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"Gallo, C"
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Heavenly bodies : fashion and the Catholic imagination
\"Since antiquity, religious beliefs and practices have inspired many of the world's greatest works of art. These masterworks have, in turn, fueled the imaginations of fashion designers in the 20th and 21st centuries, yielding some of the most innovative creations in the history of fashion. 'Heavenly Bodies: Fashion and the Catholic Imagination' explores fashion's complex and often controversial relationship with Catholicism by examining the role of spirituality and religion in contemporary culture. This two-volume publication connects significant religious art and artifacts to their sartorial expressions. Volume one features images of rarely seen objects from the Vatican - ecclesiastical garments and accessories. Volume two focuses on fashions by designers such as Cristobal Balenciaga, Domenico Dolce and Stefano Gabbana, John Galliano, Jean Paul Gaultier, Madame Grâes, Christian Lacroix, Karl Lagerfeld, Jeanne Lanvin, Claire McCardell, Thierry Mugler, Elsa Schiaparelli, and Gianni Versace. Essays by art historians and leading religious authorities provide perspective on how dress manifests, or subverts, Catholic values and ideology.\"--Publisher's website.
Emerging SARS-CoV-2 mutation hot spots include a novel RNA-dependent-RNA polymerase variant
by
Pachetti, Maria
,
Ippodrino, Rudy
,
Mauro, Elisabetta
in
Adult
,
Amino acid composition
,
Amino acids
2020
Background
SARS-CoV-2 is a RNA coronavirus responsible for the pandemic of the Severe Acute Respiratory Syndrome (COVID-19). RNA viruses are characterized by a high mutation rate, up to a million times higher than that of their hosts. Virus mutagenic capability depends upon several factors, including the fidelity of viral enzymes that replicate nucleic acids, as SARS-CoV-2 RNA dependent RNA polymerase (RdRp). Mutation rate drives viral evolution and genome variability, thereby enabling viruses to escape host immunity and to develop drug resistance.
Methods
We analyzed 220 genomic sequences from the GISAID database derived from patients infected by SARS-CoV-2 worldwide from December 2019 to mid-March 2020. SARS-CoV-2 reference genome was obtained from the GenBank database. Genomes alignment was performed using
Clustal
Omega. Mann–Whitney and Fisher-Exact tests were used to assess statistical significance.
Results
We characterized 8 novel recurrent mutations of SARS-CoV-2, located at positions 1397, 2891, 14408, 17746, 17857, 18060, 23403 and 28881. Mutations in 2891, 3036, 14408, 23403 and 28881 positions are predominantly observed in Europe, whereas those located at positions 17746, 17857 and 18060 are exclusively present in North America. We noticed for the first time a silent mutation in RdRp gene in England (UK) on February 9th, 2020 while a different mutation in RdRp changing its amino acid composition emerged on February 20th, 2020 in Italy (Lombardy). Viruses with RdRp mutation have a median of 3 point mutations [range: 2–5], otherwise they have a median of 1 mutation [range: 0–3] (p value < 0.001).
Conclusions
These findings suggest that the virus is evolving and European, North American and Asian strains might coexist, each of them characterized by a different mutation pattern. The contribution of the mutated RdRp to this phenomenon needs to be investigated. To date, several drugs targeting RdRp enzymes are being employed for SARS-CoV-2 infection treatment. Some of them have a predicted binding moiety in a SARS-CoV-2 RdRp hydrophobic cleft, which is adjacent to the 14408 mutation we identified. Consequently, it is important to study and characterize SARS-CoV-2 RdRp mutation in order to assess possible drug-resistance viral phenotypes. It is also important to recognize whether the presence of some mutations might correlate with different SARS-CoV-2 mortality rates.
