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At least 739 records · Page 41

First measurement of polarized spin-density matrix elements and differential cross sections dσ/dt in ω photoproduction off the proton for 2.7 < Eγ < 5.2 GeV using CLAS at Jefferson Lab

We report on the differential cross sections dσ/dt, the unpolarized spin-density matrix elements ρ 00 0 , ρ 1 − 1 0 , Re ρ 10 0 , and the first extraction of the polarized elements Im ρ 10 3 , Im ρ 1 − 1 3 for the reaction γp → pω using the CLAS spectrometer at Jefferson Laboratory. The ω mesons were detected in their dominant charged decay mode, ω → π + π − π 0 , and all t-dependent results are presented in a fine binning for incident photon energies between 2.73 and 5.16 GeV (corresponding to the center-of-mass energy range W ∈ [ 2.45, 3.25 ] GeV). All matrix elements are first measurements for − t > 0.6 GeV2. Moreover, differential cross sections dσ/d(cos Θ c . m . ω ) and the corresponding angle-dependent unpolarized spin-density matrix elements in the Adair frame are presented for the incident photon energy range 1.56–3.80 GeV (corresponding to W ∈ [ 1.95, 2.83 ] GeV). These new ω photoproduction data are consistent with earlier CLAS results but extend the energy range well beyond the nucleon resonance region into the Regge regime. The comparison with Regge-theory-based model predictions shows that the new data impose more stringent constraints on our understanding of ω photoproduction.

Hu, T.↗

Evaluation of microRNAs − 208 and 133a/b as differential biomarkers of acute cardiac and skeletal muscle toxicity in rats

Conventional circulating biomarkers of cardiac and skeletal muscle (SKM) toxicity lack specificity and/or have a short half-life. MicroRNAs (miRNAs) are currently being assessed as biomarkers of tissue injury based on their long half-life in blood and selective expression in certain tissues. To assess the utility of miRNAs as biomarkers of cardiac and SKM injury, male Sprague–Dawley rats received a single dose of isoproterenol (ISO); metaproterenol (MET); allylamine (AAM); mitoxantrone (MIT); acetaminophen (APAP) or vehicle. Blood and tissues were collected from rats in each group at 4, 24 and 48 h. ISO, MET, and AAM induced cardiac and SKM lesions and APAP induced liver specific lesions. There was no evidence of tissue injury with MIT by histopathology. Serum levels of candidate miRNAs were compared to conventional serum biomarkers of SKM/cardiac toxicity. Increases in heart specific miR-208 only occurred in rats with cardiac lesions alone and were increased for a longer duration than cardiac troponin and FABP3 (cardiac biomarkers). ISO, MET and AAM induced increases in MyL3 and skeletal muscle troponin (sTnl) (SKM biomarkers). MIT induced large increases in sTnl indicative of SKM toxicity, but sTnl levels were also increased in APAP-treated rats that lacked SKM toxicity. Serum levels of miR-133a/b (enriched in cardiac and SKM) increased following ISO, MET, AAM and MIT treatments but were absent in APAP-treated rats. Our results suggest that miR-133a/b are sensitive and specific markers of SKM and cardiac toxicity and that miR-208 used in combination with miR-133a/b can be used to differentiate cardiac from SKM toxicity. - Highlights: • MiR-208 is specifically expressed in rat hearts. • MiR-133a/b are enriched in rat cardiac/skeletal muscle. • MiR-133a/b are sensitive and specific markers of muscle/cardiac toxicity. • MiR-208 can be used to differentiate cardiac toxicity from skeletal muscle toxicity.

