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Red fish, blue fish, Brainbow fish!

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Woods Hole Images round 3 – vote for a Development cover

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Interview with the BSDB Poster winner Aditya Saxena

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Gone today, hair tomorrow? Changes in dermal papilla cell number drive hair thinning and loss.

In Development This Week (Vol. 138, Issue 22)

Posted by on October 25th, 2011

Here are the highlights from the current issue of Development:

The skin-healing touch of Lhx2


Skin repair after injury involves the recruitment of undifferentiated progenitor cells from nearby hair follicles (HFs) into the regenerating epidermis. The bulge and the secondary hair germ of HFs contain distinct populations of epithelial stem cells, and now Vladimir Botchkarev and co-workers reveal that the Lim-homeodomain transcription factor Lhx2 differentially regulates these populations during wound healing (p. 4843). They show that, in mice, most of the cells that proliferate in response to skin injury in the HF bulge and secondary hair germ express Lhx2. Wound re-epithelisation is retarded in Lhx2+/– mice compared with wild-type mice, they report, whereas the onset of active hair growth in HFs near to the wound is accelerated. Other experiments indicate that Lhx2 promotes wound re-epithelisation by upregulating Sox9 and Tcf4 expression in the bulge cells while simultaneously inhibiting HF cycling by downregulating Lgr5 expression in the secondary hair germ. Thus, Lhx2 is a key regulator of the differential response of HF stem cells during epidermal regeneration after injury.



Nanog: an ancient reprogrammer


The establishment of pluripotency during mouse embryogenesis and during the reprogramming of somatic cells is dependent on the homeodomain-containing transcription factor Nanog but, puzzlingly, compared with other pluripotency-associated genes, Nanog is poorly conserved among vertebrates. Here (p. 4853), José Silva, Filipe Castro and colleagues investigate whether Nanog orthologues can orchestrate pluripotency in Nanog–/– mouse somatic cells. Surprisingly, the researchers report that mammalian, avian and teleost Nanog orthologues all reprogramme mouse Nanog-/- somatic cells to full pluripotency, despite sharing as little as 13% sequence identity with mouse Nanog. Moreover, they identify two unique residues in the DNA recognition helix of the Nanog homeodomain that are important for reprogramming and show that the Nanog homeodomain is sufficient to enable naive pluripotency in Nanog–/– somatic cells. These functional studies, together with genome analyses, suggest that Nanog is a vertebrate innovation and that its reprogramming capacity resides within a unique DNA-binding domain that probably appeared at least 450 million years ago in a common ancestor of vertebrates.



R-spondin to developmental angiogenesis


During embryogenesis, two sequential processes form the vasculature: during vasculogenesis, endothelial progenitor cells form the primary vascular bed; subsequently, during angiogenesis, additional vessels sprout and grow from pre-existing vessels. Here, Aniket Gore, Brant Weinstein and co-workers identify a novel signalling pathway that promotes developmental angiogenesis in zebrafish (see p. 4875). Their first clue to this pathway came when they identified a mutation in R-spondin1 (rspo1) during a forward-genetic screen for angiogenesis-deficient zebrafish mutants. Embryos lacking rspo1 or its receptor kremen form primary vessels, they report, but do not undergo angiogenesis. R-spondin is a Wnt signalling regulator and, by functionally manipulating different members of the Wnt pathway, the researchers show that canonical Wnt signalling is required downstream of rspo1 for sprouting angiogenesis. Finally, they show that Vegfc/Vegfr3 signalling mediates the pro-angiogenic effects of Rspo1/Wnt signalling and that all four proteins are expressed by the endothelium during sprouting angiogenesis. Together, these results suggest that Rspo1-Wnt-Vegfc-Vegfr3 signalling is an endothelial-autonomous permissive cue for developmental angiogenesis.