Journal Article
Viruses and Bacteria Associated with Cancer: An Overview
2021
There are several human viruses and bacteria currently known to be associated with cancer. A common theme indicates that these microorganisms have evolved mechanisms to hamper the pathways dedicated to maintaining the integrity of genetic information, preventing apoptosis of the damaged cells and causing unwanted cellular proliferation. This eventually reduces the ability of their hosts to repair the damage(s) and eventually results in cellular transformation, cancer progression and reduced response to therapy. Our data suggest that mycoplasmas, and perhaps certain other bacteria with closely related DnaKs, may also contribute to cellular transformation and hamper certain drugs that rely on functional p53 for their anti-cancer activity. Understanding the precise molecular mechanisms is important for cancer prevention and for the development of both new anti-cancer drugs and for improving the efficacy of existing therapies.
Journal Article
Broad line emission from iron K- and L-shell transitions in the active galaxy 1H 0707-495
by
Blustin, A. J.
,
Miniutti, G.
,
Brandt, W. N.
in
Active and peculiar galaxies (including bl lacertae objects, blazars, seyfert galaxies, markarian galaxies, active galactic nuclei)
,
Astronomy
,
Black holes
2009
L-line route to black holes
The emission line arising from a transition of an electron from the iron K shell to the ground state (the K line) is prominent in the reflection spectrum of the hard X-ray continuum irradiating dense accreting matter around a black hole. The corresponding iron L-line emission should be detectable when iron abundance is high. That's the theory, and now broad iron L-line emission has been observed, together with the broad K line in the narrow-line Seyfert galaxy 1H0707. There is a reverberation lag of about 30 s between the direct X-ray continuum and its reflection from matter falling into the hole, a timescale comparable to the light-crossing time of the innermost radii around a supermassive black hole. This discovery opens a window on events close to the black hole event horizon in these objects.
Emission arising from a transition of an electron from the iron K shell to the ground state (the K line) is prominent in the reflection spectrum created by the hard X-ray continuum irradiating the dense accreting matter around a black hole. Here the presence of both iron K and L emission is reported in the spectrum of the active galaxy 1H 0707-495. There is a 'reverberation lag' with a timescale comparable to the light-crossing time of the innermost radii around a supermassive black hole.
Since the 1995 discovery of the broad iron K-line emission from the Seyfert galaxy MCG–6-30-15 (ref.
1
), broad iron K lines have been found in emission from several other Seyfert galaxies
2
, from accreting stellar-mass black holes
3
and even from accreting neutron stars
4
. The iron K line is prominent in the reflection spectrum
5
,
6
created by the hard-X-ray continuum irradiating dense accreting matter. Relativistic distortion
7
of the line makes it sensitive to the strong gravity and spin of the black hole
8
. The accompanying iron L-line emission should be detectable when the iron abundance is high. Here we report the presence of both iron K and iron L emission in the spectrum of the narrow-line Seyfert 1 galaxy
9
1H 0707-495. The bright iron L emission has enabled us to detect a reverberation lag of about 30 s between the direct X-ray continuum and its reflection from matter falling into the black hole. The observed reverberation timescale is comparable to the light-crossing time of the innermost radii around a supermassive black hole. The combination of spectral and timing data on 1H 0707-495 provides strong evidence that we are witnessing emission from matter within a gravitational radius, or a fraction of a light minute, from the event horizon of a rapidly spinning, massive black hole.
Journal Article
Light bending and X-ray echoes from behind a supermassive black hole
by
Blandford, R. D.
,
Brandt, W. N.
,
Costantini, E.
