bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association Between Hyperlactatemia, Perfusional Parameters, and Lymphocyte Mitochondrial Dysfunction in Septic Shock Patients
Authors: Nedel Wagner Luis , Strogulski Nathan Ryzewski , Kopczynski Afonso , Rodolphi Marcelo Salimen , Montes Thiago Hermes Maeso , Júnior Jose Abruzzi , Friedman Gilberto , Portela Luis Valmor 
Published: October 2021

ABSTRACT

Introduction:
In septic shock, mitochondrial dysfunction, and hypoperfusion are the main triggers of multi-organ failure. Little is known about the crosstalk between mitochondrial dysfunction and hemodynamic alterations, especially in the post-resuscitation phase. Here, we assess whether hypoperfusion and lactate levels are associated with oxygen consumption linked to mitochondrial bioenergetic activity in lymphocytes of patients admitted with septic shock.

Patients and Methods:
Prospective cohort study in patients with septic shock defined as the requirement of vasopressors to maintain a mean arterial pressure 65 mm Hg after initial fluid administration. Basal mitochondrial and Complex I respiration was measured to evaluate mitochondrial activity. Both variables and capillary refill time were compared with arterial lactate post-fluid resuscitation. We also compared mitochondrial activity measurements between patients with and without hypoperfusion status.

Results:
A total of 90 patients were included in analysis. The median arterial lactate at the time of septic shock diagnosis was 2.0 mmol/Dl (IQR 1.3–3.0). Baseline respiration at the time of septic shock diagnosis was correlated with lactate (Spearman −0.388, 95% CI −0.4893 to −0.1021; P = 0.003), as well as Complex I respiration (Spearman −0.403, 95% CI −0.567 to −0.208; P < 0.001). Patients with hypoperfusion status had no difference in basal respiration when compared with patients who did not have hypoperfusion status (P = 0.22) nor in Complex I respiration (P = 0.09).

Conclusion:
Changes in lymphocytic mitochondrial metabolism are associated with post-resuscitation arterial lactate in septic shock; however, they are not associated with the presence of a hypoperfusional status. In this scenario, it is therefore suggested that systemic perfusion and mitochondrial metabolism have different courses.
Plant Formulation ATRICOV 452 in Improving the Level of COVID-19 Specific Inflammatory Markers in Patients
Authors: Damle Latha , Damle Hrishikesh , Bharath BR 
Published: October 2021

AbstractDue to the huge demand for health care facilities, there is a need for safe therapeutic intervention which can reduce the need for extensive health care support. In that regard, the current study was aimed at performing Phase 1 clinical trial to determine the safety of plant formulation in 24 healthy volunteers and Phase 2 trials in 100 COVID-19 patients to determine the tolerability and impact on the level of COVID 19 specific inflammatory markers. The outcomes of the Phase 1study have suggested the safe usage of plant formulation in humans and encouraged to conduct Phase 2 clinical trial. In the Phase 2 trial, the plant formulation was evaluated in 100 COVID-19 patients along with the standard of care. In Phase 1 single dose of 500 mg plant formulation capsule was used as an intervention, while 1gm thrice a day of plant formulation for 14 days was the testing dose for Phase 2. During the Phase 1 trial, no adverse event was observed and all organ systems were normal in function. During the Phase 2 trial, 100 patients underwent randomization, 50 were assigned to receive plant formulation, and 50 to receive placebo. Three patients in the placebo and two patients in the plant formulation group had dropped out from the study. Hence, the primary analysis population included 95 patients (48 allocated to plant formulation and 47 to placebo). The COVID 19 specific inflammatory markers improved faster and became normal in the plant formulation treatment group. In conclusion, the plant formulation (ATRICOV 452) has been found to be safe in phases 1 and 2.Trial RegistrationPhase 1: CTRI Registration number: CTRI/2020/09/027660Phase 2: CTRI Registration number: CTRI/2021/01/030795
Metformin-mediated mitochondrial protection post-cardiac arrest improves EEG activity and confers neuroprotection and survival benefit
Authors: Shoaib Muhammad , Choudhary Rishabh C. , Chillale Rupesh K. , Kim Nancy , Miyara Santiago J. , Haque Shabirul , Yin Tai , Frankfurt Maya , Molmenti Ernesto P. , Zanos Stavros , Kim Junhwan , Becker Lance B. 
Published: October 2021

