An integrated bioinformatics analysis reveals divergent evolutionary pattern of oil biosynthesis in high- and low-oil plants

Seed oils provide a renewable source of food, biofuel and industrial raw materials that is important for humans. Although many genes and pathways for acyl-lipid metabolism have been identified, little is known about whether there is a specific mechanism for high-oil content in high-oil plants. Based on the distinct differences in seed oil content between four high-oil dicots (20~50%) and three low-oil grasses (<3%), comparative genome, transcriptome and differential expression analyses were used to investigate this mechanism. Among 4,051 dicot-specific soybean genes identified from 252,443 genes in the seven species, 54 genes were shown to directly participate in acyl-lipid metabolism, and 93 genes were found to be associated with acyl-lipid metabolism. Among the 93 dicot-specific genes, 42 and 27 genes, including CBM20-like SBDs and GPT2, participate in carbohydrate degradation and transport, respectively. 40 genes highly up-regulated during seed oil rapid accumulation period are mainly involved in initial fatty acid synthesis, triacylglyceride assembly and oil-body formation, for example, ACCase, PP, DGAT1, PDAT1, OLEs and STEROs, which were also found to be differentially expressed between high- and low-oil soybean accessions. Phylogenetic analysis revealed distinct differences of oleosin in patterns of gene duplication and loss between high-oil dicots and low-oil grasses. In addition, seed-specific GmGRF5, ABI5 and GmTZF4 were predicted to be candidate regulators in seed oil accumulation. This study facilitates future research on lipid biosynthesis and potential genetic improvement of seed oil content

Blueprint for an intestinal villus: Species‐specific assembly required

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/144650/1/wdev317_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/144650/2/wdev317.pd

Autonomous underwater gliders monitoring variability at "choke points" in our ocean system: a case study in Western Mediterranean Sea

Publicado

Association between polymorphisms on chromosome 17q12-q21 and rhinovirus-induced interferon responses

Background: Single nucleotide polymorphisms (SNPs) in genes on chromosome 17q12-q21 are associated with childhood-onset asthma and rhinovirus-induced wheezing. There is little mechanistic data linking chromosome 17q12-q21 to wheezing illness. Objective: To investigate whether 17q12-q21 risk alleles may be associated with impaired interferon (IFN) responses to rhinovirus.Methods: In a population-based birth cohort of European ancestry, we stimulated peripheral blood mononuclear cells (PBMCs) with rhinovirus-A1 (RV-A1) and rhinovirus-A16 (RV-A16) and measured IFN and IFN-induced chemokine CXCL10/IP10 responses in supernatants. We investigated associations between virus-induced cytokines and six SNPs in 17q12-q21. Bayesian profile regression was applied to identify clusters of individuals with different immune response profiles and genetic variants.Results: Five SNPs (in high linkage disequilibrium, r^2≥0.8). were significantly associated with RV-A1-induced IFN-β (rs9303277: P=0.010; rs11557467: P=0.012; rs2290400: P=0.006; rs7216389: P=0.008; rs8079416: P=0.005). A reduction in RV-A1-induced IFN-β was observed among individuals carrying asthma risk alleles. There were no significant associations for RV-A1-induced IFN-α or CXCL10, or for any RV-A16-induced IFN/CXCL10. Bayesian profile regression analysis identified three clusters which differed in IFN-β induction to RV-A1 (low, medium and high). The typical genetic profile of the cluster associated with low RV-A1-induced IFN-β responses was characterised by a very high probability of being homozygous for the asthma risk allele for all SNPs. Children with persistent wheeze were almost 3-times more likely to be in clusters with reduced/average RV-A1-induced IFN- β responses than in the high immune response cluster. Conclusions: Polymorphisms on chromosome 17q12-q21 are associated with rhinovirus-induced IFN-β, suggesting a novel mechanism (impaired IFN-β induction) linking 17q12-q21 risk alleles with asthma/wheeze. <br/

Autocorrelation of the Ground Vibrations Recorded by the SEIS-InSight Seismometer on Mars

Since early February 2019, the SEIS (Seismic Experiment for Interior Structure) seismometer deployed at the surface of Mars in the framework of the InSight mission has been continuously recording the ground motion at Elysium Planitia. In this study, we take advantage of this exceptional data set to put constraints on the crustal properties of Mars using seismic interferometry (SI). To carry out this task, we first examine the continuous records from the very broadband seismometer. Several deterministic sources of environmental noise are identified and specific preprocessing strategies are presented to mitigate their influence. Applying the principles of SI to the single-station configuration of InSight, we compute, for each Sol and each hour of the martian day, the diagonal elements of the time-domain correlation tensor of random ambient vibrations recorded by SEIS. A similar computation is performed on the diffuse waveforms generated by more than a hundred Marsquakes. A careful signal-to-noise ratio analysis and an inter-comparison between the two datasets suggest that the results from SI are most reliable in a narrow frequency band around 2.4 Hz, where an amplification of both ambient vibrations and seismic events is observed. The average autocorrelation functions (ACFs) contain well identifiable seismic arrivals, that are very consistent between the two datasets. Interpreting the vertical and horizontal ACFs as, respectively, the P- and S- seismic reflectivity below InSight, we propose a simple stratified velocity model of the crust, which is mostly compatible with previous results from receiver function analysis. Our results are discussed and compared to recent works from the literature.This study is InSight contribution number 164. The authors acknowledge both “Université Fédérale de Toulouse Midi Pyrénées” and the “Région Occitanie” for funding the PhD grant of Nicolas Compaire. The French authors acknowledge the French Space Agency CNES and ANR (ANR-14-CE36-0012-02 and ANR-19-CE31-0008-08) for funding the InSight Science analysis