60 APPLIED LIFE SCIENCES↗

Liraglutide, a glucagon-like peptide-1 receptor agonist, facilitates osteogenic proliferation and differentiation in MC3T3-E1 cells through phosphoinositide 3-kinase (PI3K)/protein kinase B (AKT), extracellular signal-related kinase (ERK)1/2, and cAMP/protein kinase A (PKA) signaling pathways involving β-catenin

Previous studies have proven that glucagon-like peptide-1 (GLP-1) and its receptor agonist exert favorable anabolic effects on skeletal metabolism. However, whether GLP-1 could directly impact osteoblast-mediated bone formation is still controversial, and the underlying molecular mechanism remains to be elucidated. Thus in this paper, we investigated the effects of liraglutide, a glucagon-like peptide-1 (GLP-1) receptor agonist, on murine MC3T3-E1 preosteoblasts proliferation and differentiation and explored the potential cellular basis. Our study confirmed the presence of GLP-1R in MC3T3-E1, and demonstrated that liraglutide promotes osteoblasts proliferation at an intermediate concentration (100 nM) and time (48 h), upregulated the expression of osteoblastogenic biomarkers at various stages, and stimulated osteoblastic mineralization. Liraglutide also elevated the intracellular cAMP level and phosphorylation of AKT, ERK and β-catenin simultaneously with increased nuclear β-catenin content and transcriptional activity. Pretreatment of cells with the inhibitors LY294002, PD98059, H89 and GLP-1R and β-catenin siRNA partially blocked the liraglutide-induced signaling activation and attenuated the facilitating effect of liraglutide on MC3T3-E1 cells. Collectively, liraglutide was capable of acting upon osteoblasts directly through GLP-1R by activating PI3K/AKT, ERK1/2, cAMP/PKA/β-cat-Ser675 signaling to promote bone formation via GLP-1R. Thus, GLP-1 analogues may be potential therapeutic strategy for the treatment of osteoporosis in diabetics. - Highlights: • Liraglutide promoted proliferation and differentiation of murine MC3T3-E1 preosteoblasts. • GLP-1R was expressed in MC3T3-E1 cells. • These effects were mediated by PI3K/AKT, ERK1/2, and cAMP/PKA pathway via GLP-1R. • β-catenin was also involved in this complex process.

60 APPLIED LIFE SCIENCES↗

Circulating regulatory Tfh cells are enriched in patients with chronic hepatitis B infection and induce the differentiation of regulatory B cells

Highlights: • Tfh cells contained a CD25{sup +}Foxp3{sup +} Treg-like subset enriched in HBV patients. • The CD25{sup +} Tfh subset presented distinctive cytokine secretion profile. • The CD25{sup +} Tfh subset was less capable of mediating plasmablast differentiation. • B cells incubated with CD25{sup +} Tfh cells presented elevated regulatory function. • IL-10{sup +} B cells were positively correlated with CD25{sup +}Foxp3{sup +} Tfh cells in HBV patients. Chronic hepatitis B virus (HBV) infection is a complex disease with dysregulations in the immune system. Follicular helper T (Tfh) cells are professional B helper cells that are crucial to the development of antibody responses and are involved in a variety of diseases. In this study, we examined the circulating Tfh cells in patients with chronic HBV infection. We observed that CD3{sup +}CD4{sup +}CXCR5{sup +} circulating Tfh cells contained a CD25{sup +}Foxp3{sup +} Treg-like subset that was significantly enriched in patients with chronic HBV infections. The CD25{sup +} Tfh subset presented distinctive cytokine secretion profile, such as lower interferon (IFN)-γ and interleukin (IL)−17, and higher transforming growth factor (TGF)-β secretion, compared to the CD25{sup -} Tfh subset. When incubated with autologous naive CD10{sup -}CD27{sup -}CD19{sup +} B cells, the CD25{sup +} Tfh subset was less capable of mediating CD20{sup -/lo}CD38{sup +} plasmablast differentiation than the CD25{sup -} Tfh subset. In terms of Ig production, CD25{sup +} Tfh cells were more potent at inducing IgM but less potent at inducing IgG and IgA than CD25{sup -} Tfh cells. Interestingly, B cells following incubation with CD25{sup +} Tfh cells presented elevated regulatory function, with higher production of IL-10 and enhanced capacity of suppressing autologous CD8{sup +} T cell inflammation. In the chronic HBV-infected patients, the frequency of IL-10{sup +} B cells and the HBV viral load were positively correlated with the frequency of CD25{sup +}Foxp3{sup +} CD4{sup +}CXCR5{sup +} Tfh cells. Together, this study presented that CD25{sup +}Foxp3{sup +} Treg-like Tfh cells were enriched in chronic HBV-infected patients and could promote regulatory B cell functions.

