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"Torres, Julio"
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Optimized and scalable synthesis of magnetic nanoparticles for RNA extraction in response to developing countries' needs in the detection and control of SARS-CoV-2
by
González, Gema
,
Briceño, Sarah
,
Reinoso, C.
in
639/925/357/354
,
639/925/357/551
,
Clinical Laboratory Techniques - methods
2020
Ecuador is one of the most affected countries, with the coronavirus disease 2019 (COVID-19) infection, in Latin America derived from an ongoing economic crisis. One of the most important methods for COVID-19 detection is the use of techniques such as real time RT-PCR based on a previous extraction/purification of RNA procedure from nasopharyngeal cells using functionalized magnetic nanoparticles (MNP). This technique allows the processing of ~ 10,000 tests per day in private companies and around hundreds per day at local Universities guaranteeing to reach a wide range of the population. However, the main drawback of this method is the need for specialized MNP with a strong negative charge for the viral RNA extraction to detect the existence of the SARS-CoV-2 virus. Here we present a simplified low cost method to produce 10 g of nanoparticles in 100 mL of solution that was scaled to one litter by parallelizing the process 10 times in just two days and allowing for the possibility of making ~ 50,000 COVID-19 tests. This communication helps in reducing the cost of acquiring MNP for diverse biomolecular applications supporting developing country budgets constraints and chemical availability specially during the COVID-19 International Health Emergency.
Journal Article
Precise determination of graphene functionalization by in situ Raman spectroscopy
2017
The verification of a successful covalent functionalization of graphene and related carbon allotropes can easily be carried out by Raman spectroscopy. Nevertheless, the unequivocal assignment and resolution of individual lattice modes associated with the covalent binding of addends was elusive up to now. Here we present an in situ Raman study of a controlled functionalization of potassium intercalated graphite, revealing several new bands appearing in the D-region of the spectrum. The evolution of these bands with increasing degree of functionalization from low to moderate levels provides a basis for the deconvolution of the different components towards quantifying the extent of functionalization. By complementary DFT calculations we were able to identify the vibrational changes in the close proximity of the addend bearing lattice carbon atoms and to assign them to specific Raman modes. The experimental in situ observation of the developing functionalization along with the reoxidation of the intercalated graphite represents an important step towards an improved understanding of the chemistry of graphene.
Journal Article
An Experimental Approach for Investigating Freezing of Gait in Parkinson’s Disease Using Virtual Reality and Neural Sensing: A Pilot Study
2025
Freezing of gait (FOG) is a disabling symptom associated with Parkinson’s disease (PD). Its understanding and effective treatment is compromised due to the difficulty in reliably triggering FOG in clinical and laboratory environments. The Cleveland Clinic-Virtual Home Environment (CC-VHE) platform was developed to address the challenges of eliciting FOG by combining an omnidirectional treadmill with immersive virtual reality (VR) environments to induce FOG under physical, emotional, and cognitive triggers. Recent developments in deep brain stimulation devices that sense neural signals from the subthalamic nucleus in real time offer the potential to understand the underlying neural mechanism(s) of FOG. This manuscript presents the coupling of the CC-VHE technology, VR paradigms, and the experimental and analytical methods for recording and analyzing synchronous cortical, subcortical, and kinematic data as an approach to begin to understand the nuanced neural pathology associated with FOG. To evaluate the utility and feasibility of coupling VR and neural sensing technology, initial data from one participant are included.
Journal Article
Not just two languages: Using variation in language experience to understand how cognitive resources shape syntactic processing
2026
Individuals who learn and use two languages come to that experience in many different ways. Recent studies have shown that to understand bilingualism, it is necessary to characterize the variation in experience that continually shapes the use of the two languages. The current investigation explored the consequences of individual differences in cognitive resources for the processing of syntactic information in two groups of speakers. One group were adults learning Spanish and the other were heritage bilinguals with Spanish as the home language. Both groups were proficient speakers of English. We examined the effects of working memory and cognitive control on syntactic processing, measured by an elicited sentence imitation task. The findings revealed both common and distinct contributions of cognitive resources. Working memory predicted Spanish syntactic processing for second language learners but not for heritage speakers. In contrast, working memory predicted English syntactic processing only for heritage speakers, and this effect was modulated by language dominance. The results for Spanish align with expectations, but the English findings suggest that syntactic processing is shaped not only by proficiency, but also by how the two languages are learned and used together. Cognitive control also showed group-specific effects in response to syntactic complexity: heritage speakers with more reactive control strategies showed better Spanish processing as phrase complexity increased, while L2 learners with more proactive control strategies showed better English processing under increased complexity. Together, these results contribute to our understanding of the effects of language experience on cognitive engagement and shed new light on the dynamics that underlie variation in syntactic processing among bilinguals.