AbstractCardiac arrest (CA) produces global ischemia/reperfusion injury resulting in substantial multiorgan damage. There are limited efficacious therapies to save lives despite CA being such a lethal disease process. Surviving patients suffer extensive brain damage with mitochondrial dysfunction implicated as a major source of injury. Metformin, a first-line treatment for diabetes, has also shown promising results in other diseases and is known to interact with mitochondria. In the present study, we evaluated the therapeutic benefits of metformin administration immediately after resuscitation using a 10 min asphxyial-CA rat model. This is the first study to show that metformin treatment post-CA a) improves survival and neurologic function, b) potentiates early normalization of brain electrophysiologic activity, and c) protects mitochondrial function with a reduction in apoptotic brain injury. Overall, as an effective and safe drug, metformin has the potential to be an easily translatable intervention for improving survival and preventing brain damage after CA.SummaryBrain damage post-cardiac arrest is a major cause of death; metformin protects brain mitochondria and improved survival and brain function.
Constrained optimisation of divisional load in hierarchically-organised tissues during homeostasis
Authors: Ashcroft Peter , Bonhoeffer Sebastian 
Published: October 2021

AbstractIt has been hypothesised that the structure of tissues and the hierarchy of differentiation from stem cell to terminally-differentiated cell play a significant role in reducing the incidence of cancer in that tissue. One specific mechanism by which this risk can be reduced is by minimising the number of divisions – and hence the mutational risk – that cells accumulate as they divide to maintain tissue homeostasis. Here we investigate a mathematical model of cell division in a hierarchical tissue, calculating and minimising the divisional load while constraining parameters such that homeostasis is maintained. We show that the minimal divisional load is achieved by binary division tress with progenitor cells incapable of selfrenewal. Contrary to the protection hypothesis, we find that an increased stem cell turnover can lead to lower divisional load. Furthermore, we find that the optimal tissue structure depends on the time horizon of the duration of homeostasis, with faster stem cell division favoured in short-lived organisms and more progenitor compartments favoured in longer-lived organisms.
Investigating lead removal at trace concentrations from water by inactive yeast cells
Authors: Stathatou Patritsia M. , Athanasiou Christos E. , Tsezos Marios , Goss John W. , Blackburn Camron , Tourlomousis Filippos , Mershin Andreas , Sheldon Brian W. , Padture Nitin P. , Darling Eric M. , Gao Huajian , Gershenfeld Neil 
Published: October 2021

AbstractTraces of heavy metals found in water resources, due to mining activities and e-waste discharge, pose a global threat. Conventional treatment processes fail to remove toxic heavy metals, such as lead, from drinking water in a resource-efficient manner when their initial concentrations are low. Here, we show that by using the yeastSaccharomyces cerevisiaewe can effectively remove trace lead from waterviaa rapid mass transfer process, achieving an uptake of up to 12 mg lead per gram of biomass in solutions with initial lead concentrations below 1 part per million. We found that the yeast cell wall plays a crucial role in this process, with its mannoproteins and β-glucans being the key potential lead adsorbents. Furthermore, we discovered that biosorption is linked to a significant increase in cell wall stiffness. These findings open new opportunities for using environmentally friendly and abundant biomaterials for advanced water treatment targeting emerging contaminants.One-Sentence SummaryRemoving toxic heavy metals from water at challenging trace levels in an environmentally friendly, resource-efficient manner.
Antibiotic and novel compounds manipulation in vitro collagen matrix cells changes extracellular matrix non-complete cell division of fibroblast cells as new dermology technology
Authors: Ahmed Waseem , Azmat Rafia , Qayyum Abdul , Ahmed Rasheed , Moin Sumeira 
Published: October 2021