Compartmentalised PKA, cilia and hedgehog signalling


Protein kinase A (PKA), a conserved negative regulator of the hedgehog (Hh) signalling pathway, generates the transcriptional repressor form of Gli3 in the absence of Hh in mice. Now, Kathryn Anderson and colleagues show that the total loss of PKA activity in mouse embryos leads to a completely ventralised neural tube and mid-gestation lethality (see p. 4921), which indicates that the sonic hedgehog (Shh) signalling pathway is maximally activated in all neural progenitors in the absence of PKA. Notably, genetic experiments indicate that the principal function of PKA in the neural plate is to prevent Gli2 activation of Shh targets. Other experiments reveal that Hh pathway activation in PKA mutants depends on cilia, that PKA is localised at the basal body of primary cilia, and that Gli2 levels are increased at the tips of cilia of PKA-null cells. The researchers propose, therefore, that two separate cilia-associated compartments determine the accessibility of Gli proteins to PKA and thus the activity of the Shh pathway in vertebrates.



miR-124 notches up neural development


MicroRNAs (miRNAs) play crucial roles in development. miR-124, for example, is abundantly expressed in the mouse brain and is necessary for proper nervous system development, but how it drives neuronal differentiation is unclear. To remedy this lack of understanding, Robert Zeller and colleagues have comprehensively analysed miR-124 expression, function and target genes in the ascidian Ciona intestinalis (see p. 4943). They report that miR-124 interacts with several signalling pathways that are involved in nervous system development. In particular, they show that a feedback interaction between miR-124 and Notch signalling regulates the epidermal-peripheral nervous system (PNS) fate choice in tail midline cells. Thus, Notch signalling silences miR-124 in epidermal midline cells, whereas in PNS midline cells miR-124 silences Notch, Neuralized and the Ciona Hairy/Enhancer-of-Split genes. Moreover, miR-124 also shapes neuronal progenitor fields by downregulating non-neural genes including 50 Brachyury-regulated notochord genes and the muscle specifier Macho-1. Overall, these results indicate that miR-124 plays a multifaceted role in cell lineage specification during nervous system development.



Spotlight on adipogenesis


Adipose tissue (a specialised energy storage structure) is the only tissue that can change its mass substantially during adult life. It does this through changes in the size of its constituent cells (adipocytes) and through the de novo generation of cells. Unfortunately, given the obesity epidemic, adipocyte development in vivo is poorly understood but, here, Gou Young Koh and colleagues provide new insights into adipogenesis by analyzing the postnatal development of epididymal adipose tissue (EAT) in mice (p. 5027). They show that EAT is generated from non-adipose tissue during the first 14 postnatal days of development and that this non-adipose tissue is initially composed of multipotent progenitor cells (possibly including adipoblasts) that lack adipogenic differentiation capacity in vitro. By postnatal day 4, however, progenitor cells isolated from EAT can form adipocytes if they are provided with cell-to-matrix and cell-to-cell contacts. Finally, the researchers show that impaired angiogenesis in postnatal mice interferes with adipogenesis. Thus, they conclude, cues from cellular and matrix components, together with appropriate angiogenesis, are required for adipose tissue development.



Plus…



Evolutionary crossroads in developmental biology: amphioxus


As part of the Evolutionary Crossroads in Developmental Biology series, Bertrand and Escriva introduce amphioxus and discuss how studies of this model have informed us about the evolution of vertebrate traits.


See the Primer article on p. 4819


An interview with Ottoline Leyser


The Sainsbury Laboratory at the University of Cambridge is a new research institute that aims to achieve an integrated understanding of plant development. Its Associate Director is the new plant Editor of Development, Ottoline Leyser, who is also Professor of Plant Development at the University of Cambridge. We recently caught up with Professor Leyser and asked her about the Sainsbury Laboratory and about her own research interests.


