Implications For Developmental Biology Research Articles

'The genome wager' at its midpoint: Implications for developmental biology.

Prediction is a very important part of the business of scientific theories, and scientists like to make wagers. Back in 2009, two prominent biologists within the public arena entered into a gentleman's bet about the explanatory value of the genome. Lewis Wolpert believes that, by 2029, it will be possible to predict all the physical details of a complex organism by the knowledge of its genome. Rupert Sheldrake, conversely, insists that new scientific principles are needed to explain development. It is also over a decade since Sean Carroll formalized the cis-regulatory hypothesis of morphological evolution. This paradigm, whereby major changes in form are produced by small variations in regulatory DNA, is congruent with Wolpert's own understanding of the genome. Research conducted over the past decade, however, suggests that a gene-centred approach to developmental evolution may be fading, but there is still much to work on. Far from being eccentric, the wager's outcome could affect the future course of the field of developmental biology.

Papillae revisited and the nature of the adhesive secreting collocytes

Ascidian papillae (palps) constitute a transient sensory adhesive organ that assures larval settlement and the onset of metamorphosis to the filterfeeding adult. Despite the importance of papillae for the ascidian development, their cellular composition is only roughly described. For Ciona intestinalis/robusta, a clear definition of cell numbers and discriminative molecular markers for the different cell types is missing. While some attention was given to neural cell types and their connectivity little is known about the adhesive producing collocytes. We converge serial-section electron microscopy and confocal imaging with various marker combinations to document the 3D organization of the Ciona papillae. We show the papillar development with 4 axial columnar cells (ACCs), 4 lateral primary sensory neurons (PSNs) and 12 central collocytes (CCs). We propose molecular markers for each cell type including novel ones for collocytes. The subcellular characteristics are suggestive of their role in papillar function: the ACCs featuring apical protrusions and microvilli, also contain neuroactive and endocytic vesicles indicative of a chemosensory role. They are clearly distinct from the ciliated glutamatergic PSNs. CCs encircle the ACCs and contain microvilli, small endocytic vesicles and notably a large numbers of adhesive granules that, according to element analysis and histochemistry, contain glycoproteins. Interestingly, we detect two different types of collocyte granules, one of them containing fibrous material and larger quantities of polysaccharides. Consistently, carbohydrate specific lectins label the papillar apex, the granules within CCs and the adhesive plaques upon larval attachment. We further propose CCs to derive from an evolutionary ancient neurosecretory cell type. Our findings contribute to understanding the development of the anterior (‘new head’) region of the Ciona larva and notably the adhesive secreting cells which has implications for developmental biology, cell differentiation and evolution, but also bioadhesion.

The Molecular Basis for the Lack of Inflammatory Responses in Mouse Embryonic Stem Cells and Their Differentiated Cells.

We reported previously that mouse embryonic stem cells do not have a functional IFN-based antiviral mechanism. The current study extends our investigation to the inflammatory response in mouse embryonic stem cells and mouse embryonic stem cell-differentiated cells. We demonstrate that LPS, TNF-α, and viral infection, all of which induce robust inflammatory responses in naturally differentiated cells, failed to activate NF-κB, the key transcription factor that mediates inflammatory responses, and were unable to induce the expression of inflammatory genes in mouse embryonic stem cells. Similar results were obtained in human embryonic stem cells. In addition to the inactive state of NF-κB, the deficiency in the inflammatory response in mouse embryonic stem cells is also attributed to the lack of functional receptors for LPS and TNF-α. In vitro differentiation can trigger the development of the inflammatory response mechanism, as indicated by the transition of NF-κB from its inactive to active state. However, a limited response to TNF-α and viral infection, but not to LPS, was observed in mouse embryonic stem cell-differentiated fibroblasts. We conclude that the inflammatory response mechanism is not active in mouse embryonic stem cells, and in vitro differentiation promotes only partial development of this mechanism. Together with our previous studies, the findings described in this article demonstrate that embryonic stem cells are fundamentally different from differentiated somatic cells in their innate immunity, which may have important implications in developmental biology, immunology, and embryonic stem cell-based regenerative medicine.

