 23 July 2024

Hydractinia symbiolongicarpus is an emerging model to understand stem cell evolution

Stem cells can’t hide what they are. At least, that’s the takeaway from the newly sequenced genomes of two colonial hydroids, Hydractinia symbiolongicarpus and Hydractinia echinata. I recently sat down with Dr. Christine Schnitzler of UF’s Whitney Laboratory for Marine Bioscience to talk about her experience assembling these genomes — a huge collaboration that started pre-pandemic, slowed down during the pandemic, and finally culminated in a paper published in Genome Research in March. Our conversation covered topics spanning from the logistics of large collaborations (including the need to find the right people), the shared molecular vocabulary that stems from genome projects, and the scientific merit of studying emerging systems.

Hydractina are colonial cnidarians, a group that consists of anthozoans (sea anemones and corals), schyphozoans (co-called “true” jellyfish), cubozoans (box jellyfish), and hydrozoans (Hydra and Hydractinia). Cnidarians have an informative phylogenetic position as sister to bilaterians. In addition to providing evolutionary insights, many cnidarian species — including Hydractinia symbiolongicarpus — are exceptionally good at regenerating. Schnitzler’s lab is studying Hydractinia symbiolongicarpus to understand how interstitial stem cells, or i-cells, impact an organism’s ability to regenerate.

“All genome projects are huge,” said Schnitzler. “I would never have been able to do this myself.”

This particular project has been 10 years in the making. In that time, sequencing technologies and analyses kept changing. The research team opted to swap the Illumina short-read platform for Pac-Bio long-read sequencing to dig deeper into two unconventional model organisms: Hydractinia echinata and Hydractinia symbiolongicarpus.

The genomes of these two cnidarians had a few surprises. First, the two genomes were quite different in size — Hydractinia echinata was 775MB and Hydractinia symbiolongicarpus was 514MB. And that’s not just based on sequence. The research team isolated single cells, stained nuclei with propidium iodide and ran them through a flow cytometer against a known standard. Second, based on the researchers’ analysis, these two species’ genomes diverged around 19 million years ago. That may seem like a long time, but if you consider that two different strains of the same species of jellyfish are estimated to have diverged 45 million years ago, then a true species divergence 19 million years ago is surprisingly recent.

“I thought that was pretty cool,” said Schnitzler.

Genomes offer a common language for biologists to understand similarities (and, importantly, differences) between species. To that end, Schnitzler’s team took a lot of time and care into making this resource available for anybody with even a cursory interest. They also developed a web portal for both Hydractinia species that allows curious biologists to dive deeper into a very, very granular level of gene evolution between two closely related genomes. They also generated a single cell RNAseq browser.

“That’s kind of fun. The whole point is to make this genome accessible and useful to the community,” said Schnitzler. “It was a priority for us to build that resource, which was not easy,” she added with a laugh.

“Collaboration is key. And having the right people is very helpful.”

At the end of our discussion, I gave Schnitzler a chance to respond to the “Questions For The Author” from PreLighter Isabella Cisneros who spotlighted the preprint last September (check out the PreLight article here). I’ve included her questions, numbered 1–3, as well as Schnitzler’s responses below.

Questions For The Authors (from PreLighter Isabella Cisneros):

1. How do you reconcile the large number of shared i-cell marker genes with the higher proportions of phylum-specific and cnidarian-specific genes in the H. symbiolongicarpus genome?

We took the entire genome and ran an orthology clustering of all predicted proteins from 49 other animals, including 16 cnidarians. We put them into bins once we got the clusters back. Are these genes in a “multi-species orthogroup?” That means they group with genes from animals outside of cnidarians, so they’re shared more widely. A lot of the other categories were cnidarian-specific.

Figure 2 from Schnitzler et al., 2024. Genome Res.

This graph shows just the cnidarians and a few other animal outgroups. Those two [asterisked] red bars are further out than all the other cnidarians — they had the highest proportion of genes in their genome that were specific to their phylum.

If you apply that same clustering to the most highly expressed genes that are specific to just the i-cells, we found that i-cell genes are mostly shared with other animals (that was the title of the paper).

How do I reconcile that? I think it means that stem cells are exactly what they are.

They’re undifferentiated cells that have to use basic cell characteristics — cell cycle genes, genes that help with proliferation, genes that are involved in maintaining stemness — and these are universal things that all animals have developed and retained throughout evolution.

That does not mean that stem cells of Hydractinia are exactly homologous to the stem cells of other animals. Cell types can evolve very quickly, but the underlying genes that make stem cells stem cells are very highly conserved.

There are a lot of cnidarian-specific genes in their genomes. It’s just in their stem cells, they’re not using those very much. But when you think about stem cells, they’re not really unique to cnidarians. All animals have some type of a stem cell — that’s just how it works.

2. Towards the end of the preprint, you claim that it remains unclear whether other animals share the same toolkit of genes, or whether these toolkits are instead partially overlapping. While further studies will be necessary to determine this, at this stage, what do you anticipate to be the case?

It’s very hard to relate cell types and say they have a shared evolutionary origin of the cell type. If you look at stem cells in Hydractinia and then look at stem cells in planarians, they have a lot of shared characteristics. But what about all the animals in between? Where did their stem cells go? I think that’s a very interesting question.

I think getting down to this core level of genes and gene regulatory networks that are controlling these types of cells, to me, might be more interesting and more informative from an evolutionary perspective than trying to absolutely say this cell type first arose at some point and then shifted. It’s not really about the cell types. It’s more about the core genes that are involved and finding out their function. And it’s really hard. I think the only way really is to drill down on function within several animals and then try to see if they relate to each other.

It’s good to look at informative positions on the tree, as a lot of people try to do, and try to gain as much insight as you can from looking at those different places. I don’t think there’s going to be 100% overlap. But I think there will be themes that emerge — categories of genes that may be similar. You could group them by orthology, but maybe not exactly by BLAST.

It’s a question for the future. I think people are trying to tackle it, but it’s going to take more than these genome-wide approaches. We’ll have to go back to the lab and do functional testing to get at those questions.

3. Given the different evolutionary trajectories that H. symbiolongicarpus and H. echinata have followed since divergence, what kinds of studies would be better suited for each species, if any? What could be gained by using both species in a comparative framework?