See the Spotlight article on p. 4815

 

 

 
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In Development this week (Vol. 138, Issue 6)

Posted by on February 22nd, 2011

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

Arteriovenous-specific regulation of angiogenesis


Endothelial cells (ECs) assume arterial- or venous-specific molecular characteristics at early stages of development. These lineage-specific molecular programmes subsequently instruct the development of the distinct vascular architectures of arteries and veins. Now, on p. 1173, Jau-Nian Chen and co-workers investigate the role that these early molecular programmes play in angiogenesis. Using the zebrafish caudal vein plexus as a model for venous-specific angiogenesis, they identify a new compound, aplexone, as an inhibitor of venous, but not arterial, angiogenesis. They show that aplexone targets the HMG-CoA reductase (HMGCR) pathway and that injection of mevalonate, a metabolic product of HMGCR, into zebrafish embryos reverses the effect of aplexone on venous angiogenesis. They also show that the inhibitory effect of aplexone on venous angiogenesis in zebrafish and human ECs is mediated by HMGCR-regulated membrane targeting of the small GTPase RhoA through protein prenylation. These and other findings indicate that angiogenesis is differentially regulated by the HMGCR pathway in an arteriovenous-specific manner in both zebrafish and human ECs.



miRNA hits Barx1 in the stomach


The spatiotemporal control of gene expression is crucially important during development, and microRNAs (miRNAs; short RNA molecules that silence complementary mRNA sequences) are thought to fine-tune the expression of developmentally important genes. Here, Ramesh Shivdasani and colleagues report that specific miRNAs influence mouse stomach organogenesis by regulating the expression of the mesenchymal transcription factor Barx1 (see p. 1081). Barx1 controls stomach morphogenesis and helps to specify the stomach-specific epithelium. However, Barx1 levels in the stomach decline sharply after epithelial specification. The researchers show that depletion of the miRNA-processing enzyme Dicer in cultured stomach mesenchymal cells increases Barx1 levels and that conditional Dicer gene deletion in mice disrupts stomach development. They identify miR-7a and miR-203 as regulators of Barx1 expression and show that these miRNAs repress Barx1 expression in the developing stomach by binding to the Barx1 3′ untranslated region. Barx1 downregulation by miRNAs in the mouse embryonic stomach might thus be an example of a widely used mechanism for modulating gene expression during development.



EGF signals muscle in to maintain intestinal stem cells


In high-turnover tissues, the precise control of stem cell proliferation is essential for tissue homeostasis. In Drosophila, the integrity of the midgut epithelium is maintained by intestinal stem cells (ISCs) but what regulates the proliferation of these cells? Benoît Biteau and Heinrich Jasper now report that EGF receptor (EGFR) signalling maintains the proliferative capacity of ISCs (see p. 1045). Using clonal analysis, RNAi knockdown and other experimental approaches, the researchers show that the EGF ligand Vein is expressed in the muscle surrounding the intestinal epithelium and that Vein provides a constitutive signal that activates ERK (extracellular signal-regulated kinase) in ISCs. Interestingly, the transcription factor FOS integrates this EGFR/ERK signal with signals mediated by the JNK (Jun N-terminal kinase) pathway in response to stress. The researchers suggest that the visceral muscle acts as a functional niche for ISCs and propose that FOS, by integrating the niche-derived permissive signal with stress-induced instructive signals, adjusts ISC proliferation to environmental conditions.



Niche-free progression of adult neural stem cells


Many tissues contain adult stem cells that could provide sources of cells for cell-based therapies. For example, adult neural stem cells (NSCs), which are found in brain regions such as the subependymal zone (SEZ), could be used to treat nervous system disorders. Little is known, however, about the intrinsic specification of adult NSCs or how dependent this specification is on the local niche. To understand the biology of NSCs better, Benedikt Berninger and co-workers have been using continuous live imaging to follow the cell divisions and lineage progression of cells isolated from the adult mouse SEZ (see p. 1057). They now report that SEZ cells cultured at low density without growth factors are primarily neurogenic, and that adult NSCs progress through stereotypic lineage trees consisting of asymmetric stem cell divisions, symmetric transit-amplifying divisions and final symmetric neurogenic divisions. The researchers conclude from these results that lineage progression from stem cell to neuron is cell-intrinsic and is independent of the local niche to a surprising degree.