Toward Synthetic Spatial Patterns in Engineered Cell Populations with Chemotaxis.

A major force shaping form and patterns in biology is based in the presence of amplification mechanisms able to generate ordered, large-scale spatial structures out of local interactions and random initial conditions. Turing patterns are one of the best known candidates for such ordering dynamics, and their existence has been proven in both chemical and physical systems. Their relevance in biology, although strongly supported by indirect evidence, is still under discussion. Extensive modeling approaches have stemmed from Turing's pioneering ideas, but further confirmation from experimental biology is required. An alternative possibility is to engineer cells so that self-organized patterns emerge from local communication. Here we propose a potential synthetic design based on the interaction between population density and a diffusing signal, including also directed motion in the form of chemotaxis. The feasibility of engineering such a system and its implications for developmental biology are also assessed.

Attenuated Innate Immunity in Embryonic Stem Cells and Its Implications in Developmental Biology and Regenerative Medicine.

Embryonic stem cells (ESCs) represent a promising cell source for regenerative medicine. Intensive research over the past 2 decades has led to the feasibility of using ESC-differentiated cells (ESC-DCs) in regenerative medicine. However, increasing evidence indicates that ESC-DCs generated by current differentiation methods may not have equivalent cellular functions to their in vivo counterparts. Recent studies have revealed that both human and mouse ESCs as well as some types of ESC-DCs lack or have attenuated innate immune responses to a wide range of infectious agents. These findings raise important concerns for their therapeutic applications since ESC-DCs, when implanted to a wound site of a patient, where they would likely be exposed to pathogens and inflammatory cytokines. Understanding whether an attenuated immune response is beneficial or harmful to the interaction between host and grafted cells becomes an important issue for ESC-based therapy. A substantial amount of recent evidence has demonstrated that the lack of innate antiviral responses is a common feature to ESCs and other types of pluripotent cells. This has led to the hypothesis that mammals may have adapted different antiviral mechanisms at different stages of organismal development. The underdeveloped innate immunity represents a unique and uncharacterized property of ESCs that may have important implications in developmental biology, immunology, and in regenerative medicine.

Consumption habits of pregnant women and implications for developmental biology: a survey of predominantly Hispanic women in California.

BackgroundHealthy post-pregnancy outcomes are contingent upon an informed regimen of prenatal care encouraging healthy maternal consumption habits. In this article, we describe aspects of maternal intake of food, drink, and medication in a population of predominantly Hispanic women in Southern California. Potential implications for unhealthy prenatal dietary choices are discussed.MethodsThe Food, Beverage, and Medication Intake Questionnaire (FBMIQ) measures common practices of maternal consumption during pregnancy. The FBMIQ was administered to English and Spanish speaking pregnant and recently pregnant (36 weeks pregnant - 8 weeks post-partum) women over the age of 18 who were receiving care from a private medical group in Downey CA.ResultsA total of 200 women completed the FBMIQ. Consumption habits of healthy foods and beverages, unhealthy foods, unhealthy beverages, and medication are characterized in this article. Data indicate widespread consumption of fresh fruit, meats, milk and juice and indicate most women used prenatal vitamin supplements. Studies in developmental neuroscience have shown that certain substances may cause teratogenic effects on the fetus when ingested by the mother during pregnancy. Those potentially harmful substances included in our study were Bisphenol-A (BPA), methylmercury, caffeine, alcohol and certain medications. Our results show that a proportion of the women surveyed in our study consumed BPA, methylmercury, caffeine, alcohol, and certain medications at varied levels during pregnancy. This represents an interesting finding and suggests a disconnect between scientific data and general recommendations provided to pregnant mothers by obstetricians.ConclusionsThe results of our study demonstrate that a proportion of pregnant women consume substances that are potentially teratogenic and may impact the health and well being of the offspring. It is important to appraise healthy and unhealthy consumption habits in order to encourage healthy practices and alleviate future effects of preventable, toxin-induced developmental issues. Prenatal advising should discourage the consumption of dangerous foods, beverages, and medications that women commonly report eating during pregnancy.