Journal Article
Pooling for SARS-CoV-2 control in care institutions
by
Porteiro Fresco, Jacobo
,
Pérez Castro, Sonia
,
Cabrera Alvargonzalez, Jorge Julio
in
Automation
,
Betacoronavirus - genetics
,
Betacoronavirus - isolation & purification
2020
Background
Workers and residents in Care Homes are considered at special risk for the acquisition of SARS-CoV-2 infection, due to the infectivity and high mortality rate in the case of residents, compared to other containment areas. The role of presymptomatic people in transmission has been shown to be important and the early detection of these people is critical for the control of new outbreaks. Pooling strategies have proven to preserve SARS-CoV-2 testing resources.
The aims of the present study, based in our local experience, were (a) to describe SARS-CoV-2 prevalence in institutionalized people in Galicia (Spain) during the Coronavirus pandemic and (b) to evaluate the expected performance of a pooling strategy using RT-PCR for the next rounds of screening of institutionalized people.
Methods
A total of
25,386 Nasopharyngeal swab samples from the total of the residents and workers at Care Homes in Galicia (March to May 2020) were individually tested using RT-PCR. Prevalence and quantification cycle (Cq) value distribution of positives was calculated. Besides, 26 pools of 20 samples and 14 pools of 5 samples were tested using RT-PCR as well (1 positive/pool). Pooling proof of concept was performed in two populations with 1.7 and 2% prevalence.
Results
Distribution of SARS-CoV-2 infection at Care Homes was uneven (0–60%). As the virus circulation global rate was low in our area (3.32%), the number of people at risk of acquiring the infection continues to be very high. In this work, we have successfully demonstrated that pooling of different groups of samples at low prevalence clusters, can be done with a small average delay on Cq values (5 and 2.85 cycles for pools of 20 and 5 samples, respectively).
Conclusions
A new screening system with guaranteed protection is required for small clusters, previously covered with individual testing. Our proposal for Care Homes, once prevalence zero is achieved, would include successive rounds of testing using a pooling solution for transmission control preserving testing resources. Scale-up of this method may be of utility to confront larger clusters to avoid the viral circulation and keeping them operative.
Journal Article
A molecular explanation for the recessive nature of parkin-linked Parkinson’s disease
by
Spratt, Donald E.
,
Aguirre, Jacob D.
,
Shaw, Gary S.
in
631/208/2489/144
,
631/378/1689/1718
,
631/45/535
2013
Mutations in the
park2
gene, encoding the RING-inBetweenRING-RING E3 ubiquitin ligase parkin, cause 50% of autosomal recessive juvenile Parkinsonism cases. More than 70 known pathogenic mutations occur throughout parkin, many of which cluster in the inhibitory amino-terminal ubiquitin-like domain, and the carboxy-terminal RING2 domain that is indispensable for ubiquitin transfer. A structural rationale showing how autosomal recessive juvenile Parkinsonism mutations alter parkin function is still lacking. Here we show that the structure of parkin RING2 is distinct from canonical RING E3 ligases and lacks key elements required for E2-conjugating enzyme recruitment. Several pathogenic mutations in RING2 alter the environment of a single surface-exposed catalytic cysteine to inhibit ubiquitination. Native parkin adopts a globular inhibited conformation in solution facilitated by the association of the ubiquitin-like domain with the RING-inBetweenRING-RING C-terminus. Autosomal recessive juvenile Parkinsonism mutations disrupt this conformation. Finally, parkin autoubiquitinates only in
cis
, providing a molecular explanation for the recessive nature of autosomal recessive juvenile Parkinsonism.
Mutations in the E3 ubiquitin ligase parkin are associated with juvenile Parkinson’s disease. Here the authors report the solution structure of the Parkin RING2 domain, revealing how disease-associated mutations affect its function and providing a molecular explanation for the recessive nature of the disease.
Journal Article
Physics-based tissue simulator to model multicellular systems: A study of liver regeneration and hepatocellular carcinoma recurrence
by
Carlevaro, Carlos Manuel
,
Lomba, Enrique
,
Luque, Luciana Melina
in
Agent based models
,
Analysis
,
Biology and Life Sciences
2023
We present a multiagent-based model that captures the interactions between different types of cells with their microenvironment, and enables the analysis of the emergent global behavior during tissue regeneration and tumor development. Using this model, we are able to reproduce the temporal dynamics of regular healthy cells and cancer cells, as well as the evolution of their three-dimensional spatial distributions. By tuning the system with the characteristics of the individual patients, our model reproduces a variety of spatial patterns of tissue regeneration and tumor growth, resembling those found in clinical imaging or biopsies. In order to calibrate and validate our model we study the process of liver regeneration after surgical hepatectomy in different degrees. In the clinical context, our model is able to predict the recurrence of a hepatocellular carcinoma after a 70% partial hepatectomy. The outcomes of our simulations are in agreement with experimental and clinical observations. By fitting the model parameters to specific patient factors, it might well become a useful platform for hypotheses testing in treatments protocols.