Most people have dropped H. echinata as a research organism. It’s got a bigger genome that’s not as well assembled. And no one’s maintaining them in the lab, anymore. They’re just harder to keep in culture long term. There may be some ecological and other questions that might be more interesting with echinata, and it would be cool if someone picks it up now that the genome is available.

On the other hand, H. symbiolongicarpus just grows and grows and grows indefinitely. After years and years of being in culture, we can still get them to spawn on a weekly basis and get tons of embryos. It also has a smaller genome that ended up with a better assembly.

Smaller genome, easier lab culture all of that screams, “Work on this one!”

So for us, the path forward is symbiolongicarpus. Now we can talk and really understand each other when we’re talking about a particular gene or a particular process. Now we have this resource. It’s a starting point.

One interesting thing to think about is what is unique about Hydractinia biology? I like Hydractinia because it is different. It’s colonial with a polymorphism of polyp types. We have feeding polyps, sexual polyps, defensive polyps. Because we have this diversity just within a single colony, there are a lot more questions to ask. It’s a different type of development, a different kind of asexual reproduction.

The other thing that I think is super cool is its lifecycle. It’s a hydrozoan that has lost the medusa stage. So there’s no jellyfish stage. Its next closest sister group is Podocoryna carnea, which does have a polyp and a medusa stage. That genome is being sequenced now. So when we have these two genomes — Podocoryna and Hydractinia — you can now start to understand the difference between a hydrozoan genome that produces the medusa jellyfish and the genome that doesn’t. I think some of these comparative studies with new genomes are really, really exciting. And I think with unlimited resources, we would have perfectly assembled genomes for those two groups and start doing more experiments to try to understand the unique biology of Hydractinia.

One thing our paper does not really focus on is regeneration. Hydractinia symbiolongicarpus is a model of regeneration. There’s a huge amount of knowledge we can learn by studying regeneration in this animal. There’s been some seminal ground laying papers about regeneration in this model, but doing updated studies, which we have some data, hopefully soon we can update and talk more about how this animal achieves its amazing regenerative abilities.

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Development presents… August webinar on neurodevelopment and disorders

Posted by , on 23 July 2024


On the topic of neurodevelopment and disorders and chaired by Development Editor, Debby Silver (Duke University).

Wednesday 7 August – 16:00 BST

Marcella Birtele (University of Southern California)
‘Non-canonical function of the top ASD-associated gene SYNGAP1’

Onur Iyilikci (Yale University)
‘Regulation of sociability by ‘hunger’ neurons during early development’

Fay Cooper (University of Sheffield)
‘Can hPSC-derived neural crest be used to treat Hirschsprung’s disease?’

At the speakers’ discretion, the webinar will be recorded for viewing on demand. To see the other webinars scheduled in our series, and to catch up on previous talks, please visit: thenode.biologists.com/devpres

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SciArt Profile: Friedrich Bliem

Posted by , on 17 July 2024

In this SciArt profile, we meet Friedrich Bliem, who has a background in cell biology and scientific illustration and has been creating “Art in Science” paintings for decades.

Can you tell us about your background and what you work on now?

I am Austrian and have spent a total of 24 years in the USA, UK and Australia, where I was raised. As the son of a freelance artist, I practiced the skills of drawing and painting from an early age and in my teens focussed on later enrolling in the University of Applied Arts, Vienna. Music had also been a passion and I co-founded the successful Austrian music group, Misthaufen, which is still active today.

Despite my interests in both music and art, I also had an innocent fascination for science based on the link between art and music. So, in pursuit of this interest, I chose first to enroll in a natural sciences and engineering course at a Viennese university, which was then renamed Biotechnology.

Concomittantly, I continued my art training with non-formal education, especially under the expressionist artist, Rudolf Macek.

After completing my university studies in 1981, I moved to Cambridge, England, where I continued to paint.

I had always had a passion for drawing cartoons as it allowed me to reflect on my social environment without having to say sorry. This passion motivated me to approach the Elsevier Publications office in Cambridge with some ideas and examples of my work. Soon I found a successful niche as scientific illustrator and cartoonist for various publishers.

Encouraged by the Cambridge environment, as well as my work as illustrator, I began working on scientific, especially cell biological, subject matters. This culminated in a solo exhibition in Cambridge, UK, 1984 (“Art in vivo”). As such, I might be said to be a fore-runner of today´s so-called SciArt movement.

However, in 1988 I decided to devote my time to science, before again returning to art. This period lasted 25 years!

Cells Tissues Organs
Watercolour, 30×45 cm
1987

Were you always going to be a scientist?

No, not really. Like so many youngsters I had a chemistry set and developed a fascination for chemistry, but the continuous smell of turps and oil in our house always drew me back to drawing and painting. Music was simply another form of expression. The intensive engagement in music led me to question the connection between music and art. I was convinced there was a physical connection, but also realised that I simply didn´t have the theoretical knowledge to proceed. This was the sole reason for choosing a study programme with a broad curriculum both in biology and engineering over art school.   

Evolution
Oils on panel, 50×70 cm
2023

And what about art – have you always enjoyed it?

Well, yes and no. I wouldn´t speak of joy. My relationship with Art was set in a much deeper fashion as just to be enjoyed. It was an intuitive means of expression that came easily, be it fine art or music, which found some success, even in school days, and of course in which I reveled.  But it also stemmed from an admiration for my father and our complex relationship.

Fungal scene
Watercolour, 30×40 cm
1988

What or who are your most important artistic influences?

Of course my father, whose work was largely impressionistic. And Rudolf Macek, who was clearly an expressionist of the 1950´s and 60´s. And from the public figures first and foremost they were and are Franz Marc, Wassily Kandinsky, August Renoir; painters of the romantic period, such as Ferdinand Waldmüller, and of course the old masters such as Jan Vermeer or Salomon van Ruysdael.

Mitochondrium 4
Oils on linen, 50×60 cm
2024

How do you make your art?

Today I only paint, on canvas or panels, in oils, sometimes with a draft drawing in acrylic. The Cambridge atmosphere lends itself to watercolours, which is well accepted.

Neuron
Acrylics and oils on panel, 70×135 cm
1985

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

Whereas my scientific subjects definitely reflect my knowledge of cell biology, art has tuned my visual sensitivity to aesthetics in science and engineering, e.g. a factory with its piping systems or SEM photos of fungal hyphae and conidia. This has even, to some extent, determined significant professional choices I have made.