Going with the flow: Pkd1l1 and Pkd2 set L-R axis


The internal organs of all vertebrates show distinct left-right (L-R) asymmetry. The earliest known event in the establishment of this asymmetry is a leftwards extracellular fluid flow at the embryonic node. This ‘nodal flow’, which is generated by the rotational movement of node cilia, activates asymmetric gene expression. But how is nodal flow detected? The two-cilia hypothesis proposes that, whereas motile cilia generate the flow, immobile node cilia detect nodal flow and respond by generating a left-sided Ca2+ signal. This signal generation is thought to be mediated by a complex consisting of the calcium channel polycystic kidney disease 2 (Pkd2) and an unknown sensor protein. In this issue, two papers further evaluate this hypothesis.


On p. 1131, Dominic Norris and colleagues identify the Pkd1-related locus Pkd1l1 as the missing Pkd2 partner and sensor protein in L-R patterning in mouse. Point mutants in either Pkd1l1 or Pkd2 fail to activate asymmetric gene expression at the node, they report, and develop similar L-R patterning defects. Cilia and node morphology and cilia motility are normal in both types of mutant, however, which suggests that Pkd1l1 and Pkd2 act downstream of nodal flow. Moreover, Pkd1l1 and Pkd2 localise to cilia and interact physically. Thus, the researchers propose, Pkd1l1 and Pkd2 form a cilia-specific stress-responsive channel in the node, a conclusion consistent with the two-cilia hypothesis.


On p. 1121, Hiroyuki Takeda and colleagues report that the medaka mutant abecobe is defective for L-R asymmetric gene expression but not for nodal flow, and identify the abecobe gene as Pkd1l1. They show that Pkd1l1 expression is confined to Kuppfer’s vesicle (KV; a medaka organ equivalent to the mouse node) and that, as in the mouse, Pkd1l1 interacts with and colocalises with Pkd2 in KV cilia. However, importantly, the researchers report that all KV cilia contain Pkd1l1 and Pkd2 and that all of the KV cilia are motile. These results necessitate reconsideration of the two-cilia model for L-R patterning and the researchers propose a new model in which cilia both generate nodal flow and interpret it through a nodal flow sensor that consists of Pkd1l1-Pkd2 complexes.



Plus…


Definitive hematopoietic stem cells (HSCs) give rise to all of the mature blood cell lineages in adults, and, as reviewed by Alexander Medvinsky and colleagues, recent advances have shed light on the embryonic origin of HSCs. See the Review Article on p. 1017



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Lasker Awards 2010

Posted by on September 21st, 2010

Today, the Lasker Foundation announced the winners of their 65th annual Lasker Awards, celebrating biomedical research. The winners all contributed to scientific research with strong implications for medical advancements:

Albert Lasker Basic Medical Research Award
Awarded to: Douglas Coleman & Jeffrey Friedman for the discovery of leptin, the “obesity gene”

Lasker-DeBakey Clinical Medical Research Award
Awarded to Napoleone Ferrara for the discovery of the role of VEGF in angiogenesis and the development of an anti-VEGF therapy for wet macular degeneration

Lasker-Koshland Special Achievement Award in Medical Science
Awarded to David Weatherall for lifetime research in the genetics of blood diseases, in particular for his work on thalassemia

The status of the awards becomes clear when you realize that in the past 65 years, as many as seventy-nine Lasker winners have also received a Nobel Prize. Winners of the Lasker receive $250,000 per award, and a statue, which you can see in the video below.

In Napoleone Ferrara’s award announcement video, he and others describe the role of VEGF in angiogenesis and wet macular degeneration:



Videos for the other winners are also available on the Lasker Foundation website.