60 APPLIED LIFE SCIENCES↗

The three branches of the unfolded protein response exhibit differential significance in breast cancer growth and stemness

Highlights: • UPR sensors are highly expressed in cancers and correlate with SOX2 and OCT4. • Inhibition/silencing of PERK and ATF6α strongly affect breast cancer growth and CSC. • An appropriate UPR level is required for the mammosphere formation and maintenance. • UPR and pluripotency pathways interact and influence each other. • C/EBPδ interacts with SOX2 and UPR transcription factors, modulating both pathways. The unfolded protein response (UPR) is widely activated in cancers. The mammalian UPR encompasses three signaling branches, namely inositol-requiring enzyme-1α (IRE1α), protein kinase R (PKR)-like endoplasmic reticulum kinase (PERK) and activating transcription factor 6α (ATF6α). The functional significance of each branch in tumorigenesis is incompletely understood, especially in cancer stem cells (CSCs). Here, we report that inhibition and silencing of the three UPR sensors has differential effects on breast cancer growth and the CSC population. The levels of PERK and ATF6α strongly correlate with the expression of sex determining region Y (SRY)-box 2 (SOX2), a pluripotency regulator, in human breast cancer tissues. UPR activation is also elevated in the CSC-enriched mammospheres. Inhibition of the UPR sensors or excess ER stress markedly reduces the formation and maintenance of mammospheres, suggesting that an appropriate level of UPR activation is critical for the CSC survival. Mechanistically, transcription factors from UPR and pluripotency pathways interact and reciprocally influence each other. A transcription modulator, CCAAT-enhancer-binding protein delta (C/EBPδ), interacts with pluripotency regulator, SOX2, and UPR transcription factors, thus likely serving as a link to coordinate UPR and pluripotency maintenance in CSCs. Our findings demonstrate that UPR is critical for both cancer growth and pluripotency, and highlight the differential role and complexity of the three UPR branches in tumorigenesis.

60 APPLIED LIFE SCIENCES↗

Endoplasmic reticulum stress-dependent ROS production mediates synovial myofibroblastic differentiation in the immobilization-induced rat knee joint contracture model

Highlights: • Joint immobilization increases GRP78 and type I collagen deposition in vivo. • ER stress-dependent intracellular ROS production contributes to synovial myofibroblastic differentiation in vitro. • Upregulated expression of GRP78 and α-SMA in the human contracted knee joint. Joint contracture is a common complication for people with joint immobility that involves fibrosis structural alteration in the joint capsule. Considering that endoplasmic reticulum (ER) stress plays a prominent role in the promotion of tissue fibrosis, we investigated whether the unfolded protein response (UPR) contributes to the fibrotic development in immobilization-induced knee joint contractures. Using a non-traumatic rat knee joint contracture model, twelve female Sprague-Dawley rats received knee joint immobilization for a period of 8 weeks. We found that fibrosis protein markers (type I collagen, α-SMA) and UPR (GRP78, ATF6α, XBP1s) markers were parallelly upregulated in rat primary cultured synovial myofibroblasts. In the same cell types, pre-treatment with an ER stress inhibitor, 4-phenylbutyric acid (4-PBA), not only abrogated cytokine TGFβ1 stimulation but also reduced the protein level of UPR. Additionally, high reactive oxygen species (ROS) generation was detected in synovial myofibroblasts through flow cytometry, as expected. Notably, TGFβ1-induced UPR was significantly reduced through the inhibition of ROS with antioxidants. These data suggest that ER stress act as a pro-fibrotic stimulus through the overexpression of ROS in synovial fibroblasts. Interestingly, immunohistochemical results showed an increase in the UPR protein levels both in human acquired joint contractures capsule tissue and in animal knee joint contracture tissue. Together, our findings suggest that ER stress contributes to synovial myofibroblastic differentiation in joint capsule fibrosis and may also serve as a potential therapeutic target in joint contractures.