Journal Article
Characterizing the maximum number of layers in chemically exfoliated graphene
by
Englert, Jan M.
,
Forró, László
,
Hirsch, Andreas
in
140/133
,
639/766/119/995
,
639/925/918/1052
2019
An efficient route to synthesize macroscopic amounts of graphene is highly desired and bulk characterization of such samples, in terms of the number of layers, is equally important. We present a Raman spectroscopy-based method to determine the typical upper limit of the number of graphene layers in chemically exfoliated graphene. We utilize a controlled vapour-phase potassium intercalation technique and identify a lightly doped stage, where the Raman modes of undoped and doped few-layer graphene flakes coexist. The spectra can be unambiguously distinguished from alkali doped graphite, and modeling with the typical upper limit of the layers yields an upper limit of flake thickness of five layers with a significant single-layer graphene content. Complementary statistical AFM measurements on individual few-layer graphene flakes find a consistent distribution of the layer numbers.
Journal Article
Infra-Red Active Dirac Plasmon Serie in Potassium Doped-Graphene (KC8) Nanoribbons Array on Al2O3 Substrate
by
Jakovac, Josip
,
Marušić, Leonardo
,
Andrade-Guevara, Denise
in
Absorption spectra
,
Aluminum oxide
,
Approximation
2021
A theoretical formulation of the electromagnetic response in graphene ribbons on dielectric substrate is derived in the framework of the ab initio method. The formulation is applied to calculate the electromagnetic energy absorption in an array of potassium-doped graphene nanoribbons (KC8-NR) deposited on a dielectric Al2O3 substrate. It is demonstrated that the replacement of the flat KC8 by an array of KC8-NR transforms the Drude tail in the absorption spectra into a series of infrared-active Dirac plasmon resonances. It is also shown that the series of Dirac plasmon resonances, when unfolded across the extended Brillouin zones, resembles the Dirac plasmon. The Dirac plasmon resonances’ band structure, within the first Brillouin zone, is calculated. Finally, an excellent agreement between the theoretical absorption and recent experimental results for differential transmission through graphene on an SiO2/Si surface is presented. The theoretically predicted micrometer graphene nanoribbons intercalation compound (GNRIC) in a stage-I-like KC8 is confirmed to be synthesized for Dirac plasmon resonances.
Journal Article
Morphometric, Nutritional, and Phytochemical Characterization of Eugenia (Syzygium paniculatum Gaertn): A Berry with Under-Discovered Potential
by
Carrera-Cevallos, Jeanette
,
Jara, Oscar
,
Acurio, Liliana
in
Acids
,
Anthocyanins
,
antioxidant activity
2025
Magenta Cherry or Eugenia (Syzygium paniculatum Gaertn) is an underutilized berry species with an interesting source of functional components. This study aimed to evaluate these berries’ morphometric, nutritional, and phytochemical characteristics at two ripening stages, CM: consumer maturity (CM) and OM: over-maturity. Morphometric analysis revealed size and weight parameters comparable to commercial berries such as blueberries. Fresh fruits were processed into pulverized material, and in this, a proximate analysis was evaluated, showing high moisture content (88.9%), dietary fiber (3.56%), and protein (0.63%), with negligible fat, indicating suitability for low-calorie diets. Phytochemical screening by HPLC identified gallic acid, chlorogenic acid, hydroxycinnamic acid, ferulic acid, quercetin, rutin, and condensed tannins. Ethanol extracts showed stronger bioactive profiles than aqueous extracts, with significant antioxidant capacity (up to 803.40 µmol Trolox/g via Ferric Reducing Antioxidant Power (FRAP assay). Fourier-transform infrared spectroscopy (FTIR) and Raman spectroscopic analyses established structural transformations of hydroxyl, carbonyl, and aromatic groups associated with ripening. These changes were supported by observed variations in anthocyanin and flavonoid contents, both higher at the CM stage. A notable pigment loss in OM fruits could be attributed to pH changes, oxidative degradation, enzymatic activity loss, and biotic stressors. Antioxidant assays (DPPH, ABTS, and FRAP) confirmed higher radical scavenging activity in CM-stage berries. Elemental analysis identified minerals such as potassium, calcium, magnesium, iron, and zinc, although in moderate concentrations. In summary, Syzygium paniculatum Gaertn fruit demonstrates considerable potential as a source of natural antioxidants and bioactive compounds. These findings advocate for greater exploration and sustainable use of this native berry species in functional food systems.
Journal Article