in
639/33/34/4118
,
639/33/34/4123
,
639/33/34/864
2021
The innermost regions of accretion disks around black holes are strongly irradiated by X-rays that are emitted from a highly variable, compact corona, in the immediate vicinity of the black hole
1
–
3
. The X-rays that are seen reflected from the disk
4
, and the time delays, as variations in the X-ray emission echo or ‘reverberate’ off the disk
5
,
6
, provide a view of the environment just outside the event horizon. I Zwicky 1 (I Zw 1) is a nearby narrow-line Seyfert 1 galaxy
7
,
8
. Previous studies of the reverberation of X-rays from its accretion disk revealed that the corona is composed of two components: an extended, slowly varying component extending over the surface of the inner accretion disk, and a collimated core, with luminosity fluctuations propagating upwards from its base, which dominates the more rapid variability
9
,
10
. Here we report observations of X-ray flares emitted from around the supermassive black hole in I Zw 1. X-ray reflection from the accretion disk is detected through a relativistically broadened iron K line and Compton hump in the X-ray emission spectrum. Analysis of the X-ray flares reveals short flashes of photons consistent with the re-emergence of emission from behind the black hole. The energy shifts of these photons identify their origins from different parts of the disk
11
,
12
. These are photons that reverberate off the far side of the disk, and are bent around the black hole and magnified by the strong gravitational field. Observing photons bent around the black hole confirms a key prediction of general relativity.
One of the key predictions of general relativity, the bending of light around massive, compact objects, is observed for a supermassive black hole in the galaxy I Zwicky 1.
Journal Article
Emerging of a SARS-CoV-2 viral strain with a deletion in nsp1
by
Snyder, Greg A.
,
Angeletti, Silvia
,
Ciccozzi, Massimo
in
Amino Acid Sequence
,
Amino acids
,
Analysis
2020
Background
The new Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2), which was first detected in Wuhan (China) in December of 2019 is responsible for the current global pandemic. Phylogenetic analysis revealed that it is similar to other betacoronaviruses, such as SARS-CoV and Middle-Eastern Respiratory Syndrome, MERS-CoV. Its genome is ∼ 30 kb in length and contains two large overlapping polyproteins, ORF1a and ORF1ab that encode for several structural and non-structural proteins. The non-structural protein 1 (nsp1) is arguably the most important pathogenic determinant, and previous studies on SARS-CoV indicate that it is both involved in viral replication and hampering the innate immune system response. Detailed experiments of site-specific mutagenesis and in vitro reconstitution studies determined that the mechanisms of action are mediated by (a) the presence of specific amino acid residues of nsp1 and (b) the interaction between the protein and the host’s small ribosomal unit. In fact, substitution of certain amino acids resulted in reduction of its negative effects.
Methods
A total of 17,928 genome sequences were obtained from the GISAID database (December 2019 to July 2020) from patients infected by SARS-CoV-2 from different areas around the world. Genomes alignment was performed using MAFFT (REFF) and the nsp1 genomic regions were identified using BioEdit and verified using BLAST. Nsp1 protein of SARS-CoV-2 with and without deletion have been subsequently modelled using I-TASSER.
Results
We identified SARS-CoV-2 genome sequences, from several Countries, carrying a previously unknown deletion of 9 nucleotides in position 686-694, corresponding to the AA position 241-243 (KSF). This deletion was found in different geographical areas. Structural prediction modelling suggests an effect on the C-terminal tail structure.
Conclusions
Modelling analysis of a newly identified deletion of 3 amino acids (KSF) of SARS-CoV-2 nsp1 suggests that this deletion could affect the structure of the C-terminal region of the protein, important for regulation of viral replication and negative effect on host’s gene expression. In addition, substitution of the two amino acids (KS) from nsp1 of SARS-CoV was previously reported to revert loss of interferon-alpha expression. The deletion that we describe indicates that SARS-CoV-2 is undergoing profound genomic changes. It is important to: (i) confirm the spreading of this particular viral strain, and potentially of strains with other deletions in the nsp1 protein, both in the population of asymptomatic and pauci-symptomatic subjects, and (ii) correlate these changes in nsp1 with potential decreased viral pathogenicity.
Journal Article
Carboplatin-based doublet plus bevacizumab beyond progression versus carboplatin-based doublet alone in patients with platinum-sensitive ovarian cancer: a randomised, phase 3 trial
2021
Bevacizumab is approved in combination with chemotherapy for the treatment of ovarian cancer, either in first-line therapy or for patients with recurrent disease not previously treated with the same drug. We aimed to test the value of continuing bevacizumab beyond progression after first-line treatment with the same drug.