Compostion of the Self
Oils on panel, 50×60 cm
2024

What are you thinking of working on next?

I will continue to expand on my scientific themes, one of which is the concept of evolution. But I also have a  “macrobiological” subject, in which I seek to capture the essence of animals in their environment.

And presently I am preparing for 2 exhibitions.

How can people find more about you?

I have a website: www.sciart.at and am presented on the website https://sciencemeets.art/

Friedrich Bliem
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Development presents… July webinar on plant development

Posted by , on 16 July 2024


On the topic of plant development and chaired by Development Editor, Dominique Bergmann (Stanford University).

Wednesday 31 July – 16:00 BST

Martina Cerise (Max Planck Institute for Plant Breeding Research)
‘In plants, the organization of the apical stem-cell niche changes dynamically during the floral transition’

Vicky Spencer (Gregor Mendel Institute)
‘‘How to build a plant: Small meristems have big consequences’

Gwendolyn K. Kirschner (The James Hutton Institute)
‘Control of the root gravitropic set-point angle in barley’

At the speakers’ discretion, the webinar will be recorded for viewing on demand. To see the other webinars scheduled in our series, and to catch up on previous talks, please visit: thenode.biologists.com/devpres

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June in preprints

Posted by , on 10 July 2024

Welcome to our monthly trawl for developmental and stem cell biology (and related) preprints.

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

Developmental biology

Cell Biology

Modelling

Tools & Resources

Developmental biology

| Patterning & signalling

Metabolic control by the Bithorax Complex-Wnt signaling crosstalk in Drosophila

Rajitha-Udakara-Sampath Hemba-Waduge, Mengmeng Liu, Xiao Li, Jasmine L. Sun, Elisabeth A. Budslick, Sarah E. Bondos, Jun-Yuan Ji

Single-cell profiling of penta- and tetradactyl mouse limb buds identifies mesenchymal progenitors controlling digit numbers and identities

Victorio Palacio, Anna Pancho, Angela Morabito, Jonas Malkmus, Zhisong He, Geoffrey Soussi, Rolf Zeller, Barbara Treutlein, Aimée Zuniga

Growth-induced physiological hypoxia correlates with growth deceleration during normal development

Yifan Zhao, Cyrille Alexandre, Gavin Kelly, Gantas Perez-Mockus, Jean-Paul Vincent

From Zhao et al. This image is made available under a CC-BY-NC 4.0 International license.

Metabolic activities are selective modulators for individual segmentation clock processes

Mitsuhiro Matsuda, Jorge Lázaro, Miki Ebisuya

mTORC2-mediated cell-cell interaction promote BMP4-induced WNT activation and mesoderm differentiation

Li Tong, Faiza Batool, Yueh-Ho Chiu, Yudong Zhou, Xiaolun Ma, Santosh Atanur, Wei Cui

Hypoxia-Sonic Hedgehog Axis as a Driver of Primitive Hematopoiesis Development and Evolution in Cavefish

Corine M. van der Weele, Katrina C. Hospes, Katherine E. Rowe, William R. Jeffery

Illuminating morphogen and patterning dynamics with optogenetic control of morphogen production

Dirk Benzinger, James Briscoe

Combinatorial Wnt signaling landscape during brachiopod anteroposterior patterning

Bruno C. Vellutini, José M. Martín-Durán, Aina Børve, Andreas Hejnol

Depolarization induces calcium-dependent BMP4 release from mouse embryonic palate mesenchyme

Mikaela L Follmer, Trevor Isner, Yunus H. Ozekin, Claire Levitt, Emily Anne Bates

Lineage-specific CDK activity dynamics characterize early mammalian development

Bechara Saykali, Andy D. Tran, James A. Cornwell, Matthew A. Caldwell, Paniz Rezvan Sangsari, Nicole Y. Morgan, Michael J. Kruhlak, Steven D. Cappell, Sergio Ruiz

Dachsous and Fat coordinately repress the Dachs-Dlish-Approximated complex to control growth

Hitoshi Matakatsu, Richard G. Fehon

Notch1 is required to maintain supporting cell identity and vestibular function during maturation of the mammalian balance organs

Alison Heffer, Choongheon Lee, Joseph C. Holt, Amy E. Kiernan

Bisphenol AF induces overactivation of primordial follicles via Hippo signaling and causes premature ovarian insufficiency in micev

Xiaoyang Liu, Mingxi Yu, Tiancheng Wang, Xiangdong Hu, Rui Zhong, Yuan Xiao, Yan Xu, Mei Zhang, Shuang Tang

Decorin enhances metabolic maturation by activating AMPK-PGC1A pathway in cardiac organoids

Myeong-Hwa Song, Seongmin Jun, Seung-Cheol Choi, Ji Eun Na, Im Joo Rhyu, Sun Wook Hwang, Minji Jeon, Do-Sun Lim

The Drosophila hematopoietic niche assembles through collective cell migration controlled by neighbor tissues and Slit-Robo signaling

Kara A. Nelson, Kari F. Lenhart, Lauren Anllo, Stephen DiNardo

| Morphogenesis & mechanics

Contractile fibroblasts are recruited to the growing mammary epithelium to support branching morphogenesis

Jakub Sumbal, Robin P. Journot, Marisa M. Faraldo, Zuzana Sumbalova Koledova, Silvia Fre

From Sumbal et al. This image is made available under a CC-BY-NC 4.0 International license.