Seismic Constraints on the Thickness and Structure of the Martian Crust from InSight

NASA¿s InSight mission [1] has for the first time placed a very broad-band seismometer on the surface of Mars. The Seismic Experiment for Interior Structure (SEIS) [2] has been collecting continuous data since early February 2019. The main focus of InSight is to enhance our understanding of the internal structure and dynamics of Mars, which includes the goal to better constrain the crustal thickness of the planet [3]. Knowing the present-day crustal thickness of Mars has important implications for its thermal evolution [4] as well as for the partitioning of silicates and heat-producing elements between the different layers of Mars. Current estimates for the crustal thickness of Mars are based on modeling the relationship between topography and gravity [5,6], but these studies rely on different assumptions, e.g. on the density of the crust and upper mantle, or the bulk silicate composition of the planet and the crust. The resulting values for the average crustal thickness differ by more than 100%, from 30 km to more than 100 km [7]. New independent constraints from InSight will be based on seismically determining the crustal thickness at the landing site. This single firm measurement of crustal thickness at one point on the planet will allow to constrain both the average crustal thickness of Mars as well as thickness variations across the planet when combined with constraints from gravity and topography [8]. Here we describe the determination of the crustal structure and thickness at the InSight landing site based on seismic receiver functions for three marsquakes compared with autocorrelations of InSight data [9].We acknowledge NASA, CNES, partner agencies and institutions (UKSA, SSO,DLR, JPL, IPGP-CNRS, ETHZ, IC, MPS-MPG) and the operators of JPL, SISMOC, MSDS, IRIS-DMC and PDS for providing SEED SEIS data. InSight data is archived in the PDS, and a full list of archives in the Geosciences, Atmospheres, and Imaging nodes is at https://pds-geosciences.wustl.edu/missions/insight/. This work was partially carried out at the Jet Propulsion Laboratory, California Institute of Technology, under a contract with the National Aeronautics and Space Administration. ©2021, California Institute of Technology. Government sponsorship acknowledge

DataSHIELD: mitigating disclosure risk in a multi-site federated analysis platform

\ua9 The Author(s) 2025. Published by Oxford University Press.Motivation: The validity of epidemiologic findings can be increased using triangulation, i.e. comparison of findings across contexts, and by having sufficiently large amounts of relevant data to analyse. However, access to data is often constrained by practical considerations and by ethico-legal and data governance restrictions. Gaining access to such data can be time-consuming due to the governance requirements associated with data access requests to institutions in different jurisdictions. Results: DataSHIELD is a software solution that enables remote analysis without the need for data transfer (federated analysis). DataSHIELD is a scientifically mature, open-source data access and analysis platform aligned with the \u27Five Safes\u27 framework, the international framework governing safe research access to data. It allows real-time analysis while mitigating disclosure risk through an active multi-layer system of disclosure-preventing mechanisms. This combination of real-time remote statistical analysis, disclosure prevention mechanisms, and federation capabilities makes DataSHIELD a solution for addressing many of the technical and regulatory challenges in performing the large-scale statistical analysis of health and biomedical data. This paper describes the key components that comprise the disclosure protection system of DataSHIELD. These broadly fall into three classes: (i) system protection elements, (ii) analysis protection elements, and (iii) governance protection elements

Autocorrelation of the Ground Vibrations Recorded by the SEIS‐InSight Seismometer on Mars

Since early February 2019, the SEIS (Seismic Experiment for Interior Structure) seismometer deployed at the surface of Mars in the framework of the InSight mission has been continuously recording the ground motion at Elysium Planitia. In this study, we take advantage of this exceptional data set to put constraints on the crustal properties of Mars using seismic interferometry (SI). To carry out this task, we first examine the continuous records from the very broadband seismometer. Several deterministic sources of environmental noise are identified and specific preprocessing strategies are presented to mitigate their influence. Applying the principles of SI to the single-station configuration of InSight, we compute, for each Sol and each hour of the martian day, the diagonal elements of the time-domain correlation tensor of random ambient vibrations recorded by SEIS. A similar computation is performed on the diffuse waveforms generated by more than a hundred Marsquakes. A careful signal- to-noise ratio analysis and an inter-comparison between the two datasets suggest that the results from SI are most reliable in a narrow frequency band around 2.4 Hz, where an amplification of both ambient vibrations and seismic events is observed. The average autocorrelation functions (ACFs) contain well identifiable seismic arrivals, that are very consistent between the two datasets. Interpreting the vertical and horizontal ACFs as, respectively, the P- and S- seismic reflectivity below InSight, we propose a simple stratified velocity model of the crust, which is mostly compatible with previous results from receiver function analysis. Our results are discussed and compared to recent works from the literature