Proteomic Analyses of Human Regulatory T Cells Reveal Adaptations in Signaling Pathways that Protect Cellular Identity.

To obtain a molecular definition of regulatory T (Treg) cell identity, we performed proteomics and transcriptomics on various populations of human regulatory and conventional CD4+ T (Tconv) cells. A protein expression signature was identified that defines all Treg cells, and another signature that defines effector Treg cells. These signatures could not be extrapolated from transcriptome data. Unique cell-biological and metabolic features in Treg cells were defined, as well as specific adaptations in cytokine, TCR, and costimulatory receptor signaling pathways. One such adaptation-selective STAT4 deficiency-prevented destabilization of Treg cell identity and function by inflammatory cytokines, while these signals could still induce critical transcription factors and homing receptors via other pathways. Furthermore, our study revealed surface markers that identify FOXP3+CD4+ T cells with distinct functional properties. Our findings suggest that adaptation in signaling pathways protect Treg cell identity and present a resource for further research into Treg cell biology.

Genetic lineage labeling in zebrafish uncovers novel neural crest contributions to the head, including gill pillar cells.

At the protochordate-vertebrate transition, a new predatory lifestyle and increased body size coincided with the appearance of a true head. Characteristic innovations of this head are a skull protecting and accommodating a centralized nervous system, a jaw for prey capture and gills as respiratory organs. The neural crest (NC) is a major ontogenetic source for the 'new head' of vertebrates and its contribution to the cranial skeleton has been intensively studied in different model organisms. However, the role of NC in the expansion of the respiratory surface of the gills has been neglected. Here, we use genetic lineage labeling to address the contribution of NC to specific head structures, in particular to the gills of adult zebrafish. We generated a sox10:ER(T2)-Cre line and labeled NC cells by inducing Cre/loxP recombination with tamoxifen at embryonic stages. In juvenile and adult fish, we identified numerous established NC derivatives and, in the cranium, we precisely defined the crest/mesoderm interface of the skull roof. We show the NC origin of the opercular bones and of multiple cell types contributing to the barbels, chemosensory organs located in the mouth region. In the gills, we observed labeled primary and secondary lamellae. Clonal analysis reveals that pillar cells, a craniate innovation that mechanically supports the filaments and forms gill-specific capillaries, have a NC origin. Our data point to a crucial role for the NC in enabling more efficient gas exchange, thus uncovering a novel, direct involvement of this embryonic tissue in the evolution of respiratory systems at the protochordate-vertebrate transition.

Multilocus Analyses Reveal Postglacial Demographic Shrinkage of Juniperus morrisonicola (Cupressaceae), a Dominant Alpine Species in Taiwan.

Postglacial climate changes alter geographical distributions and diversity of species. Such ongoing changes often force species to migrate along the latitude/altitude. Altitudinal gradients represent assemblage of environmental, especially climatic, variable factors that influence the plant distributions. Global warming that triggered upward migrations has therefore impacted the alpine plants on an island. In this study, we examined the genetic structure of Juniperus morrisonicola, a dominant alpine species in Taiwan, and inferred historical, demographic dynamics based on multilocus analyses. Lower levels of genetic diversity in north indicated that populations at higher latitudes were vulnerable to climate change, possibly related to historical alpine glaciers. Neither organellar DNA nor nuclear genes displayed geographical subdivisions, indicating that populations were likely interconnected before migrating upward to isolated mountain peaks, providing low possibilities of seed/pollen dispersal across mountain ranges. Bayesian skyline plots suggested steady population growth of J. morrisonicola followed by recent demographic contraction. In contrast, most lower-elevation plants experienced recent demographic expansion as a result of global warming. The endemic alpine conifer may have experienced dramatic climate changes over the alternation of glacial and interglacial periods, as indicated by a trend showing decreasing genetic diversity with the altitudinal gradient, plus a fact of upward migration.

Heterogeneity across the dorso-ventral axis in zebrafish EVL is regulated by a novel module consisting of sox, snail1a and max genes.