Single Cell Fate Mapping in Zebrafish

The ability to differentially label single cells has important implications in developmental biology. For instance, determining how hematopoietic, lymphatic, and blood vessel lineages arise in developing embryos requires fate mapping and lineage tracing of undifferentiated precursor cells. Recently, photoactivatable proteins which include: Eos1, 2, PAmCherry3, Kaede4-7, pKindling8, and KikGR9, 10 have received wide interest as cell tracing probes. The fluorescence spectrum of these photosensitive proteins can be easily converted with UV excitation, allowing a population of cells to be distinguished from adjacent ones. However, the photoefficiency of the activated protein may limit long-term cell tracking11. As an alternative to photoactivatable proteins, caged fluorescein-dextran has been widely used in embryo model systems7, 12-14. Traditionally, to uncage fluorescein-dextran, UV excitation from a fluorescence lamp house or a single photon UV laser has been used; however, such sources limit the spatial resolution of photoactivation. Here we report a protocol to fate map, lineage trace, and detect single labeled cells. Single cells in embryos injected with caged fluorescein-dextran are photoactivated with near-infrared laser pulses produced from a titanium sapphire femtosecond laser. This laser is customary in all two-photon confocal microscopes such as the LSM 510 META NLO microscope used in this paper. Since biological tissue is transparent to near-infrared irradiation15, the laser pulses can be focused deep within the embryo without uncaging cells above or below the selected focal plane. Therefore, non-linear two-photon absorption is induced only at the geometric focus to uncage fluorescein-dextran in a single cell. To detect the cell containing uncaged fluorescein-dextran, we describe a simple immunohistochemistry protocol16 to rapidly visualize the activated cell. The activation and detection protocol presented in this paper is versatile and can be applied to any model system. Note: The reagents used in this protocol can be found in the table appended at the end of the article.

Single Cell Fate Mapping in Zebrafish

The ability to differentially label single cells has important implications in developmental biology. For instance, determining how hematopoietic, lymphatic, and blood vessel lineages arise in developing embryos requires fate mapping and lineage tracing of undifferentiated precursor cells. Recently, photoactivatable proteins which include: Eos1, 2, PAmCherry3, Kaede4-7, pKindling8, and KikGR9, 10 have received wide interest as cell tracing probes. The fluorescence spectrum of these photosensitive proteins can be easily converted with UV excitation, allowing a population of cells to be distinguished from adjacent ones. However, the photoefficiency of the activated protein may limit long-term cell tracking11. As an alternative to photoactivatable proteins, caged fluorescein-dextran has been widely used in embryo model systems7, 12-14. Traditionally, to uncage fluorescein-dextran, UV excitation from a fluorescence lamp house or a single photon UV laser has been used; however, such sources limit the spatial resolution of photoactivation. Here we report a protocol to fate map, lineage trace, and detect single labeled cells. Single cells in embryos injected with caged fluorescein-dextran are photoactivated with near-infrared laser pulses produced from a titanium sapphire femtosecond laser. This laser is customary in all two-photon confocal microscopes such as the LSM 510 META NLO microscope used in this paper. Since biological tissue is transparent to near-infrared irradiation15, the laser pulses can be focused deep within the embryo without uncaging cells above or below the selected focal plane. Therefore, non-linear two-photon absorption is induced only at the geometric focus to uncage fluorescein-dextran in a single cell. To detect the cell containing uncaged fluorescein-dextran, we describe a simple immunohistochemistry protocol16 to rapidly visualize the activated cell. The activation and detection protocol presented in this paper is versatile and can be applied to any model system. Note: The reagents used in this protocol can be found in the table appended at the end of the article.

Proteomic analysis of extracellular matrix and vesicles

The extracellular matrix (ECM) is the connective tissue component generated and secreted by cells to provide structural and functional support, while extracellular vesicles are distinct membrane-enclosed structures present outside of eucaryotic cells that carry out distinct biological functions. Different cell types release distinct populations of vesicles that fulfill various functions. Exosomes are vesicles commonly secreted by a variety of cells, whereas matrix vesicles (MVs) are specifically produced and secreted by bone cells to facilitate the formation of the ECM. This article focuses on the characteristics of the ECM and extracellular vesicles, and reviews the latest progress in applying proteomic technologies to analyze these features. The findings and implications in developmental biology, tumor biology, immunology, biomarker discovery, and vaccine research are also discussed.