60 APPLIED LIFE SCIENCES↗

MUSTN1 is an indispensable factor in the proliferation, differentiation and apoptosis of skeletal muscle satellite cells in chicken

The yield and quality of the skeletal muscle are important economic traits in livestock and poultry production. The musculoskeletal embryonic nuclear protein 1 (MUSTN1) gene has been shown to be associated with embryonic development, postnatal growth, bone and skeletal muscle regeneration; however, its function in the skeletal muscle development of chicken remains unclear. Therefore, in this study, we observed that the expression level of MUSTN1 increased in conjunction with the proliferation of chicken skeletal muscle satellite cells (SMSCs). Knockdown of MUSTN1 in SMSCs downregulated the expression of cell proliferation genes as Pax7, CDK-2 and differentiation-relate genes including MyoD, MyoG, MyHC and MyH1B, whereas it upregulates the expression of cell apoptosis gene (Caspase-3) (P < 0.05). However, the combined analysis of CCK-8 and EdU showed that the cell vitality and EdU-positive cells of the si-MUSTN1 transfected group were significantly lower than those of the negative siRNA group (P < 0.05). In addition, the knockdown of MUSTN1 significantly increased the cell population in the G0/G1 phase and significantly decreased the cell population in the G2/M phase (P < 0.05), whereas the overexpression of MUSTN1 showed opposite effect. Taken together, our findings indicates that MUSTN1 is an important molecular factor that is responsible for regulating muscle growth and development in chickens, particularly, proliferation and differentiation of SMSCs.

60 APPLIED LIFE SCIENCES↗

Differential formulation of the viscous history force on a particle for efficient and accurate computation

It is well known that the computation of the Basset-like history force is very demanding in terms of CPU and memory requirements, since it requires the evaluation of a history integral. We use the recent rational theory of Beylkin & Monzón ( Appl. Comput. Harmon. Anal. , vol. 19, 2005, pp. 17–48) to approximate the history kernel in the form of exponential sums to reformulate the viscous history force in a differential form. This theory allows us to approximate the history kernel in terms of exponential sums to any desired order of accuracy. This removes the need for long-time storage of the acceleration histories of the particle and the fluid. The proposed differential form approximation is applied to compute the history force on a spherical particle in a synthetic turbulent flow and a wall-bounded turbulent channel flow. Particles of various diameters are considered, and results obtained using the present technique are in reasonable agreement with those achieved using the full history integral.

Mechanics↗

Structure and dynamics of magneto-inertial, differentially rotating laboratory plasmas

We present a detailed characterization of the structure and evolution of differentially rotating plasmas driven on the MAGPIE pulsed-power generator (1.4 MA peak current, 240 ns rise time). The experiments were designed to simulate physics relevant to accretion discs and jets on laboratory scales. A cylindrical aluminium wire array Z pinch enclosed by return posts with an overall azimuthal off-set angle was driven to produce ablation plasma flows that propagate inwards in a slightly off-radial trajectory, injecting mass, angular momentum and confining ram pressure to a rotating plasma column on the axis. However, the plasma is free to expand axially, forming a collimated, differentially rotating axial jet that propagates at ${\approx }100\,{\rm km}\,{\rm s}^{-1}$ . The density profile of the jet corresponds to a dense shell surrounding a low-density core, which is consistent with the centrifugal barrier effect being sustained along the jet's propagation. We show analytically that, as the rotating plasma accretes mass, conservation of mass and momentum implies plasma radial growth scaling as $r \propto t^{1/3}$ . As the characteristic moment of inertia increases, the rotation velocity is predicted to decrease and settle on a characteristic value ${\approx }20\,{\rm km}\,{\rm s}^{-1}$ . We find that both predictions are in agreement with Thomson scattering and optical self-emission imaging measurements.

