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NASA NTRS2003

Developmental gene regulatory network architecture across 500 million years of echinoderm evolution

Evolutionary change in morphological features must depend on architectural reorganization of developmental gene regulatory networks (GRNs), just as true conservation of morphological features must imply retention of ancestral developmental GRN features. Key elements of the provisional GRN for embryonic endomesoderm development in the sea urchin are here compared with those operating in embryos of a distantly related echinoderm, a starfish. These animals diverged from their common ancestor 520-480 million years ago. Their endomesodermal fate maps are similar, except that sea urchins generate a skeletogenic cell lineage that produces a prominent skeleton lacking entirely in starfish larvae. A relevant set of regulatory genes was isolated from the starfish Asterina miniata, their expression patterns determined, and effects on the other genes of perturbing the expression of each were demonstrated. A three-gene feedback loop that is a fundamental feature of the sea urchin GRN for endoderm specification is found in almost identical form in the starfish: a detailed element of GRN architecture has been retained since the Cambrian Period in both echinoderm lineages. The significance of this retention is highlighted by the observation of numerous specific differences in the GRN connections as well. A regulatory gene used to drive skeletogenesis in the sea urchin is used entirely differently in the starfish, where it responds to endomesodermal inputs that do not affect it in the sea urchin embryo. Evolutionary changes in the GRNs since divergence are limited sharply to certain cis-regulatory elements, whereas others have persisted unaltered.

NASA Program Fundamental Space Biology↗

NASA NTRS2023

An Analysis of Degradation in Low-Cost Particulate Matter Sensors

Low-cost sensors (LCSs) are increasingly being used to measure fine particulate matter (PM 2.5 ) concentrations in cities around the world. One of the most commonly deployed LCSs is PurpleAir with ∼15 000 sensors deployed in the United States, alone. PurpleAir measurements are widely used by the public to evaluate PM 2.5 levels in their neighborhoods. PurpleAir measurements are also increasingly being integrated into models by researchers to develop large-scale estimates of PM 2.5 . However, the change in sensor performance over time has not been well studied. It is important to understand the lifespan of these sensors to determine when they should be serviced or replaced, and when measurements from these devices should or should not be used for various applications. This paper fills this gap by leveraging the fact that: (1) each PurpleAir sensor is composed of two identical sensors and the divergence between their measurements can be observed, and (2) there are numerous PurpleAir sensors within 50 meters of regulatory monitors allowing for the comparison of measurements between these instruments. We propose empirically-derived degradation outcomes for the PurpleAir sensors and evaluate how these outcomes change over time. On average, we find that the number of ‘flagged’ measurements, where the two sensors within each PurpleAir sensor disagree, increases with time to ∼4% after 4 years of operation. Approximately, 2 percent of all PurpleAir sensors were permanently degraded. The largest fraction of permanently degraded PurpleAir sensors appeared to be in the hot and humid climate zone, suggesting that sensors in these locations may need to be replaced more frequently. We also find that the bias of PurpleAir sensors, or the difference between corrected PM2.5 levels and the corresponding reference measurements, changed over time by −0.12 μg m −3 (95% CI: −0.13 μg m −3 , −0.10 μg m −3 ) per year. The average bias increases dramatically after 3.5 years. Further, climate zone is a significant modifier of the association between degradation outcomes and time.

Priyanka deSouza↗

NASA NTRS2003

Conservation of Endo16 expression in sea urchins despite evolutionary divergence in both cis and trans-acting components of transcriptional regulation