Effects and phenotypic consequences of transient thyrotoxicosis and hypothyroidism at different stages of zebrafish Danio rerio (Teleostei; Cyprinidae) skeleton development

Vasily Borisov, Fedor Shkil

Congenital heart defects differ following left versus right avian cardiac neural crest ablation

Tatiana Solovieva, Marianne E. Bronner

Age-associated increased stiffness of the ovarian microenvironment impairs follicle development and oocyte quality and rapidly alters follicle gene expression

Sara Pietroforte, Makenzie Plough, Farners Amargant

Distinct functions of three Wnt proteins control mirror-symmetric organogenesis in the C. elegans gonad

Shuhei So, Masayo Asakawa, Hitoshi Sawa

Control of epiblast cell fate by mechanical cues

Charlène Guillot, Yannis Djeffal, Mattia Serra, Olivier Pourquié

Mechanical Strain Activates Planar Cell Polarity Signaling to Coordinate Vascular Cell Dynamics

Lieke Golbach, Tanumoy Saha, Maria Odenthal-Schnittler, Jenny Lücking, Ana Velic, Emir Bora Akmeric, Dorothee Bornhorst, Oliver Popp, Philipp Mertins, Felix Gunawan, Holger Gerhardt, Boris Macek, Britta Trappmann, Hans J. Schnittler, Milos Galic, Maja Matis

Increase in ER-mitochondria contacts and mitochondrial fusion are hallmarks of mitochondrial activation during embryogenesis

Anastasia Chugunova, Hannah Keresztes, Roksolana Kobylinska, Maria Novatchkova, Thomas Lendl, Marcus Strobl, Michael Schutzbier, Gerhard Dürnberger, Richard Imre, Elisabeth Roitinger, Pawel Pasierbek, Alberto Moreno Cencerrado, Marlene Brandstetter, Thomas Köcher, Benedikt Agerer, Jakob-Wendelin Genger, Andreas Bergthaler, Andrea Pauli

From Chugunova et al. This image is made available under a CC-BY-NC 4.0 International license.

| Genes & genomes

Transcriptomic Analysis of the Spatiotemporal Axis of Oogenesis and Fertilization in C. elegans

Yangqi Su, Jonathan Shea, Darla DeStephanis, Zhengchang Su

Heterochromatin protein ERH represses alternative cell fates during early mammalian differentiation

Andrew Katznelson, Blake Hernandez, Holly Fahning, Jingchao Zhang, Adam Burton, Maria-Elena Torres-Padilla, Nicolas Plachta, Kenneth S. Zaret, Ryan L. McCarthy

Microphthalmia and disrupted retinal development due to a LacZ knock-in/knock-out allele at the Vsx2 locus

Francesca R. Napoli, Xiaodong Li, Alan A. Hurtado, Edward M. Levine

From Napoli et al. This image is made available under a CC-BY-NC 4.0 International license.

Neural crest and periderm-specific requirements of Irf6 during neural tube and craniofacial development

Shannon H. Carroll, Sogand Schafer, Eileen Dalessandro, Thach-Vu Ho, Yang Chai, Eric C. Liao

The requirement of GW182 in miRNA-mediated gene silencing in Drosophila larval development

Eriko Matsuura-Suzuki, Kori Kiyokawa, Shintaro Iwasaki, Yukihide Tomari

The non-canonical thioreductase TMX2 is essential for neuronal survival during embryonic brain development

Jordy Dekker, Wendy Lam, Herma C. van der Linde, Floris Ophorst, Charlotte de Konink, Rachel Schot, Gert-Jan Kremers, Leslie E. Sanderson, Woutje M. Berdowski, Geeske M. van Woerden, Grazia M.S. Mancini, Tjakko J. van Ham

The Conserved Transcription Factor Krüppel Regulates the Survival and Neurogenesis of Mushroom Body Neuroblasts in Drosophila Adult Brains

Jin Man, Xian Shu, Haoer Shi, Xue Xia, Yusanjiang Abula, Yuu Kimata

Spinal motor neuron development and metabolism are transcriptionally regulated by Nuclear Factor IA

Julia Gauberg, Kevin B. Moreno, Karthik Jayaraman, Sara Abumeri, Sarah Jenkins, Alisa M. Salazar, Hiruy S Meharena, Stacey M Glasgow

RFC1 regulates the expansion of neural progenitors in the developing zebrafish cerebellum

Fanny Nobilleau, Sébastien Audet, Sanaa Turk, Charlotte Zaouter, Meijiang Liao, Nicolas Pilon, Martine Tétreault, Shunmoogum A. Patten, Éric Samarut

| Stem cells, regeneration & disease modelling

Ephrin Forward Signaling Controls Interspecies Cell Competition in Pluripotent Stem Cells

Junichi Tanaka, Yuri Kondo, Masahiro Sakurai, Anri Sawada, Youngmin Hwang, Akihiro Miura, Yuko Shimamura, Dai Shimizu, Yingying Hu, Hemanta Sarmah, Zurab Ninish, James Cai, Jun Wu, Munemasa Mori

Single-nucleus transcriptomic analysis reveals the regulatory circuitry of myofiber XBP1 during regenerative myogenesis

Aniket S. Joshi, Micah B. Castillo, Meiricris Tomaz da Silva, Preethi H. Gunaratne, Radbod Darabi, Yu Liu, Ashok Kumar

Niche cytoskeletal architecture is required for proper stem cell signaling and oriented division in the Drosophila testis

Gabriela S. Vida, Elizabeth Botto, Stephen DiNardo

Human TSC2 Mutant Cells Exhibit Aberrations in Early Neurodevelopment Accompanied by Changes in the DNA Methylome

Mary-Bronwen L. Chalkley, Lindsey N. Guerin, Tenhir Iyer, Samantha Mallahan, Sydney Nelson, Mustafa Sahin, Emily Hodges, Kevin C. Ess, Rebecca A. Ihrie

Single-cell transcriptome unravels spermatogonial stem cells and dynamic heterogeneity of spermatogenesis in seasonal breeding teleost

Yang Yang, Yinan Zhou, Gary Wessel, Weihua Hu, Dongdong Xu

Mimicking physiological stiffness or oxygen levels in vitro reorganizes mesenchymal stem cells machinery toward a more naïve phenotype

Inês Caramelo, Vera M. Mendes, Catarina Domingues, Sandra I. Anjo, Margarida Geraldo, Carla M. P. Cardoso, Mário Grãos, Bruno Manadas

The Hippo/YAP Pathway Mediates the De-differentiation of Corneal Epithelial Cells into Functional Limbal Epithelial Stem Cells In Vivo

Yijian Li, Lingling Ge, Bangqi Ren, Xue Zhang, Zhiyuan Yin, Hongling Liu, Yuli Yang, Yong Liu, Haiwei Xu

Harnessing the regenerative potential of interleukin11 to enhance heart repair

Kwangdeok Shin, Anjelica Rodriguez-Parks, Chanul Kim, Isabella M. Silaban, Yu Xia, Jisheng Sun, Chenyang Dong, Sunduz Keles, Jinhu Wang, Jingli Cao, Junsu Kang

Inhibition of CELA1 Improves Septation in the Mouse Hyperoxia Model of Impaired Alveolar Development

Noah J. Smith, Rashika Joshi, Hitesh Desmukh, Jerilyn Gray, Andrea D. Edwards, Elham Shahreki, Brian M. Varisco

Lineage tracing of Shh+ floor plate cells and dynamics of dorsal-ventral gene expression in the regenerating axolotl spinal cord

Laura Isabella Arbanas, Emanuel Cura Costa, Osvaldo Chara, Leo Otsuki, Elly Margaret Tanaka

From Arbanas et al. This image is made available under a CC-BY 4.0 International license.