Valenzuela-Villaseca, V. (ORCID:0000000167721441)↗

Selecting a Single Stereocenter: The Molecular Nuances That Differentiate β-Hexuronidases in the Human Gut Microbiome

The human gut microbiome is a ripe space for the discovery of new proteins and novel functions. Many genes in the gut microbiome encode glycoside hydrolases that help bacteria scavenge sugars present in the human gut. Glycoside hydrolase family 2 (GH2) is one group of sugar-scavenging proteins, which includes β-glucuronidases (GUS) and β-galacturonidases (GalAses), enzymes that cleave the sugar conjugates of the epimers glucuronate and galacturonate. Here we structurally and functionally characterize a GH2 GalAse and a hybrid GUS/GalAse, which reveal the molecular details that enable these GHs to differentiate a single stereocenter. First, we characterized a previously annotated GUS from Eisenbergiella tayi and demonstrated that it is, in fact, a GalAse. We determined the crystal structure of this GalAse, identified the key residue that confers GalAse activity, and convert this GalAse into a GUS by mutating a single residue. We performed bioinformatic analysis of 279 putative GUS enzymes from the human gut microbiome and identified 12 additional putative GH2 GalAses, one of which we characterized and confirmed is a GalAse. Finally, we report the structure of a hybrid GUS/GalAse from Fusicatenibacter saccharivorans, which revealed a unique hexamer that positions the N-terminus of adjacent protomers in the aglycone binding site. Taken together, these data reveal a new class of bacterial GalAses in the human gut microbiome and unravel the structural details that differentiate GH2 GUSs and GalAses.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Differential Wavevector Distribution of Surface-Enhanced Raman Scattering and Fluorescence in a Film-Coupled Plasmonic Nanowire Cavity

Here, we report on the experimental observation of differential wavevector distribution of surface-enhanced Raman scattering (SERS) and fluorescence from dye molecules confined to a gap between plasmonic silver nanowire and a thin, gold mirror. The fluorescence was mainly confined to higher values of in-plane wavevectors, whereas SERS signal was uniformly distributed along all the wavevectors. The optical energy momentum spectra from the distal end of the nanowire revealed strong polarization dependence of this differentiation. All these observations were corroborated by full-wave three-dimensional numerical simulations, which further revealed an interesting connection between out-coupled wavevectors and parameters such as hybridized modes in the gap-plasmon cavity, and orientation and location of molecular dipoles in the geometry. Our results reveal a new prospect of discriminating electronic and vibrational transitions in resonant dye molecules using a subwavelength gap plasmonic cavity in the continuous-wave excitation limit, and can be further harnessed to engineer molecular radiative relaxation processes in momentum space.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Strong Differential Monovalent Anion Selectivity in Narrow Diameter Carbon Nanotube Porins

Inner pores of carbon nanotubes combine extremely fast water transport and ion selectivity that could potentially be useful for high-performance water desalination and separation applications. In this study, we used dye-quenching halide assays and stopped-flow spectrometry to determine intrinsic permeability of three small monovalent halide anions (chloride, bromide, iodide) and one pseudohalide anion (thiocyanate) through narrow 0.8 nm-diameter carbon nanotube porins (CNTPs). These measurements revealed unexpectedly strong differential ion selectivity with permeabilities of different ions varying by up to two orders of magnitude. Removal of the negative charge from the nanotube entrance increased anion permeability by only a relatively small factor, indicating that electrostatic repulsion was not a major determinant of CNTP selectivity. First principle molecular dynamics simulations revealed that the origin of this strong differential ion selectivity is partial dehydration of anions upon entry into the narrow CNTP channels.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Differentiable, Learnable, Regionalized Process-Based Models With Multiphysical Outputs can Approach State-Of-The-Art Hydrologic Prediction Accuracy