In our open-label, randomised, phase 3 trial done at 82 sites in four countries, we enrolled women (aged ≥18 years) who had previously received first-line platinum-based therapy including bevacizumab, and had recurrent (≥6 months since last platinum dose), International Federation of Gynaecology and Obstetrics stage IIIB–IV ovarian cancer with an Eastern Cooperative Oncology Group performance status 0–2. Patients were randomly assigned (1:1) to receive a carboplatin-based doublet intravenously (carboplatin area under the concentration curve [AUC] 5 on day 1 plus paclitaxel 175 mg/m2 on day 1, every 21 days; carboplatin AUC 4 on day 1 plus gemcitabine 1000 mg/m2 on days 1 and 8, every 21 days; or carboplatin AUC 5 on day 1 plus pegylated liposomal doxorubicin 30 mg/m2 on day 1, every 28 days), or a carboplatin-based doublet plus bevacizumab (10 mg/kg intravenous every 14 days combined with pegylated liposomal doxorubicin–carboplatin, or 15 mg/kg every 21 days combined with gemcitabine–carboplatin or paclitaxel–carboplatin). Evaluable disease according to RECIST 1.1 guidelines was required before randomisation. Randomisation was done through the trial website with a minimisation procedure, stratified by centre, time of recurrence, performance status, and type of second-line chemotherapy. The primary endpoint was investigator-assessed progression-free survival, analysed on an intention-to-treat basis. Safety was assessed in all participants who received at least one dose. This trial is registered with ClinicalTrials.gov, NCT01802749 and EudraCT 2012-004362-17.
Between Dec 6, 2013, and Nov 11, 2016, 406 patients were recruited (203 [50%] assigned to the bevacizumab group and 203 [50%] to the standard chemotherapy group). 130 patients (64%) in the bevacizumab group and 131 (65%) in the standard chemotherapy group had progressed after receiving a last dose of platinum more than 12 months before, and 146 patients (72%) in the bevacizumab group and 147 (72%) in the standard chemotherapy group had progressed after completion of first-line bevacizumab maintenance. 161 participants (79%) progressed in the standard chemotherapy group, as did 143 (70%) in the bevacizumab group. Median progression-free survival was 8·8 months (95% CI 8·4–9·3) in the standard chemotherapy group and 11·8 months (10·8–12·9) in the bevacizumab group (hazard ratio 0·51, 95% CI 0·41–0·65; log-rank p<0·0001). Most common grade 3–4 adverse events were hypertension (20 [10%] in the standard chemotherapy group vs 58 (29%) in the bevacizumab group), neutrophil count decrease (81 [41%] vs 80 [40%]), and platelet count decrease (43 [22%] vs 61 [30%]). 68 patients (33%) died in the standard chemotherapy group and 79 (39%) died in the bevacizumab group; two deaths (1%) in the standard chemotherapy group and one death (<1%) in the bevacizumab group were deemed to be treatment-related.
Continuing bevacizumab beyond progression combined with chemotherapy in patients with platinum-sensitive recurrent ovarian cancer improves progression-free survival compared with standard chemotherapy alone and might be considered in clinical practice.
Hoffmann–La Roche and Associazione Italiana per la Ricerca sul Cancro.