Regeneration-specific promoter switching facilitates Mest expression in the mouse digit tip to modulate neutrophil response

Vivian Jou, Sophia M. Peña, Jessica A. Lehoczky

Identifying miRNA Signatures Associated with Pancreatic Islet Dysfunction in a FOXA2-Deficient iPSC Model

Ahmed K. Elsayed, Noura Aldous, Nehad Alajez, Essam M. Abdelalim

Stochastic cell-intrinsic stem cell decisions control colony growth in planarians

Tamar Frankovits, Prakash Varkey Cherian, Yarden Yesharim, Simon Dobler, Omri Wurtzel

An iPSC-based model of Jacob Syndrome reveals a DNA methylation-independent transcriptional dysregulation shared with X aneuploid cells

V. Astro, K. Cardona-Londoño, L.V. Cortés-Medina, R. Alghamdi, G. Ramírez-Calderón, F. Kefalas, J. Dilmé-Capó, S. Radío, A. Adamo

Resolving human α versus β cell fate allocation for the generation of stem cell-derived islets

Melis Akgün Canan, Corinna Cozzitorto, Michael Sterr, Lama Saber, Eunike S.A. Setyono, Xianming Wang, Juliane Merl-Pham, Tobias Greisle, Ingo Burtscher, Heiko Lickert

Amniotic fluid stem cell extracellular vesicles promote lung development via TGF-beta modulation in a fetal rat model of oligohydramnios

Fabian Doktor, Rebeca Lopes Figueira, Victoria Fortuna, George Biouss, Kaya Stasiewicz, Mikal Obed, Kasra Khalaj, Lina Antounians, Augusto Zani

Stable platelet production via the bypass pathway explains the long-term reconstitution capacity of hematopoietic stem cells

Shoya Iwanami, Toshiko Sato, Hiroshi Haeno, Longchen Xu, Keimyo Imamura, Jun Ooehara, Xun Lan, Hiromitsu Nakauchi, Shingo Iwami, Ryo Yamamoto

Divergent roles of SOX2 in human and mouse germ cell specification related to X-linked gene dosage effects

Wenteng He, Qing Luo, Jian Zhao, Mengting Wang, Luohua Feng, Allan Zhao, Ahmed Reda, Eva Lindgren, Jan-Bernd Strukenborg, Jiayu Chen, Qiaolin Deng

Hepatocyte-derived extracellular vesicles regulate liver regeneration after partial hepatectomy

Mina McGinn, Christopher Rabender, Ross Mikkelsen, Vasily Yakovlev

Delivery of A Jagged1-PEG-MAL hydrogel with Pediatric Human Bone Cells Regenerates Critically-Sized Craniofacial Bone Defects

Archana Kamalakar, Brendan Tobin, Sundus Kaimari, M. Hope Robinson, Afra I. Toma, Timothy Cha, Samir Chihab, Irica Moriarity, Surabhi Gautam, Pallavi Bhattaram, Shelly Abramowicz, Hicham Drissi, Andrés J. García, Levi B. Wood, Steven L. Goudy

From Kamalakar et al. This image is made available under a CC-BY-NC 4.0 International license.

A human-specific, concerted repression of microcephaly genes contributes to radiation-induced growth defects in forebrain organoids

Jessica Honorato Ribeiro, Emre Etlioglu, Jasmine Buset, Ann Janssen, Hanne Puype, Lisa Berden, André Claude Mbouombouo Mfossa, Winnok H. De Vos, Vanessa Vermeirssen, Sarah Baatout, Nicholas Rajan, Roel Quintens

Genetic variation modulates susceptibility to aberrant DNA hypomethylation and imprint deregulation in naïve pluripotent stem cells

C Parikh, RA Glenn, Y Shi, K Chatterjee, EE Swanzey, S Singer, SC Do, Y Zhan, Y Furuta, M Tahiliani, E Apostolou, A Polyzos, R Koche, JG Mezey, T Vierbuchen, M Stadtfeld

| Plant development

Systemic mRNA transport depends on m5C methylation, nuclear mRNA export factors and developmental phase changes

Ying Xu, András Székely, Steffen Ostendorp, Saurabh Gupta, Melissa Tomkins, Lei Yang, Federico Apelt, Yan Zhao, Eleni Mavrothalassiti, Linda Wansing, Julia Kehr, Eleftheria Saplaoura, Friedrich Kragler

OsAAI1-OsMADS25 module orchestrates root morphogenesis by fine-tuning IAA in drought stressed rice

Ning Xu, Rui Luo, Qing Long, Jianmin Man, Jiaxi Yin, Haimin Liao, Meng Jiang

The Arabidopsis splicing factor PORCUPINE/SmE1 orchestrates temperature-dependent root development via auxin homeostasis maintenance

Nabila El Arbi, Sarah Muniz Nardeli, Jan Šimura, Karin Ljung, Markus Schmid

Unveiling Stem Cell Induction Mechanisms From Spatiotemporal Cell-Type-Specific Gene Regulatory Networks In Postembryonic Root Organogensis

Javier Cabrera, Alvaro Sanchez-Corrionero, Angels de Luis Balaguer, Laura Serrano-Ron, Cristina del Barrio, Pilar Cubas, Pablo Perez-Garcia, Rosangela Sozzani, Miguel Moreno-Risueno

Histidine limitation causes alteration in the TOR network and plant development

Amandine Guérin, Caroline Levasseur, Aline Herger, Dominik Renggli, Alexandros Georgios Sotiropoulos, Gabor Kadler, Xiaoyu Hou, Myriam Schaufelberger, Christian Meyer, Thomas Wicker, Laurent Bigler, Christoph Ringli

Cell fate plasticity of xylem-pole-pericycle in Arabidopsis roots

Xin Wang, Lingling Ye, Jing Zhang, Charles W. Melnyk, Ari Pekka Mähönen

From Wang et al. This image is made available under a CC-BY-NC 4.0 International license.