Predictions of hydrologic variables across the entire water cycle have significant value for water resources management as well as downstream applications such as ecosystem and water quality modeling. Recently, purely data-driven deep learning models like long short-term memory (LSTM) showed seemingly insurmountable performance in modeling rainfall runoff and other geoscientific variables, yet they cannot predict untrained physical variables and remain challenging to interpret. Here, we show that differentiable, learnable, process-based models (called δ models here) can approach the performance level of LSTM for the intensively observed variable (streamflow) with regionalized parameterization. We use a simple hydrologic model HBV as the backbone and use embedded neural networks, which can only be trained in a differentiable programming framework, to parameterize, enhance, or replace the process-based model's modules. Without using an ensemble or post-processor, δ models can obtain a median Nash-Sutcliffe efficiency of 0.732 for 671 basins across the USA for the Daymet forcing data set, compared to 0.748 from a state-of-the-art LSTM model with the same setup. For another forcing data set, the difference is even smaller: 0.715 versus 0.722. Meanwhile, the resulting learnable process-based models can output a full set of untrained variables, for example, soil and groundwater storage, snowpack, evapotranspiration, and baseflow, and can later be constrained by their observations. Both simulated evapotranspiration and fraction of discharge from baseflow agreed decently with alternative estimates. The general framework can work with models with various process complexity and opens up the path for learning physics from big data.

54 ENVIRONMENTAL SCIENCES↗

Inferring Plant Acclimation and Improving Model Generalizability With Differentiable Physics‐Informed Machine Learning of Photosynthesis

Net photosynthesis (A N ) is a key component of the global carbon cycle influencing climate feedback over decadal scales. Although plant acclimation to environmental changes can modify A N , traditional vegetation models in Earth system models (ESMs) often rely on plant functional type (PFT)-specific parameterizations or simplified acclimation assumptions limiting generalizability across time, space, and PFTs. In this study, we developed a differentiable photosynthesis model to learn the environmental dependencies of V c,max25 (maximum carboxylation rate at 25°C, representing photosynthetic capacity), as this genre of hybrid physics-informed machine learning can seamlessly train neural networks and process-based equations together. Compared to PFT-specific parameterization of V c,max25 , learning the environment dependencies of key photosynthetic parameters improved model spatiotemporal generalizability. Applying environmental acclimation to V c,max25 led to substantial variations in global mean A N indicating the need to address acclimation in ESMs. The model effectively captured multivariate observations (V c,max25 , A N , and stomatal conductance (g s )) simultaneously with multivariate constraints, improving generalization across space and PFTs. It also learned sensible acclimation relationships of V c,max25 to different environmental conditions. The model explained more than 54%, 57%, and 62% of the variance of A N , g s , and V c,max25 , respectively, presenting a first global-scale spatial test benchmark of A N and g s . These results highlight the potential for differentiable modeling to enhance process-based modules in ESMs and effectively leverage information from large, multivariate data sets.

54 ENVIRONMENTAL SCIENCES↗

Sulfate differentially stimulates but is not respired by diverse anaerobic methanotrophic archaea

Abstract Sulfate-coupled anaerobic oxidation of methane (AOM) is a major methane sink in marine sediments. Multiple lineages of anaerobic methanotrophic archaea (ANME) often coexist in sediments and catalyze this process syntrophically with sulfate-reducing bacteria (SRB), but the potential differences in ANME ecophysiology and mechanisms of syntrophy remain unresolved. A humic acid analog, anthraquinone 2,6-disulfonate (AQDS), could decouple archaeal methanotrophy from bacterial sulfate reduction and serve as the terminal electron acceptor for AOM (AQDS-coupled AOM). Here in sediment microcosm experiments, we examined variations in physiological response between two co-occurring ANME-2 families (ANME-2a and ANME-2c) and tested the hypothesis of sulfate respiration by ANME-2. Sulfate concentrations as low as 100 µM increased AQDS-coupled AOM nearly 2-fold matching the rates of sulfate-coupled AOM. However, the SRB partners remained inactive in microcosms with sulfate and AQDS and neither ANME-2 families respired sulfate, as shown by their cellular sulfur contents and anabolic activities measured using nanoscale secondary ion mass spectrometry. ANME-2a anabolic activity was significantly higher than ANME-2c, suggesting that ANME-2a was primarily responsible for the observed sulfate stimulation of AQDS-coupled AOM. Comparative transcriptomics showed significant upregulation of ANME-2a transcripts linked to multiple ABC transporters and downregulation of central carbon metabolism during AQDS-coupled AOM compared to sulfate-coupled AOM. Surprisingly, genes involved in sulfur anabolism were not differentially expressed during AQDS-coupled AOM with and without sulfate amendment. Collectively, this data indicates that ANME-2 archaea are incapable of respiring sulfate, but sulfate availability differentially stimulates the growth and AOM activity of different ANME lineages.