Evolutionary changes in transcriptional regulation undoubtedly play an important role in creating morphological diversity. However, there is little information about the evolutionary dynamics of cis-regulatory sequences. This study examines the functional consequence of evolutionary changes in the Endo16 promoter of sea urchins. The Endo16 gene encodes a large extracellular protein that is expressed in the endoderm and may play a role in cell adhesion. Its promoter has been characterized in exceptional detail in the purple sea urchin, Strongylocentrotus purpuratus. We have characterized the structure and function of the Endo16 promoter from a second sea urchin species, Lytechinus variegatus. The Endo16 promoter sequences have evolved in a strongly mosaic manner since these species diverged approximately 35 million years ago: the most proximal region (module A) is conserved, but the remaining modules (B-G) are unalignable. Despite extensive divergence in promoter sequences, the pattern of Endo16 transcription is largely conserved during embryonic and larval development. Transient expression assays demonstrate that 2.2 kb of upstream sequence in either species is sufficient to drive GFP reporter expression that correctly mimics this pattern of Endo16 transcription. Reciprocal cross-species transient expression assays imply that changes have also evolved in the set of transcription factors that interact with the Endo16 promoter. Taken together, these results suggest that stabilizing selection on the transcriptional output may have operated to maintain a similar pattern of Endo16 expression in S. purpuratus and L. variegatus, despite dramatic divergence in promoter sequence and mechanisms of transcriptional regulation.

NASA Discipline Evolutionary Biology↗

NASA NTRS1999

Early animal evolution: emerging views from comparative biology and geology

The Cambrian appearance of fossils representing diverse phyla has long inspired hypotheses about possible genetic or environmental catalysts of early animal evolution. Only recently, however, have data begun to emerge that can resolve the sequence of genetic and morphological innovations, environmental events, and ecological interactions that collectively shaped Cambrian evolution. Assembly of the modern genetic tool kit for development and the initial divergence of major animal clades occurred during the Proterozoic Eon. Crown group morphologies diversified in the Cambrian through changes in the genetic regulatory networks that organize animal ontogeny. Cambrian radiation may have been triggered by environmental perturbation near the Proterozoic-Cambrian boundary and subsequently amplified by ecological interactions within reorganized ecosystems.

Non-NASA Center↗

NASA NTRS2001

Evolution of hematopoiesis: Three members of the PU.1 transcription factor family in a cartilaginous fish, Raja eglanteria

T lymphocytes and B lymphocytes are present in jawed vertebrates, including cartilaginous fishes, but not in jawless vertebrates or invertebrates. The origins of these lineages may be understood in terms of evolutionary changes in the structure and regulation of transcription factors that control lymphocyte development, such as PU.1. The identification and characterization of three members of the PU.1 family of transcription factors in a cartilaginous fish, Raja eglanteria, are described here. Two of these genes are orthologs of mammalian PU.1 and Spi-C, respectively, whereas the third gene, Spi-D, is a different family member. In addition, a PU.1-like gene has been identified in a jawless vertebrate, Petromyzon marinus (sea lamprey). Both DNA-binding and transactivation domains are highly conserved between mammalian and skate PU.1, in marked contrast to lamprey Spi, in which similarity is evident only in the DNA-binding domain. Phylogenetic analysis of sequence data suggests that the appearance of Spi-C may predate the divergence of the jawed and jawless vertebrates and that Spi-D arose before the divergence of the cartilaginous fish from the lineage leading to the mammals. The tissue-specific expression patterns of skate PU.1 and Spi-C suggest that these genes share regulatory as well as structural properties with their mammalian orthologs.

NASA Discipline Evolutionary Biology↗

NASA NTRS1993

Flux-tube divergence, coronal heating, and the solar wind

Using model calculations based on a self-consistent treatment of the coronal energy balance, we show how the magnetic flux-tube divergence rate controls the coronal temperature and the properties of the solar wind. For a fixed input of mechanical and Alfven-wave energy at the coronal base, we find that as the divergence rate increases, the maximum coronal temperature decreases but the mass flux leaving the sun gradually increases. As a result, the asymptotic wind speed decreases with increasing expansion factor near the sun, in agreement with empirical studies. As noted earlier by Withbroe, the calculated mass flux at the sun is remarkably insensitive to parameter variations; when combined with magnetohydrodynamic considerations, this self-regulatory property of the model explains the observed constancy of the mass flux at earth.

Wang, Y.-M.↗