Manipulation of Photosensory and Circadian Signalling Restricts Developmental Plasticity in Arabidopsis

Martin William Battle, Scott Fraser Ewing, Cathryn Dickson, Joseph Obaje, Kristen N. Edgeworth, Rebecca Bindbeutel, Rea Antoniou Kourounioti, Dmitri A. Nusinow, Matthew Alan Jones

Dissecting the genetic regulation of lateral root development in tomato under salt stress

Maryam Rahmati Ishka, Hayley Sussman, Jiantao Zhao, Eric Craft, Li’ang Yu, Andrew Nelson, Miguel Pineros, Mark Tester, Dorota Kawa, Zhangjun Fei, Magdalena M. Julkowska

Actin isovariant ACT2-mediated cellular auxin homeostasis regulates lateral root organogenesis in Arabidopsis thaliana

Aya Hanzawa, Arifa Ahamed Rahman, Abidur Rahman

An AINTEGUMENTA phospho-switch controls bilateral stem cell activity during secondary growth

Wei Xiao, Ling Yang, David Molina, Houming Chen, Shan Yu, Yingjing Miao, Dagmar Ripper, Shulin Deng, Martin Bayer, Bert De Rybel, Laura Ragni

ESR2 orchestrates cytokinin dynamics leading to developmental reprogramming and green callus formation

Yolanda Durán-Medina, David Díaz-Ramírez, Humberto Herrera-Ubaldo, Maurizio Di Marzo, Andrea Gómez Felipe, J. Erik Cruz-Valderrama, Carlos A. Vázquez, Herenia Guerrero-Largo, Lucia Colombo, Ondrej Novak, Stefan de Folter, Nayelli Marsch-Martínez

From Durán-Medina et al. This image is made available under a CC-BY 4.0 International license.

The O-Fucosyltransferase SPINDLY Attenuates Auxin-Induced Fruit Growth by Inhibiting ARF6 and ARF8 binding to Coactivator Mediator Complex in Arabidopsis

Yan Wang, Seamus Kelley, Rodolfo Zentella, Jianhong Hu, Hua Wei, Lei Wang, Jeffrey Shabanowitz, Donald F. Hunt, Tai-ping Sun

Plant height defined growth curves during vegetative development have the potential to predict end of season maize yield and assist with mid-season management decisions

Dorothy D. Sweet, Julian Cooper, Cory D. Hirsch, Candice N. Hirsch

Epigenetic memory of temperature sensed during somatic embryo maturation in 2-year-old maritime pine trees

J.-F. Trontin, M.D. Sow, A. Delaunay, I. Modesto, C. Teyssier, I. Reymond, F. Canlet, N. Boizot, C. Le Metté, A. Gibert, C. Chaparro, C. Daviaud, J. Tost, C. Miguel, M.-A. Lelu-Walter, S. Maury

In a nutshell: pistachio genome and kernel development

Jaclyn A. Adaskaveg, Chaehee Lee, Yiduo Wei, Fangyi Wang, Filipa S. Grilo, Saskia D. Mesquida-Pesci, Matthew Davis, Selina C. Wang, Giulia Marino, Louise Ferguson, Patrick J Brown, Georgia Drakakaki, Adela Mena-Morales, Annalisa Marchese, Antonio Giovino, Esaú Martínez, Francesco Paolo Marra, Lourdes Marchante Cuevas, Luigi Cattivelli, Paolo Bagnaresi, Pablo Carbonell-Bejerano, Grey Monroe, Barbara Blanco-Ulate

From Adaskaveg et al. This image is made available under a CC-BY 4.0 International license.

| Evo-devo

Brachiopod genome unveils the evolution of the BMP–Chordin network in bilaterian body patterning

Thomas D. Lewin, Keisuke Shimizu, Isabel Jiah-Yih Liao, Mu-En Chen, Kazuyoshi Endo, Noriyuki Satoh, Peter W. H. Holland, Yue Him Wong, Yi-Jyun Luo

The joint evolution of separate sexes and sexual dimorphism

Thomas Lesaffre, John R. Pannell, Charles Mullon

Horn size is linked to Sertoli cell efficiency and sperm size homogeneity during sexual development in common eland (Taurotragus oryx)

Eliana Pintus, Radim Kotrba, José Luis Ros-Santaella

Lepidopteran scale cells derive from sensory organ precursors through a canonical lineage

Ling S. Loh, Kyle A. DeMarr, Martina Tsimba, Christa Heryanto, Alejandro Berrio, Nipam H. Patel, Arnaud Martin, W. Owen McMillan, Gregory A. Wray, Joseph J. Hanly

From Loh et al. This image is made available under a CC-BY-ND 4.0 International license.

Temporal dynamics of gene expression during metamorphosis in two distant Drosophila species

Aleksandra M Ozerova, Dina A. Kulikova, Michael B Evgen’ev, Mikhail S. Gelfand

Multiplexed transcriptomic analyses of the plant embryonic hourglass

Hao Wu, Ruqiang Zhang, Karl J. Niklas, Michael J. Scanlon

Separating the genetic and environmental drivers of body temperature during the development of endothermy in an altricial bird

Lucy A. Winder, Jacob Hogger Gadsby, Eleanor Wellman, Joel L. Pick, Mirre J.P. Simons, Terry Burke

Convergent evolution of sex chromosomes in palms

H. Tessarotto, T. Beulé, E. Cherif, J. Orjuela, A. Lindstrom, A. Lemansour, M. Dahme, S. Santoni, J. Käfer, F. Aberlenc

Same trait, different genes: pelvic spine loss in three brook stickleback populations in Alberta

Jonathan A. Mee

Evolutionary bursts drive morphological novelty in the world’s largest skinks

Ian G. Brennan, David G. Chapple, J. Scott Keogh, Stephen Donnellan

Ecdysteroid-dependent molting in tardigrades

Shumpei Yamakawa, Andreas Hejnol

From Yamakawa et al. This image is made available under a CC-BY-NC 4.0 International license.