59 BASIC BIOLOGICAL SCIENCES↗

Optimization of carbon and energy utilization through differential translational efficiency

Control of translation is vital to all species. Here we employ a multi-omics approach to decipher condition-dependent translational regulation in the model acetogen Clostridium ljungdahlii . Integration of data from cells grown autotrophically or heterotrophically revealed that pathways critical to carbon and energy metabolism are under strong translational regulation. Major pathways involved in carbon and energy metabolism are not only differentially transcribed and translated, but their translational efficiencies are differentially elevated in response to resource availability under different growth conditions. We show that translational efficiency is not static and that it changes dynamically in response to mRNA expression levels. mRNAs harboring optimized 5'-untranslated region and coding region features, have higher translational efficiencies and are significantly enriched in genes encoding carbon and energy metabolism. In contrast, mRNAs enriched in housekeeping functions harbor sub-optimal features and have lower translational efficiencies. As a result, we propose that regulation of translational efficiency is crucial for effectively controlling resource allocation in energy-deprived microorganisms.

59 BASIC BIOLOGICAL SCIENCES↗

Perturbed myoepithelial cell differentiation in BRCA mutation carriers and in ductal carcinoma in situ

Myoepithelial cells play key roles in normal mammary gland development and in limiting pre-invasive to invasive breast tumor progression, yet their differentiation and perturbation in ductal carcinoma in situ (DCIS) are poorly understood. Here, we investigated myoepithelial cells in normal breast tissues of BRCA1 and BRCA2 germline mutation carriers and in non-carrier controls, and in sporadic DCIS. We found that in the normal breast of non-carriers, myoepithelial cells frequently co-express the p63 and TCF7 transcription factors and that p63 and TCF7 show overlapping chromatin peaks associated with differentiated myoepithelium-specific genes. In contrast, in normal breast tissues of BRCA1 mutation carriers the frequency of p63 + TCF7 + myoepithelial cells is significantly decreased and p63 and TCF7 chromatin peaks do not overlap. These myoepithelial perturbations in normal breast tissues of BRCA1 germline mutation carriers may play a role in their higher risk of breast cancer. The fraction of p63 + TCF7 + myoepithelial cells is also significantly decreased in DCIS, which may be associated with invasive progression.

59 BASIC BIOLOGICAL SCIENCES↗

Learning emergent partial differential equations in a learned emergent space

We propose an approach to learn effective evolution equations for large systems of interacting agents. This is demonstrated on two examples, a well-studied system of coupled normal form oscillators and a biologically motivated example of coupled Hodgkin-Huxley-like neurons. For such types of systems there is no obvious space coordinate in which to learn effective evolution laws in the form of partial differential equations. In our approach, we accomplish this by learning embedding coordinates from the time series data of the system using manifold learning as a first step. In these emergent coordinates, we then show how one can learn effective partial differential equations, using neural networks, that do not only reproduce the dynamics of the oscillator ensemble, but also capture the collective bifurcations when system parameters vary. The proposed approach thus integrates the automatic, data-driven extraction of emergent space coordinates parametrizing the agent dynamics, with machine-learning assisted identification of an emergent PDE description of the dynamics in this parametrization.

97 MATHEMATICS AND COMPUTING↗