In vertebrates, the dorso-ventral (DV) axis is defined by the combinatorial action of localised Wnt, FGF and Nodal signalling along with the antagonizing activities of Chordin and BMP pathways. Our knowledge of the factors that may act in concert with these core pathways to regulate early embryonic patterning is far from complete. Furthermore, while all three germ layers respond to these patterning cues, it is not clear whether in zebrafish the outermost protective epithelium, the enveloping layer (EVL), is also patterned along the DV axis. Here, we have identified a transgenic line driving GFP under a crestin promoter, which specifically labels the dorsal domain of the EVL suggesting heterogeneity in the EVL across the DV axis. Our attempts to understand how the expression from this promoter fragment is regulated specifically in the dorsal domain, have unravelled potential novel players involved in early EVL and embryonic patterning. We show that along with Nodal signalling components, four proteins Sox11b, Sox19b, Snail1a and Max are involved in regulating the size of this EVL domain. However, Chordin-BMP signalling might be dispensable for the dorso-ventral patterning of the EVL. For the first time, this transgenic line unravels the heterogeneity in the EVL and will serve as an important tool in understanding the molecular basis of the DV patterning of the EVL.

The zebrafish cerebellar upper rhombic lip generates tegmental hindbrain nuclei by long-distance migration in an evolutionary conserved manner.

The upper rhombic lip (URL) of the developing mammalian cerebellum produces different neuronal cell types in a temporal sequence. The first neuronal populations arising from this proliferation zone include the progenitors of the parabrachial, parabigeminal, and laterodorsal-pedunculopontine tegmental hindbrain nuclei. By means of expression analysis, histology, and retrograde neuronal tracing, we have identified the zebrafish homologues of these nuclei, namely, the secondary gustatory/viscerosensory nucleus, the nucleus isthmi, and the superior reticular nucleus, respectively, in the embryonic and larval brain of a stable transgenic wnt1:Gal4-VP16-14 x UAS:GFP zebrafish strain. Combining time-lapse confocal imaging with individual cell tracing, we characterize the migratory behavior of these neuronal precursor populations in detail by revealing their migration path, velocity, and directionality. In addition, we identify neuronal progenitors of the secondary gustatory/viscerosensory nucleus and nucleus isthmi/superior reticular nucleus as belonging to the polysialic acid (PSA)-expressing cell population in the cerebellar plate that migrates in a PSA-dependent manner. Finally, we reveal that circuitries involved in the processing of sensory information (visual, gustatory, general viscerosensory) are already established in the zebrafish larva at day 4 of development. Also the wnt1-expressing pretectal neuronal precursors (not originating from the URL) sending mossy fiber-like projections into the cerebellar corpus are established at that time. In sum, our results show that the origin of neurons of some tegmental hindbrain nuclei, namely, nucleus isthmi/superior reticular nucleus and secondary gustatory/viscerosensory nucleus is in the URL, and that the temporal order of cell types produced by the URL and their developmental program are conserved among vertebrate species.

Comparisons of calcium regulation in fish larvae.

The purpose of the present study was to compare the ability of larvae of different species, goldfish (Carassius auratus), zebrafish (Danio rerio), and ayu (Plecoglossus altivelis), to regulate their calcium balance. Whole-body Ca(2+) content and Ca(2+) influx in the larvae of the three species, which were incubated in low- (0.02 mM), mid- (0.2 mM), and high- (2.0 mM) Ca(2+) artificial fresh water from embryonic stages, were compared. The Ca(2+) uptake kinetics were determined in zebrafish and goldfish incubated in high- or low-Ca(2+) artificial fresh water. Ca(2+) content of both zebrafish and ayu acclimated to low-Ca(2+) media were significantly lower than those acclimated to mid- or high-Ca(2+) media. However, Ca(2+) contents of goldfish in low-, mid-, and high-Ca(2+) groups showed no significant differences. In goldfish, Ca(2+) influx in the low-Ca(2+) group was significantly higher than those of the mid- and high-Ca(2+) groups. In contrast, the Ca(2+) influx rate in the low-Ca(2+) group was significantly lower than those in the mid- and high-Ca(2+) groups in zebrafish and ayu. Compared to the high-Ca(2+) group, the low-Ca(2+) group of goldfish showed a 13% increase in the maximal velocity (J(max)) and an 84% decrease in the Michaelis constant (K(m)) for Ca(2+) influx. Smaller changes, i.e., an 8% increase in J(max) and a 67% decrease in K(m), were found in zebrafish larvae. Goldfish possess a more effective Ca(2+) regulatory capacity than do zebrafish and ayu. Differences in the strategies for Ca(2+) balance may be associated with different development patterns and environments in which these fish naturally occur.