AbstractFibroblasts are several cells that are essential for human skin function and regulation process, the underfeed cells are a further issue of skin disorder the current study was based on isolated novel antibiotics compounds comparison of (Chloramphenicol IV) with the changes of Extracellular matrix (RC), inflammatory cells (SC) and non-complete cell division (ICD) effects on fibroblasts cell changes with the cell wall in structural and morphological changes. The new antibiotic compounds were measured and characters in (FTIR) methods with their functional group’s analysis of bioactive compounds from Adhatoda vasica and Calotropis procera plants and their effective inhibition concentrations (I C50) extract’s against tyrosinase conditions with their activity in vitro enzymatic process, both extracts have higher enzymatic inhibition assay was assessed. The fibroblast cells were compared with Chloramphenicol IV antibiotics with extracted compounds the cell wall was indiscretion and complete shape and structural changes were measured. The higher values of Diphenolase (22.5 μg/mL) was noted in Adhatoda vasica while an IC50 value of Monophenolase was 19.16 μg/mL, which is helpful in the treatment of fibroblast cell disorders, were higher in collagenase inhibition assay, elastase inhibition assay, hyaluronidase inhibition assay, tyrosinase inhibition assay process. It was concluded that novel antibiotics compounds from species could act an as effective role in fibroblast were used in future medicines as sources of locations and creams to control various skin diseases and skin disorder management’s processes.
Population bottleneck has only marginal effect on fitness evolution and its repeatability in dioecious C. elegans
Authors: Bisschop Karen , Blankers Thomas , Mariën Janine , Wortel Meike T. , Egas Martijn , Groot Astrid T. , Visser Marcel E. , Ellers Jacintha 
Published: October 2021

ABSTRACTThe predictability of evolution is expected to depend on the relative contribution of deterministic and stochastic processes. This ratio is modulated by effective population size. Smaller effective populations harbor less genetic diversity and stochastic processes are generally expected to play a larger role, leading to less repeatable evolutionary trajectories. Empirical insight into the relationship between effective population size and repeatability is limited and focused mostly on asexual organisms. Here, we tested whether fitness evolution was less repeatable after a population bottleneck in obligately outcrossing populations of Caenorhabditis elegans. Replicated populations founded by 500, 50, or 5 individuals (no/moderate/strong bottleneck) were exposed to a novel environment with a different bacterial prey. As a proxy for fitness, population size was measured after one week of growth before and after 15 weeks of evolution. Surprisingly, we found no significant differences among treatments in their fitness evolution. Even though the strong bottleneck reduced the relative contribution of selection to fitness variation, this did not translate to a significant reduction in the repeatability of fitness evolution. Thus, although a bottleneck reduced the contribution of deterministic processes, we conclude that the predictability of evolution may not universally depend on effective population size, especially in sexual organisms.
Pseudo-dynamic analysis of heart tube formation in the mouse reveals strong regional variability and early left-right asymmetry
Authors: Esteban Isaac , Schmidt Patrick , Temiño Susana , Kobbelt Leif , Torres Miguel 
Published: October 2021

ABSTRACTUnderstanding organ morphogenesis requires a precise geometrical description of the tissues involved in the process. In highly regulative embryos, like those of mammals, morphological variability hinders the quantitative analysis of morphogenesis. In particular, the study of early heart development in mammals remains a challenging problem, due to imaging limitations and innate complexity. Around embryonic day 7.5 (E7.5), the cardiac crescent folds in an intricate and coordinated manner to produce a pumping linear heart tube at E8.25, followed by heart looping at E8.5. In this work we provide a complete morphological description of this process based on detailed imaging of a temporally dense collection of embryonic heart morphologies. We apply new approaches for morphometric staging and quantification of local morphological variations between specimens at the same stage. We identify hot spots of regionalized variability and identify left-right asymmetry in the inflow region starting at the late cardiac crescent stage, which represents the earliest signs of organ left-right asymmetry in the mammalian embryo. Finally, we generate a 3D+t digital model that provides a framework suitable for co-representation of data from different sources and for the computer modelling of the process.SUMMARY STATEMENTWe provide the first complete atlas for morphometric analysis and visualization of heart tube morphogenesis, reporting morphological variability and early emergence of left-right asymmetry patterns.
Glutamine metabolism enables NKT cell homeostasis and function through the AMPK-mTORC1 signaling axis
Authors: Kumar Ajay , Yarosz Emily L. , Andren Anthony , Zhang Li , Lyssiotis Costas A. , Chang Cheong-Hee 
Published: October 2021

