Publications by authors named "Davide Marchi"

Article Synopsis
  • An advanced 10-meter resolution crop map for 2022 has been created for the EU and Ukraine, which includes 19 crop types and improves upon data from 2018.
  • The mapping used a combination of Earth Observation data and in-situ data, implementing a Random Forest machine learning approach to create two classification layers: a primary map and a gap-filling map for areas affected by clouds.
  • The final maps show 79.3% accuracy for major land cover classes and 70.6% accuracy for all crop types, and the model effectively produced a reliable map for Ukraine, even in data-scarce regions.
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  • - The study investigates the role of PD-L1 expression as a potential biomarker for bladder cancer by analyzing its presence in urine samples from patients undergoing surgical treatment for the disease.
  • - Among 29 patients, PD-L1 expression rates varied significantly across tumor grades, with higher detection in high-grade tumors and good agreement between urine tests (cytoinclusion) and traditional tissue analysis (histopathology).
  • - The research suggests cytoinclusion can serve as a promising, non-invasive method for assessing PD-L1 levels, potentially aiding in the diagnosis and prognosis of bladder cancer, and recommends further standardization for clinical use.
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A methodology based on molecular dynamics simulations is presented to determine the chemical potential of thiol self-assembled monolayers on a gold surface. The thiol de-solvation and then the monolayer formation are described by thermodynamic integration with a gradual decoupling of one molecule from the environment, with the necessary corrections to account for standard state changes. The procedure is applied both to physisorbed undissociated thiol molecules and to chemisorbed dissociated thiyl radicals, considering in the latter case the possible chemical potential of the produced hydrogen.

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Introduction: Plant-pathogen interaction is an inexhaustible source of information on how to sustainably control diseases that negatively affect agricultural production. is a root-knot nematode (RKN), representing a pest for many crops, including tomato (). RKNs are a global threat to agriculture, especially under climate change, and RNA technologies offer a potential alternative to chemical nematicides.

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This study examines the expression of three microRNAs (hsa-miR-661, hsa-miR-21-5p, hsa-miR-372-5p) in spent pre-implantation embryos culture media to identify possible new non-invasive biomarkers of embryo competence, predictive of development to the blastocyst stage. A preliminary analysis on 16 patients undergoing IVF cycles was performed by collecting and stored spent culture media on the fifth/sixth day of embryo culture. Expression of miRNAs was evaluated according to the embryos' fate: 1) NE/DG: non-evolved or degenerate embryos; 2) BLOK: embryos developed to the blastocyst stage.

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Article Synopsis
  • Synthetic circuit design is essential for creating microbes that can respond to environmental changes, and having a good parts toolkit is important for scaling up these designs.
  • The study introduces a new engineered dCas9 (sadCas9) for CRISPR interference, which is smaller and more specific, and illustrates its application in over 20 different synthetic circuits, showing they can effectively modulate gene expression and function as intended.
  • The researchers observed unexpected results in circuit performance, like variances in the dynamic range and shape of output curves, attributed to complex interactions among components, highlighting the need to consider these effects in future circuit designs.
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Bladder cancer (BCa) is a common type of cancer that affects the urinary bladder. The early detection and management of BCa is critical for successful treatment and patient outcomes. In recent years, researchers have been exploring the use of biomarkers as a non-invasive and effective tool for the detection and monitoring of BCa.

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Engineering sustainable bioprocesses that convert abundant waste into fuels is pivotal for efficient production of renewable energy. We previously engineered an Escherichia coli strain for optimized bioethanol production from lactose-rich wastewater like concentrated whey permeate (CWP), a dairy effluent obtained from whey valorization processes. Although attractive fermentation performances were reached, significant improvements are required to eliminate recombinant plasmids, antibiotic resistances and inducible promoters, and increase ethanol tolerance.

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Self-assembled monolayers (SAM) of 7-mercapto-4-methylcoumarin (MMC) on a flat gold surface were studied by molecular dynamics (MD) simulations, reference-free grazing incidence X-ray fluorescence (GIXRF) and X-ray photoelectron spectroscopy (XPS), to determine the maximum monolayer density and to investigate the nature of the molecule/surface interface. In particular, the protonation state of the sulfur atom upon adsorption was analyzed, since some recent literature presented evidence for physisorbed thiols (preserving the S-H bond), unlike the common picture of chemisorbed thiyls (losing the hydrogen). MD with a specifically tailored force field was used to simulate either thiol or thiyl monolayers with increasing number of molecules, to determine the maximum dynamically stable densities.

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Introduction: Recent systematic reviews highlighted increasing use of cadaveric models in the surgical training, but reports on the characteristics of the models and their impact on training are lacking, as well as standardized recommendations on how to ensure the quality of surgical studies. The aim of our survey was to provide an easy guideline that would improve the quality of the studies involving cadavers for surgical training and research.

Methods: After accurate literature review regarding surgical training on cadaveric models, a draft of the CACTUS guidelines involving 10 different items was drawn.

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Article Synopsis
  • CRISPR and CRISPRi systems have transformed genetic engineering by allowing precise gene editing and regulation through customizable guide RNAs (sgRNAs).
  • CRISPRi can function as logic inverters that repress specific genes, proving useful in bacterial synthetic biology for creating complex information processing circuits.
  • Researchers optimized the performance of CRISPRi modules to reduce cell burden while enhancing their effectiveness, demonstrating their ability to improve existing genetic circuits and develop new logic gates.
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Purpose: While patient engagement is becoming more customary in developing health products, its monitoring and evaluation to understand processes and enhance impact are challenging. This article describes a patient engagement monitoring and evaluation (PEME) framework, co-created and tailored to the context of community advisory boards (CABs) for rare diseases in Europe. It can be used to stimulate learning and evaluate impacts of engagement activities.

