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Sex chromosome replacement is frequent in many vertebrate clades, including fish, frogs, and lizards. In order to understand the mechanisms responsible for sex chromosome turnover and the early stages of sex chromosome divergence, it is necessary to study lineages with recently evolved sex chromosomes. Here we examine sex chromosome evolution in a group of African cichlid fishes (tribe Tropheini) which began to diverge from one another less than 4 MYA. We have evidence for a previously unknown sex chromosome system, and preliminary indications of several additional systems not previously reported in this group. We find a high frequency of sex chromosome turnover and estimate a minimum of 14 turnovers in this tribe. We date the origin of the most common sex determining system in this tribe (XY-LG5/19) near the base of one of two major sub-clades of this tribe, about 3.4 MY ago. Finally, we observe variation in the size of one sex-determining region that suggests independent evolution of evolutionary strata in species with a shared sex-determination system. Our results illuminate the rapid rate of sex chromosome turnover in the tribe Tropheini and set the stage for further studies of the dynamics of sex chromosome evolution in this group.

 

Whenever developers choose among alternative technical approaches, they make a design decision. Collectively, design decisions shape how software implements its requirements and shape non-functional quality attributes such as maintainability, extensibility, and performance. Developers work with design decisions both when identifying, choosing, and documenting alternatives and when later work requires following and understanding previously made design decisions. Design decisions encompass design rationale, describing the alternatives and justification for a design choice, as well as design rules, describing the constraints imposed by specific alternatives. This article summarizes and classifies research on these activities, examining different approaches through which tools may support developers in working with design decisions in code. We focus both on the technical aspects of tools as well as the human aspects of how tools support developers. Our survey identifies goals developers have in working with design decisions throughout the lifecycle of design decisions. We also examine the potential support tools may offer developers in achieving these goals and the challenges in offering better support. 

Oogenesis is a complex process regulated by precise coordination of multiple factors, including maternal genes. Zygote arrest 1 (zar1) has been identified as an ovary-specific maternal gene that is vital for oocyte-to-embryo transition and oogenesis in mouse and zebrafish. However, its function in other species remains to be elucidated. In the present study, zar1 was identified with conserved C-terminal zinc finger domains in Nile tilapia. zar1 was highly expressed in the ovary and specifically expressed in phase I and II oocytes. Disruption of zar1 led to the failed transition from oogonia to phase I oocytes, with somatic cell apoptosis. Down-regulation and failed polyadenylation of figla, gdf9, bmp15 and wee2 mRNAs were observed in the ovaries of zar1􀀀 /􀀀 fish. Cpeb1, a gene essential for polyadenylation that interacts with Zar1, was down-regulated in zar1􀀀 /􀀀 fish. Moreover, decreased levels of serum estrogen and increased levels of androgen were observed in zar1􀀀 /􀀀 fish. Taken together, zar1 seems to be essential for tilapia oogenesis by regulating polyadenylation and estrogen synthesis. Our study shows that Zar1 has different molecular functions during gonadal development by the similar signaling pathway in different species. 

Mutualistic symbioses between cnidarians and photosynthetic algae are modulated by complex interactions between host immunity and environmental conditions. Here, we investigate how symbiosis interacts with food limitation to influence gene expression and stress response programming in the sea anemoneExaiptasia pallida(Aiptasia). Transcriptomic responses to starvation were similar between symbiotic and aposymbiotic Aiptasia; however, aposymbiotic anemone responses were stronger. Starved Aiptasia of both symbiotic states exhibited increased protein levels of immune-related transcription factor NF-κB, its associated gene pathways, and putative target genes. However, this starvation-induced increase in NF-κB correlated with increased immunity only in symbiotic anemones. Furthermore, starvation had opposite effects on Aiptasia susceptibility to pathogen and oxidative stress challenges, suggesting distinct energetic priorities under food scarce conditions. Finally, when we compared starvation responses in Aiptasia to those of a facultative coral and non-symbiotic anemone, ‘defence’ responses were similarly regulated in Aiptasia and the facultative coral, but not in the non-symbiotic anemone. This pattern suggests that capacity for symbiosis influences immune responses in cnidarians. In summary, expression of certain immune pathways—including NF-κB—does not necessarily predict susceptibility to pathogens, highlighting the complexities of cnidarian immunity and the influence of symbiosis under varying energetic demands.