Cell Biology

N-Cadherin mediated cell rearrangements shape embryonic macrophage cluster

Jacob Hasenauer, Xiang Meng, Honor Scarborough, Jasmine A. Stanley-Ahmed, Darius Vasco Köster, Aparna Ratheesh

UNC-6/Netrin promotes both adhesion and directed growth within a single axon

Ev L. Nichols, Joo Lee, Kang Shen

Transcription templated assembly of the nucleolus in the C. elegans embryo

Nishant Kodan, Rabeya Hussaini, Stephanie C. Weber, Jane Kondev, Lishibanya Mohapatra

Systematic analysis of protein stability associated with species-specific developmental tempo

Mitsuhiro Matsuda, Henrik M. Hammarén, Jorge Lázaro, Mikhail M. Savitski, Miki Ebisuya

The zebrafish as a new model for studying chaperone-mediated autophagy unveils its role in spermatogenesis

Maxime Goguet, Emilio J Vélez, Simon Schnebert, Karine Dias, Vincent Véron, Alexandra Depincé, Florian Beaumatin, Amaury Herpin, Iban Seiliez

Contribution of the neuron-specific ATP1A3 to embryonic spinal circuit emergencev

Sarah Dinvaut, Sophie Calvet, Jean-Christophe Comte, Raphael Gury, Olivier Pascual, Maelys André, Rosaria Ferrigno, Jérôme Honnorat, Frédéric Moret, Guillaume Marcy, Julien Falk, Valérie Castellani

Multi-omics analyses and machine learning prediction of oviductal responses in the presence of gametes and embryos

Ryan M Finnerty, Daniel J Carulli, Akshata Hedge, Yanli Wang, Frimpong Boadu, Sarayut Winuthayanon, Jianlin Cheng, Wipawee Winuthayanon

Maternal total sleep deprivation causes oxidative stress and mitochondrial dysfunction in oocytes associated with fertility decline in mice

Ziyun Yi, Qiu-xia Liang, Qian Zhou, Yang Lin, Qing-ren Meng, Jian Li, Yihua Lin, Chunhui Zhang, Heide Schatten, Jie Qiao, Qing-Yuan Sun

The cell cycle oscillator and spindle length set the speed of chromosome separation in Drosophila embryos

Yitong Xu, Anna Chao, Melissa Rinaldin, Alison Kickuth, Jan Brugués, Stefano Di Talia

PCM1 conveys centrosome asymmetry to polarized endosome dynamics in regulating daughter cell fate

Xiang Zhao, Yiqi Wang, Vincent Mouilleau, Ahmet Can Solak, Jason Garcia, Xingye Chen, Christopher J. Wilkinson, Loic Royer, Zhiqiang Dong, Su Guo

Identification of BiP as a temperature sensor mediating temperature-induced germline sex reversal

Jing Shi, Danli Sheng, Jie Guo, Fangyuan Zhou, Shaofeng Wu, Hongyun Tang

Fibrotic Extracellular Matrix Preferentially Induces a Partial Epithelial-Mesenchymal Transition Phenotype in a 3-D Agent Based Model of Fibrosis

Kristin P. Kim, Christopher A. Lemmon

Cell type-specific regulation by different cytokinetic pathways in the early embryo

Caroline Q. Connors, Sophia L. Martin, Julien Dumont, Mimi Shirasu-Hiza, Julie C. Canman

Imp and Syp in vivo temporal RNA interactomes uncover networks of temporal regulators of Drosophila brain development

Jeffrey Y Lee, Niles Huang, Tamsin J Samuels, Ilan Davis

Comprehensive characterization of mitochondrial bioenergetics at different larval stages reveals novel insights about the developmental metabolism of Caenorhabditis elegans

Danielle F. Mello, Luiza Perez, Christina M. Bergemann, Katherine S. Morton, Ian T. Ryde, Joel N. Meyer

Modelling

The Molecular Basis of Differentiation Wave Activity in Embryogenesis

Bradly Alicea, Surosh Bastani, Natalie K. Gordon, Susan Crawford-Young, Richard Gordon

Statistical description of mobile oscillators in embryonic pattern formation

Koichiro Uriu, Luis G Morelli

Statistical description of mobile oscillators in embryonic pattern formation

Koichiro Uriu, Luis G. Morelli

How cells stay together; a mechanism for maintenance of a robust cluster explored by local and nonlocal continuum models

Andreas Buttenschön, Shona Sinclair, Leah Edelstein-Keshet

Minimal cellular automaton model with heterogeneous cell sizes predicts epithelial colony growth

Steffen Lange, Jannik Schmied, Paul Willam, Anja Voss-Böhme

Tools & Resources

Efficient generation of human dendritic cells from iPSC by introducing a feeder-free expansion step for hematopoietic progenitors

Zahra Elahi, Vanta Jameson, Magdaline Sakkas, Suzanne K Butcher, Justine D Mintern, Kristen J Radford, Christine A Wells

Interaction between gene expression and morphokinetic parameters in undisturbed human embryo culture

Hui Xiao, Adam Stevens, Helen L. Smith, Karolina Szczesna, Maria Keramari, Gregory Horne, Andras Dinnyes, Susan J. Kimber, Pietro Lio, Daniel R. Brison

Enhanced Plasmid-Based Transcriptional Activation in Developing Mouse Photoreceptors

Brendon M. Patierno, Mark M. Emerson

A Pluripotent Stem Cell Platform for in Vitro Systems Genetics Studies of Mouse Development

Rachel A. Glenn, Stephanie C. Do, Karthik Guruvayurappan, Emily K. Corrigan, Laura Santini, Daniel Medina-Cano, Sarah Singer, Hyein Cho, Jing Liu, Karl Broman, Anne Czechanski, Laura Reinholdt, Richard Koche, Yasuhide Furuta, Meik Kunz, Thomas Vierbuchen

Functional imaging of whole mouse embryonic development in utero

Jiejun Zhu, Dongming He, Mengzhu Sun, Hanming Zheng, Zihao Chen, Jin Yang, Chengqi Lin, Yun Stone Shi, Lei Sun, Zhihai Qiu

Mass Generation and Long-term Expansion of Hepatobiliary Organoids from Adult Primary Human Hepatocytes

Ary Marsee, Arabela Ritchie, Adam Myszczyszyn, Shicheng Ye, Jung-Chin Chang, Arif Ibrahim Ardisasmita, Indi P Joore, Jose Castro-Alpízar, Sabine A Fuchs, Kerstin Schneeberger, Bart Spee

Unveiling Vertebrate Development Dynamics in Frog Xenopus laevis using Micro-CT Imaging

Laznovsky Jakub, Kavkova Michaela, Reis Alice, Robovska-Havelkova Pavla, Krivanek Jan, Zikmund Tomas, Kaiser Jozef, Buchtova Marcela, Harnos Jakub

From Jakub et al. This image is made available under a CC-BY 4.0 International license.