Coleman, Friedman, Ferrara and Weatherall will receive their awards on Friday, October 1, in New York City.

And a little quiz: Aside from all winning a Lasker award this year, what connects these three research topics? (The simplest answer is only five letters long, but you can be more complicated. No prize, just for fun.)
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Phenologs and unlikely models

Posted by on September 1st, 2010

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

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

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


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



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

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

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

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In Development, Vol 137 (Issue 14)

Posted by on June 23rd, 2010

Here are the research highlights from the current issue of Development. You can find these on the Development site but we thought it would be useful to have them posted on the Node, too.

Brainy signals for actin dynamics


During brain development, neurite outgrowth and neuronal migration establish the brain architecture needed for brain function. Now, Eric Olson and colleagues reveal a regulatory feedback loop that links the cytoskeletal changes that provide the mechanical force needed for neurite outgrowth and migration to nuclear gene transcription during mouse brain development (see p. 2365). Myocardin-related transcription factors (MRTFs), the expression of which is forebrain enriched, translocate to the nucleus in response to actin polymerisation and cooperate with serum response factor (Srf) to regulate the expression of cytoskeletal genes. The researchers show that either Mrtfa orMrtfb is sufficient to support brain development but that the brain-specific deletion of both produces brain abnormalities similar to those caused by Srf deletion. These abnormalities, they report, are accompanied by dysregulation of the actin-severing protein gelsolin and of the kinase Pctaire1, which cooperates with Cdk5 to initiate a kinase cascade that governs cytoskeletal rearrangements. The researchers suggest, therefore, that MRTFs couple two signalling pathways that modulate cytoskeletal dynamics during neurite outgrowth and neuronal development.

Proliferation’s not over ‘til the Fat-Hippo sings


During development, transitions from proliferating, undifferentiated cells to quiescent, differentiated cells are tightly regulated to ensure that organs reach the correct size. Kenneth Irvine and colleagues now reveal that Fat-Hippo and Notch signalling influence this important transition during optic lobe development in Drosophila (see p. 2397). Like the vertebrate nervous system, the Drosophilaoptic lobe develops from neuroepithelial cells, which function as symmetrically dividing neural progenitors. The Fat-Hippo signalling pathway, which contains the large cadherin Fat and the serine/threonine kinase Hippo, regulates the transcription of cell proliferation and survival genes. The researchers report that neuroepithelial cells in the Drosophila optic lobe undergo a cell-cycle arrest that is regulated by Fat-Hippo signalling before converting to neuroblasts. They also identify a role for Notch signalling in committing neuroepithelial cells to become neuroblasts. These and other results suggest that, by arresting the cell cycle, Fat-Hippo signalling contributes to the accumulation of Delta, which modulates Notch signalling and triggers neuroepithelial differentiation. A similar mechanism might be involved in vertebrate neural development.

Pluripotent stem cell derivation gets a (2i-)LIFt


Pluripotent mouse embryonic stem (ES) cells are obtained directly from the mouse epiblast, while pluripotent embryonic germ (EG) cells can be derived from unipotent mouse primordial germ cells (PGCs) by epigenetic reprogramming. But how similar are EG and ES cells? On p. 2279, Azim Surani, Austin Smith and colleagues report that these cells share a conserved molecular and developmental ‘ground state’. ES cells can be established using the cytokine LIF combined with the inhibition of GSK3 and of mitogen-activated protein kinase signalling (so-called 2i-LIF culture). The researchers show that pluripotent mouse EG cells can also be efficiently established using 2i-LIF culture. Then, using the same conditions, they derive rat EG cells for the first time. These cells express similar markers to rat and mouse ES cells, they report, and can contribute extensively to chimeric rats. Together, these findings raise the possibility that 2i-LIF culture could be used to derive EG cell lines with pluripotent ground state properties from other species, including humans.

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