 

In recent years, anthropogenic activities and climate change have significantly increased exposure of plants to environmental stresses (single or multiple) and pollutants, with negative consequences for the survival and productivity of vegetation. Plants may activate an armament of defenses against stresses. Isoprene, the most abundant biogenic volatile organic compound (BVOC) emitted by plants, is supposed to have a direct or indirect antioxidant role by quenching reactive oxygen species (ROS) or by reprogramming gene expression for antioxidant activation. On the other hand, isoprene is involved in the chemistry of troposphere, further contributing to a build up of pollutants when mixing with anthropogenic gases. In this review, we summarize present knowledge on the impact of air and soil pollutants on isoprene emission by plants, indicating possible feedback and feedforward mechanisms that may affect whole ecosystem functioning and evolution of plant species. 

Abstract. Cloud area distributions are a defining feature of Earth's radiative exchanges with outer space. Cloud perimeter distributions n(p) are also interesting because the shared interface between clouds and clear sky determines exchanges of buoyant energy and air. Here, we test using detailed model output and a wide range of satellite datasets a first-principles prediction that perimeter distributions follow a scale-invariant power law n(p) ∝ p-(1+β), where the exponent β = 1 is evaluated for perimeters within moist isentropic atmospheric layers. In model analyses, the value of β is closely reproduced. In satellite data, β is remarkably robust to latitude, season, and land–ocean contrasts, which suggests that, at least statistically speaking, cloud perimeter distributions are determined more by atmospheric stability than Coriolis forces, surface temperature, or contrasts in aerosol loading between continental and marine environments. However, the satellite-measured value of β is found to be 1.26 ± 0.06 rather than β = 1. The reason for the discrepancy is unclear, but comparison with a model reproduction of the satellite perspective suggests that it may owe to cloud overlap. Satellite observations also show that scale invariance governs cloud areas for a range at least as large as ∼ 3 to ∼ 3 × 105 km2, and notably with a corresponding power law exponent close to unity. Many prior studies observed a much smaller range for power law behavior, and we argue this difference is due to inappropriate treatments of the statistics of clouds that are truncated by the edge of the measurement domain.

 

Lack of proper nutrition has important consequences for the physiology of all organisms, and nutritional status can affect immunity, based on many studies in terrestrial animals. Here we show a positive correlation between nutrition and immunity in the sea anemoneNematostella vectensis. Gene expression profiling of adult anemones shows downregulation of genes involved in nutrient metabolism, cellular respiration, and immunity in starved animals. Starved adult anemones also have reduced protein levels and activity of immunity transcription factor NF-κB. Starved juvenile anemones have increased sensitivity to bacterial infection and also have lower NF-κB protein levels, as compared to fed controls. Weighted Gene Correlation Network Analysis (WGCNA) is used to identify significantly correlated gene networks that were downregulated with starvation. These experiments demonstrate a correlation between nutrition and immunity in an early diverged marine metazoan, and the results have implications for the survival of marine organisms as they encounter changing environments.

 

Polylactic acid (PLA) and bioplastics alike have a designed degradability to avoid the environmental buildup that petroplastics have created. Yet, this designed biotic-degradation has typically been characterized in ideal conditions. This study seeks to relate the abiotic to the biotic degradation of PLA to accurately represent the degradation pathways bioplastics will encounter, supposing their improper disposal in the environment. Enzymatic hydrolysis was used to study the biodegradation of PLA with varying stages of photoaging. Utilizing a fluorescent tag to follow enzyme hydrolysis, it was determined that increasing the amount of irradiation yielded greater amounts of total enzymatic hydrolysis by proteinase K after 8 h of enzyme incubation. While photoaging of the polymers causes minimal changes in chemistry and increasing amounts of crystallinity, the trends in biotic degradation appear to primarily be driven by photoinduced reduction in molecular weight. The relationship between photoaging and enzyme hydrolysis appears to be independent of enzyme type, though commercial product degradation may be impacted by the presence of additives. Overall, this work reveals the importance of characterizing biodegradation with relevant samples that ultimately can inform optimization of production and disposal.