Transcriptomic comparison of in vitro models of the human placenta

Samantha Lapehn, Sidharth Nair, Evan J Firsick, James MacDonald, Ciara Thoreson, James A Litch, Nicole R Bush, Leena Kadam, Sylvie Girard, Leslie Myatt, Bhagwat Prasad, Sheela Sathyanarayana, Alison G Paquette

Chemically induced cell plasticity enables the generation of high-fidelity embryo model

Huanhuan Li, Jiahui Huang, Wei Guan, Jinyi Wu, Haiping Luo, Litao Chang, Haiyong Zhao, Chuanxin Chen, Yake Gao, Jian Zhang, José C. R. Silva

Neural tube organoid generation: a robust and reproducible protocol from single mouse embryonic stem cells

Teresa Krammer, Elly M. Tanaka

An efficient method for immortalizing mouse embryonic fibroblasts

Srisathya Srinivasan, Hsin-Yi Henry Ho

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Improving laboratory animal genetic reporting

Posted by , on 9 July 2024

The LAG-R framework (Laboratory Animal Genetic Reporting) has just been published in Nature Communications with Lydia Teboul, head of our Molecular Cell Biology team at the Mary Lyon Centre at MRC Harwell and Guillaume Pavlovic, Head of Unit, Genetic Engineering and Model Validation Department at the Institut Clinique de la SourisPHENOMIN– IGBMC, as corresponding authors. The LAG-R framework is a set of guidelines to support more complete documentation of the genetic make-up of animals that are used in research, with the aim of bolstering reproducibility, reliability, and overall scientific rigour.

The biomedical research community is addressing many different factors that lead to problems with reproducibility, including via the implementation of the PREPARE guidelines, which aim to improve experimental design, and the ARRIVE guidelines, which aim to improve reporting of animal research experiments. However, a need remains for a more comprehensive description of the genetics of research animals, as differences in genetic background that are too often perceived as subtle can have a significant impact on phenotype and genetic modifications are rarely fully documented.

The LAG-R guidelines are designed to improve the documentation that is associated with animal research and to be applicable to the full range of animal species used. Standardising and improving genetic documentation will enhance research reliability and reduce wastage of resources and animals by cutting down on the reconstitution of missing information or on follow-up experiments that unknowingly use animals with different genetics.

The LAG-R guidelines have been developed by an international team that includes authors from 15 countries, working within a number of international consortia, including the Asian Mouse Mutagenesis Resource Association, the International Mammalian Genome Society, the International Mouse Phenotyping Consortium, the European Research Infrastructure for Modelling Human Diseases (INFRAFRONTIER), the International Society for Transgenic Technologies, the Mutant Mouse Resource & Research Centres, and Phenomics Australia.

The authors said: “The LAG-R Guidelines are not about influencing what models researchers use for their research. They are about standardising the way the genetics of these animals are documented. This framework is intended to be simple to adopt and takes into account the diversity of research environments where animals are used. Documentation is a key part of research reproducibility!

The authors are working to create a publicly available resource web page to facilitate the uptake of the guidelines by the community. Watch this space!

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Categories: Lab Life, News, Resources

Ready, steady, cooooooonga~

Posted by , on 8 July 2024

What is this?

The video depicts the formation of the so-called lateral line in a transgenic zebrafish that I took when I was a student in Tatjana Piotrowski’s lab at the Stowers Institute for Medical Research (Kansas City, MO, USA). Cells of the lateral line use collective cell migration —sort of a cellular ‘Conga’ formation— to move from the head of the animal into the trunk and deposit volcano-shaped structures called neuromasts.

Where can the lateral line be found?

Fishes (bony, such as the zebrafish; and cartilaginous, such as sharks and rays) and amphibians (such as frogs and salamanders).

How was this video taken?

This is a video of a transgenic zebrafish expressing a fluorescent protein in the lateral line Tg(clndb:lynGFP). The video was taken live using a Zeiss 780 confocal microscope.

What does the lateral line do?

The lateral line is a mechanosensory organ that aquatic animals use to orient themselves in the water using neuromasts that cover the entire body of the animal (like in the picture below). These neuromasts are the sensory unit of the lateral line due to the presence of specialized sensory cells called hair cells (that do indeed have little ‘hairs’, but we call them kinocilia and stereocilia) that respond to the water flow. This movement is translated into synaptic information and is sent to the brain, where it is used to convey positional information. The lateral line also allows fishes to display the so-called ‘schooling behavior’, a kind of collective animal behavior that is commonly seen in documentaries showing fishes moving together

Why should people care about this?

Due to the transparency, rapid development and gene conservation of zebrafish, the lateral line is an outstanding model to study two processes: collective cell migration, and hair cell regeneration.

The migrating primordia depicted in the video deploy the same molecular and cellular tools healthy and cancer cells use to migrate. Thus, studying migration of the lateral line primordia can help us understanding collective cell migration in health and disease.

One interesting property about hair cells is that they are also present in humans, but they are in the inner ear and they are used for hearing. When we age, or under some non-physiological conditions, we lose hair cells forever. Fishes, on the other hand, can regenerate their hair cells upon loss; therefore, studying how fish regenerate their hair cells may give us clues that can be used to restore hearing in humans that have lost hair cells.

How would you explain this to an 8-year-old?

During their development, fishes have little groups of cells that move all together all over the body. These cells then form garlic-bulb shaped structures that fishes use to swim, due to the presence of prickly cells called hair cells. People also have hair cells — but not all over their bodies, but inside your ears — that we use for hearing.

Where can people find more about it?

In the video, a lateral line primordium migrates to the tip of the tail of a zebrafish embryo

https://en.wikipedia.org/wiki/Lateral_line

“PCP and Wnt pathway components act in parallel during zebrafish mechanosensory hair cell orientation” Navajas Acedo et al. 2019

https://www.nature.com/articles/s41467-019-12005-y (in this open access publication you can find the first video of the post, plus some others related to the lateral line and its formation)

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Categories: Research, Video