The Drosophila Stock Centers and their implications for developmental biology.

Mutations are central to functional analyses of genes and their products. In vertebrates, gene clones may be readily available, but there is often a lack of mutations. In Drosophila melanogaster, which has been used in genetic research for almost a decade, mutations defining thousands of genes have been isolated. Much of the basic genetic knowledge available today has been obtained from fundamental experiments done on the fruitfly. This year's Nobel laureates in physiology and medicine, E.B. Lewis, C. Nüsslein-Volhard and E. Wieschaus, were rewarded for their important contributions to our understanding of the genetic control of early embryonic development where they used Drosophila melanogaster as a model system. Such experiments often result in huge numbers of mutant strains that should be maintained to aid in the localization and functional analyses of new genes in the future. For this reason Drosophila Stock Centers have been established in Europe and North America. Japan is also planning to build an Asian Drosophila Stock Center. The objectives of Drosophila Stock Centers are to maintain strains with well characterized mutations, check their constitution and distribute strains together with information about their genetic defects to research groups around the world. The European Commission has recently acknowledged the importance of stock centers as part of the biological research infrastructure by supporting the European Drosophila Stock Centre in Umeä.

Gene expression and chromatin structure in the pre-implantation embryo

The pre-implantation period of mammalian development includes the formation of the zygote, the activation of the embryonic genome (EGA), and the beginning of cellular differentiation. During this period, protamines are replaced by histones, the methylated haploid parental genomes undergo demethylation following formation of the diploid zygote, and maternal control of development is succeeded by zygotic control. Superimposed on this activation of the embryonic genome is the formation of a chromatin-mediated transcriptionally repressive state requiring enhancers for efficient gene expression. The development of this transcriptionally repressive state most likely occurs at the level of chromatin structure, because inducing histone hyperacetylation relieves the requirements for enhancers. Characterization of zygotic mRNA expression patterns during the pre-implantation period and their relationship to successful development in vitro and in vivo will be essential for defining optimized culture conditions and nuclear transfer protocols. The focus of this review is to summarize recent advances in this field and to discuss their implications for developmental biology.

Gene/environment causes of cleft lip and/or palate.

Craniofacial anomalies, and in particular cleft lip and palate, are major human birth defects with a worldwide frequency of 1 in 700 and substantial clinical impact. A wide range of studies in developmental biology has contributed to a better knowledge of how both genes and environmental exposures impact head organogenesis. Specific causes have now been identified for some forms of cleft lip and palate, and we are at the beginning of a time in which the common nonsyndromic forms may also have specific etiologies identified. Mouse models have an especially important role in disclosing cleft etiologies and providing models for environmental cotriggers or interventions. An overview of the gene-environment contributions to nonsyndromic forms of clefting and their implications for developmental biology and clinical counseling is presented.

Gravity and positional homeostasis of the cell

Normally bilateralization takes place in the presence of the Earth's gravity which produces torque, shear, tension and compression acting upon the naked aggregates of cytoplasm in the zygote which is only stabilized by a weak cytoskeleton. In an initial examination of the effects of these quantities on development, an expression is derived to describe the tendency of torque to rotate the egg and reorganize its constituents. This expression yields the net torque resulting from buoyancy and gravity acting upon a dumbbell shaped cell with heavy and light masses at either end and “floating” in a medium. Using crude values for the variables, torques of 2.5 × 10 −13 to 8.5 × 10 −1 dyne-cm are found to act upon cells ranging from 6.4 μm to 31 mm (chicken egg). By way of comparison six microtubules can exert a torque of 5 × 10 −9 dyne-cm. (1) Gravity imparts torque to cells; (2) torque is reduced to zero as gravity approaches zero; and (3) torque is sensitive to cell size and particulate distribution. Cells must expend energy to maintain positional homeostasis against gravity. Although not previously recognized, Skylab 3 results support this hypothesis: tissue cultures used 58% more glucose on Earth than in space. The implications for developmental biology, physiology, genetics, and evolution are considered. At the cellular and tissue level the concept of “gravity receptors” may be unnecessary.