AbstractCellular metabolism is essential in dictating conventional T cell development and function, but its role in natural killer T (NKT) cells has not been well studied. We have previously shown that NKT cells operate distinctly different metabolic programming from CD4 T cells, including a strict requirement for glutamine metabolism to regulate NKT cell homeostasis. However, the mechanisms by which NKT cells regulate glutamine metabolism for their homeostasis and effector functions remain unknown. In this study, we report that steady state NKT cells have higher glutamine levels than CD4 T cells and NKT cells increase glutaminolysis upon activation. Among its many metabolic fates, NKT cells use glutamine to fuel the tricarboxylic acid cycle and glutathione synthesis, and glutamine-derived nitrogen enables protein glycosylation via the hexosamine biosynthesis pathway (HBP). Each of these functions of glutamine metabolism was found to be critical for NKT cell survival and proliferation. Furthermore, we demonstrate that glutaminolysis and the HBP differentially regulate IL-4 and IFNγ production. Finally, glutamine metabolism appears to be controlled by AMP-activated protein kinase (AMPK)-mTORC1 signaling. These findings highlight a unique metabolic requirement of NKT cells which can be potentially serve as an effective immunotherapeutic agent against certain nutrient restricted tumors.SignificanceNKT cells get activated very early during an immune response and produce cytokines and chemokines, which further activate other immune cell types. Although metabolism regulates these functions in other T cell subsets, little is understood about how metabolic pathways are controlled in NKT cells. The present study shows that NKT cells metabolize the amino acid glutamine through two different branches of metabolism, which control NKT cell homeostasis and expansion in a similar manner but control cytokine production differently. This glutamine dependency seems to be regulated by AMP-activated protein kinase (AMPK), which is a central regulator of energy homeostasis. Together, our study demonstrates a unique metabolic profile of glutamine metabolism in NKT cells which could be harnessed for NKT cell-based immunotherapy.
Morphodynamical cell state description via live-cell imaging trajectory embedding
Authors: Copperman Jeremy , Gross Sean M. , Chang Young Hwan , Heiser Laura M. , Zuckerman Daniel M. 
Published: October 2021

AbstractTime-lapse imaging is a powerful approach to gain insight into the dynamic responses of cells, but the quantitative analysis of morphological changes over time remains challenging. Here, we exploit the concept of “trajectory embedding” to analyze cellular behavior using morphological feature trajectory histories—that is, multiple time points simultaneously, rather than the more common practice of examining morphological feature time courses in single timepoint (snapshot) morphological features. We apply this approach to analyze live-cell images of MCF10A mammary epithelial cells after treatment with a panel of microenvironmental perturbagens that strongly modulate cell motility, morphology, and cell cycle behavior. Our morphodynamical trajectory embedding analysis constructs a shared cell state landscape revealing ligand-specific regulation of cell state transitions and enables quantitative and descriptive models of single-cell trajectories. Additionally, we show that incorporation of trajectories into single-cell morphological analysis enables (i) systematic characterization of cell state trajectories, (ii) better separation of phenotypes, and (iii) more descriptive models of ligand-induced differences as compared to snapshot-based analysis. This morphodynamical trajectory embedding is broadly applicable to the quantitative analysis of cell responses via live-cell imaging across many biological and biomedical applications.
Drought stress delays photosynthetic induction and accelerates photoinhibition of photosystem I under fluctuating light
Authors: Sun Hu , Shi Qi , Liu Ning-Yu , Zhang Shi-Bao , Huang Wei 
Published: October 2021

AbstractFluctuating light (FL) and drought stress usually occur concomitantly. However, whether drought stress affects photosynthetic performance under FL remains unknown. Here, we measured gas exchange, chlorophyll fluorescence, and P700 redox state under FL in drought-stressed tomato (Solanum lycopersicum) seedlings. Drought stress significantly affected stomatal opening and mesophyll conductance after transition from low to high light and thus delayed photosynthetic induction under FL. Therefore, drought stress exacerbated the loss of carbon gain under FL. Furthermore, restriction of CO2 fixation under drought stress aggravated the over-reduction of photosystem I (PSI) upon transition from low to high light. The resulting stronger FL-induced PSI photoinhibition significantly supressed linear electron flow and PSI photoprotection. These results indicated that drought stress not only affected gas exchange under FL but also accelerated FL-induced photoinhibition of PSI. Furthermore, drought stress enhanced relative cyclic electron flow in FL, which partially compensated for restricted CO2 fixation and thus favored PSI photoprotection under FL. Therefore, drought stress has large effects on photosynthetic dark and light reactions under FL.
The effector FEP3/IRON MAN1 modulates interaction between BRUTUS-LIKE1 and bHLH subgroup IVb and IVc proteins
Authors: Lichtblau Daniela M. , Schwarz Birte , Baby Dibin , Endres Christopher , Sieberg Christin , Bauer Petra 
Published: October 2021