Journal Article
Genome-scale analysis of Arabidopsis splicing-related protein kinase families reveals roles in abiotic stress adaptation
2022
Nearly 60 – 80 % of intron-containing plant genes undergo alternative splicing in response to either stress or plant developmental cues. RNA splicing is performed by a large ribonucleoprotein complex called the spliceosome in conjunction with associated subunits such as serine arginine (SR) proteins, all of which undergo extensive phosphorylation. In plants, there are three main protein kinase families suggested to phosphorylate core spliceosome subunits and related splicing factors based on orthology to human splicing-related kinases: the SERINE/ARGININE PROTEIN KINASES (SRPK), ARABIDOPSIS FUS3 COMPLEMENT (AFC), and Pre-mRNA PROCESSING FACTOR 4 (PRP4K) protein kinases. To better define the conservation and role(s) of these kinases in plants, we performed a genome-scale analysis of the three families across photosynthetic eukaryotes, followed by extensive transcriptomic and bioinformatic analysis of all
Arabidopsis thaliana
SRPK, AFC, and PRP4K protein kinases to elucidate their biological functions. Unexpectedly, this revealed the existence of SRPK and AFC phylogenetic groups with distinct promoter elements and patterns of transcriptional response to abiotic stress, while PRP4Ks possess no phylogenetic sub-divisions, suggestive of functional redundancy. We also reveal splicing-related kinase families are both diel and photoperiod regulated, implicating different orthologs as discrete time-of-day RNA splicing regulators. This foundational work establishes a number of new hypotheses regarding how reversible spliceosome phosphorylation contributes to both diel plant cell regulation and abiotic stress adaptation in plants.
Journal Article
Insights on persistent airway infection by non-typeable Haemophilus influenzae in chronic obstructive pulmonary disease
2017
Abstract
Non-typeable Haemophilus influenzae (NTHi) is the most common bacterial cause of infection of the lower airways in adults with chronic obstructive pulmonary disease (COPD). Infection of the COPD airways causes acute exacerbations, resulting in substantial morbidity and mortality. NTHi has evolved multiple mechanisms to establish infection in the hostile environment of the COPD airways, allowing the pathogen to persist in the airways for months to years. Persistent infection of the COPD airways contributes to chronic airway inflammation that increases symptoms and accelerates the progressive loss of pulmonary function, which is a hallmark of the disease. Persistence mechanisms of NTHi include the expression of multiple redundant adhesins that mediate binding to host cellular and extracellular matrix components. NTHi evades host immune recognition and clearance by invading host epithelial cells, forming biofilms, altering gene expression and displaying surface antigenic variation. NTHi also binds host serum factors that confer serum resistance. Here we discuss the burden of COPD and the role of NTHi infections in the course of the disease. We provide an overview of NTHi mechanisms of persistence that allow the pathogen to establish a niche in the hostile COPD airways.
A review of mechanisms of persistence used by non-typeable Haemophilus influenzae to infect the airways of individuals with chronic obstructive pulmonary disease
Journal Article
Frequency and Circadian Timing of Eating May Influence Biomarkers of Inflammation and Insulin Resistance Associated with Breast Cancer Risk
by
Marinac, Catherine R
,
Sears, Dorothy D
,
Gallo, Linda C
in
Biomarkers
,
Biomarkers - blood
,
Breast cancer
2015
Emerging evidence suggests that there is interplay between the frequency and circadian timing of eating and metabolic health. We examined the associations of eating frequency and timing with metabolic and inflammatory biomarkers putatively associated with breast cancer risk in women participating in the National Health and Nutrition Examination 2009-2010 Survey. Eating frequency and timing variables were calculated from 24-hour food records and included (1) proportion of calories consumed in the evening (5 pm-midnight), (2) number of eating episodes per day, and (3) nighttime fasting duration. Linear regression models examined each eating frequency and timing exposure variable with C-reactive protein (CRP) concentrations and the Homeostatic Model Assessment of Insulin Resistance (HOMA-IR). Each 10 percent increase in the proportion of calories consumed in the evening was associated with a 3 percent increase in CRP. Conversely, eating one additional meal or snack per day was associated with an 8 percent reduction in CRP. There was a significant interaction between proportion of calories consumed in the evening and fasting duration with CRP (p = 0.02). A longer nighttime fasting duration was associated with an 8 percent lower CRP only among women who ate less than 30% of their total daily calories in the evening (p = 0.01). None of the eating frequency and timing variables were significantly associated with HOMA-IR. These findings suggest that eating more frequently, reducing evening energy intake, and fasting for longer nightly intervals may lower systemic inflammation and subsequently reduce breast cancer risk. Randomized trials are needed to validate these associations.
Journal Article