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: To evaluate the oncological impact of squamous cell carcinoma (SCC) variant in patients submitted to intravesical therapy for non-muscle-invasive bladder cancer (NMIBC). : Between January 2015 and January 2020, patients with conventional urothelial NMIBC (TCC) or urothelial NMIBC with SCC variant (TCC + SCC) and submitted to adjuvant intravesical therapies were collected. Kaplan-Meier analyses targeted disease recurrence and progression.

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Glucocorticoids (GCs) represent a well-known class of lipophilic steroid hormones biosynthesised, with a circadian rhythm, by the adrenal glands in humans and by the inter-renal tissue in teleost fish (e.g., zebrafish).

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Introduction: Ectopic adrenal tissue in the kidney, including "Ectopic adrenal tissue" and "Adrenal-renal fusion", is a rare event with a specific behavior which may be difficult to distinguish clinically from renal neoplasms. We performed a systematic review on ectopic adrenal tissue variants reported in the literature underlining its clinical aspects.

Methods: Manuscripts which presented a case report or case series of ectopic adrenal tissue in the kidney were included even if published in original articles, reviews, or letters to the editor.

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Hybrid catalysts are attracting much attention, since they combine the versatility and efficiency of homogeneous organic catalysis with the robustness and thermal stability of solid materials, for example, mesoporous silica; in addition, they can be used in cascade reactions, for exploring both organic and inorganic catalysis at the same time. Despite the importance of the organic/inorganic interface in these materials, the effect of the grafting architecture on the final conformation of the organic layer (and hence its reactivity) is still largely unexplored. Here, we investigate a series of organosiloxanes comprising a pyridine ring (the catalyst model) and different numbers of alkylsiloxane chains used to anchor it to the MCM-41 surface.

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Introduction: The aim of the study is to evaluate the effectiveness of a Multi-disciplinary team (MDT) and multi-disciplinary approach in the treatment of Chronic Pelvic Pain (CPP).

Methods: The data of all consecutive patients referred for a CPP from 11/2016 to 2/2019 has been prospectively collected. The sample was divided in two groups: Group A, made by patients managed after the institution of our MDT, and Group B, made of patients managed before this date.

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Introduction: We aim to present a rare case of a patient who developed a late testicular metastasis of PCa after radical prostatectomy.

Case Description: A 78 years old man presenting for left testicular swelling slowly increasing of size over the last 2 months. He underwent a retropubic radical prostatectomy and extended bilateral lymphadenectomy in 2007 for prostatic adenocarcinoma.

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Introduction: The objective of the study was to evaluate the benefits perceived by the use of cadaver models by IAMSurgery attendees and to define indications to standardize future similar training camps.

Materials And Methods: A 25-item survey was distributed via e-mail to all the participants of previous training courses named as "Urological Advanced Course on Laparoscopic Cadaver Lab" held at the anatomy department of the University of Malta, for anonymous reply. Participants were asked to rate the training course, the Thiel's cadaveric model, and make comparison with other previously experienced simulation tools.

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The COVID-19 pandemic influenced the normal course of clinical practice leading to significant delays in the delivery of healthcare services for patients non affected by COVID-19. In the near future, it will be crucial to identify facilities capable of providing health care in compliance with the safety of healthcare professionals, administrative staff and patients. All the staff involved in the project of a Covid-free hospital should be subjected to a diagnostic swab for COVID-19 before the beginning of healthcare activity and then periodically in order to avoid the risk of contamination of patients during the process of care.

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In the last decades in vitro studies highlighted the potential for crosstalk between Hypoxia-Inducible Factor-(HIF) and glucocorticoid-(GC) signalling pathways. However, how this interplay precisely occurs in vivo is still debated. Here, we use zebrafish larvae (Danio rerio) to elucidate how and to what degree hypoxic signalling affects the endogenous glucocorticoid pathway and vice versa, in vivo.

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Whey permeate (WP) is a lactose-rich waste effluent, generated during cheese manufacturing and further valorization steps, such as protein extraction. The production of ethanol by WP fermentation has been proposed to increase cost-competitiveness of dairy waste processing. In previous work, the Escherichia coli W strain was selected for its efficient growth in dairy waste and it was engineered to convert lactose into ethanol as the main fermentation product from WP and concentrated WP (CWP).

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Article Synopsis
  • The systematic review assesses the evidence on atypical metastases in patients who have undergone robotic-assisted radical cystectomy (RARC).
  • Out of 31 articles reviewed, 45.2% reported atypical recurrences, with about 1.63% of patients developing these recurrences, predominantly as peritoneal carcinomatosis.
  • The review emphasizes the need for more prospective randomized studies to better understand the risk of atypical metastases associated with RARC due to potential biases in existing literature.
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MicroRNAs, highly-conserved small RNAs, act as key regulators of many biological functions in both plants and animals by post-transcriptionally regulating gene expression through interactions with their target mRNAs. The microRNA research is a dynamic field, in which new and unconventional aspects are emerging alongside well-established roles in development and stress adaptation. A recent hypothesis states that miRNAs can be transferred from one species to another and potentially target genes across distant species.

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