AbstractPlants use the micronutrient iron (Fe) efficiently to balance the requirements for Fe during growth with its potential cytotoxic effects. A cascade of basic helix-loop-helix (bHLH) transcription factors is initiated by bHLH proteins of the subgroups IVb and IVc. This induces more than 50 genes in higher plants that can be grouped in co-expression clusters. Gene co-expression networks contain information on functional protein interactomes. We conducted a targeted yeast two-hybrid screen with pairwise combinations of 23 proteins stemming from previously characterized Fe-deficiency-induced gene co-expression clusters and regulators. We identified novel and described interactions, as well as interaction hubs with multiple interactions within the network. We found that BRUTUS-LIKE E3 ligases (BTSL1, BTSL2) interacted with basic helix-loop-helix (bHLH) transcription factors of the subgroups IVb and IVc including PYE, bHLH104 and ILR3, and with small FE UPTAKE-INDUCING PEPTIDE3/IRON MAN1 (FEP3/IMA1). Through deletion studies and with support of molecular docking, we mapped the interaction sites to three-amino-acid regions in BTSL1 and FEP3/IMA1. The FEP3/IMA1 active residues are present in interacting sites of the bHLH IVc factors. FEP3/IMA1 attenuated interaction of BTSL1 with bHLH proteins in a quantitative yeast three-hybrid assay suggesting that it is an inhibitor. Co-expression of BTSL1 and bHLH IVb and IVc factors uncovered unexpected patterns of subcellular localization. Combining deletion mapping, protein interaction and physiological analysis, we discuss the model that FEP3/IMA1 is a small effector protein inhibiting BTSL1/BTSL2-mediated degradation of bHLH subgroup IVb and IVc proteins.HighlightsA targeted yeast two-hybrid screen of Fe deficiency-regulated proteins reveals a regulatory protein interactome consisting of E3 ligases BTS/BTSL, bHLH transcription factors of subgroups IVb and IVc and small protein FEP3/IMA1.Interaction sites between BTSL1, FEP3/IMA1, and bHLH IVc transcription factors were fine-mapped.FEP3/IMA1 is as a small effector protein that selectively attenuates the bHLH interaction with BTSL1 to regulate Fe deficiency responses.One sentence summaryA targeted protein interaction screen uncovered a interactions of E3 ligase BTSL1, bHLH proteins of subgroup IVb and IVc and effector protein FEP3/IMA1 to regulate Fe deficiency responses.
iLQR-VAE : control-based learning of input-driven dynamics with applications to neural data
Authors: Schimel Marine , Kao Ta-Chu , Jensen Kristopher T. , Hennequin Guillaume 
Published: October 2021

AbstractUnderstanding how neural dynamics give rise to behaviour is one of the most fundamental questions in systems neuroscience. To achieve this, a common approach is to record neural populations in behaving animals, and model these data as emanating from a latent dynamical system whose state trajectories can then be related back to behavioural observations via some form of decoding. As recordings are typically performed in localized circuits that form only a part of the wider implicated network, it is important to simultaneously learn the local dynamics and infer any unobserved external input that might drive them. Here, we introduce iLQR-VAE, a control-based approach to variational inference in nonlinear dynamical systems, capable of learning both latent dynamics, initial conditions, and ongoing external inputs. As in recent deep learning approaches, our method is based on an input-driven sequential variational autoencoder (VAE). The main novelty lies in the use of the powerful iterative linear quadratic regulator algorithm (iLQR) in the recognition model. Optimization of the standard evidence lower-bound requires differentiating through iLQR solutions, which is made possible by recent advances in differentiable control. Importantly, the recognition model is naturally tied to the generative model, greatly reducing the number of free parameters and ensuring high-quality inference throughout the course of learning. Moreover, iLQR can be used to perform inference flexibly on heterogeneous trials of varying lengths. This allows for instance to evaluate the model on a single long trial after training on smaller chunks. We demonstrate the effectiveness of iLQR-VAE on a range of synthetic systems, with autonomous as well as input-driven dynamics. We further apply it to neural and behavioural recordings in non-human primates performing two different reaching tasks, and show that iLQR-VAE yields high-quality kinematic reconstructions from the neural data.