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19 pages, 4412 KiB  
Article
Abundance, Diversity and Distribution of Mosquito Species and Molecular Detection of Its Associated Hepatitis C Virus in Sharkia Governorate, Egypt
by Tharwat A. Selim, Sanad H. Ragab, Saber A. Riad, Randa I. Eltaly, Shaimaa H. Mohammed, Somia Eissa Sharawi, Naser Ahmed Alkenani, Ruoa Saleh Almahallawi, Hayat S. Al-Rashidi and Mohamed A. M. El-Tabakh
Insects 2025, 16(4), 433; https://doi.org/10.3390/insects16040433 - 19 Apr 2025
Viewed by 918
Abstract
The presence of mosquitoes in a certain area is sufficient evidence of the transmission of diseases, in addition to the inconvenience and harassment they cause to the population. In order for mosquito control to be successful, there must be sufficient reports and information [...] Read more.
The presence of mosquitoes in a certain area is sufficient evidence of the transmission of diseases, in addition to the inconvenience and harassment they cause to the population. In order for mosquito control to be successful, there must be sufficient reports and information about the extent of the distribution and spread of the mosquito in this area. This study was conducted seasonally to calculate the distribution and abundance of mosquitoes and to initially detect hepatitis C virus in the most abundant species collected in some localities: Kafr Saqr (Hanot, El-Kodah, Abo Shokok, El-Hagarsa); Abo Kebeer (Manshat Radwan, Bane Aiat, Al-Rahmania, Horbat); Diarb Negm (Safor, El-Asaied, Karmot Sahbara, Saft Zreka); and El-Zakazik (Om El-Zein, Bany Amer, Al-Zankalon, Shanbrt El-Mimona) along Sharkia Governorate. According to the results, 12 mosquito species belonging to two genera were recorded in four stations (16 sites). The species Culex pipiens was found to be the most abundant across the majority of locations. It is reaching its peak in Al-Zankalon with a maximum count of 139 ± 7.61 individuals. C. antennatus exhibited a significant level of abundance (p < 0.001), especially in Al-Rahmania (82.5 ± 4.3). Species such as C. perexiguus and An. pharoensis were found in moderate-to-low numbers. The prevailing species is C. pipiens in all locations and seasons, especially during the summer. Other species like C. antennatus and An. pharoensis are also important, although their significance is somewhat less pronounced. Clusters of sites with similar features indicate that specific locations or species exhibit consistent patterns of activity or abundance throughout several seasons. These clusters represent groups of locations that share similar characteristics, as determined by the principal components. The findings of detecting hepatitis C virus in C. pipiens (the most abundant species) collected samples showed negative results for the presence of HCV during the summer season in Sharkia Governorate. Full article
(This article belongs to the Section Medical and Livestock Entomology)
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22 pages, 6621 KiB  
Article
Dual Repurposing of End-of-Life BWRO Membranes: Ultrafiltration Membranes for Advanced Wastewater Treatment and Cation Exchange Membranes for Fungal Microbial Fuel Cells
by Anissa Somrani, Mehri Shabani, Zaineb Mohamed, Kholoud Abohelal, Salam S. Alsharari, Ahmed Hannachi, Noreddine Ghaffour and Maxime Pontié
Membranes 2025, 15(1), 5; https://doi.org/10.3390/membranes15010005 - 27 Dec 2024
Cited by 1 | Viewed by 1492
Abstract
The objective of this study is to evaluate the degradation of end-of-life BWRO membranes sourced from a factory in France by analyzing their water permeability, roughness, and chemical composition in order to diagnose the level of degradation incurred during their first life cycle [...] Read more.
The objective of this study is to evaluate the degradation of end-of-life BWRO membranes sourced from a factory in France by analyzing their water permeability, roughness, and chemical composition in order to diagnose the level of degradation incurred during their first life cycle in water softening. Following this, two new applications for the end-of-life BWRO membranes were investigated: (i) as ultrafiltration membranes (UF) for domestic effluent treatment and (ii) as cation exchange membranes (CEM) for use in fungal microbial fuel cells (FMFC). The UF membrane was renovated with an acetic acid treatment and, subsequently, used for domestic effluent filtration. The cation exchange membrane was developed in two steps: (i) chlorine treatment and (ii) the deposition of an Amer Sil layer, a functional coating formed by an interpenetrating polymer network (IPN) made of sulfonated polyether sulfone (S-PES) in a cross-linked matrix of acrylic acid and divinylbenzene. Full article
(This article belongs to the Special Issue Sustainable Approaches for Synthetic Membranes at End of Life)
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17 pages, 2891 KiB  
Article
Gene Expression and DNA Methylation Profiling Suggest Potential Biomarkers for Azacitidine Resistance in Myelodysplastic Syndrome
by Da Yeon Kim, Dong-Yeop Shin, Somi Oh, Inho Kim and Eun Ju Kim
Int. J. Mol. Sci. 2024, 25(9), 4723; https://doi.org/10.3390/ijms25094723 - 26 Apr 2024
Cited by 1 | Viewed by 2046
Abstract
Myelodysplastic syndrome/neoplasm (MDS) comprises a group of heterogeneous hematopoietic disorders that present with genetic mutations and/or cytogenetic changes and, in the advanced stage, exhibit wide-ranging gene hypermethylation. Patients with higher-risk MDS are typically treated with repeated cycles of hypomethylating agents, such as azacitidine. [...] Read more.
Myelodysplastic syndrome/neoplasm (MDS) comprises a group of heterogeneous hematopoietic disorders that present with genetic mutations and/or cytogenetic changes and, in the advanced stage, exhibit wide-ranging gene hypermethylation. Patients with higher-risk MDS are typically treated with repeated cycles of hypomethylating agents, such as azacitidine. However, some patients fail to respond to this therapy, and fewer than 50% show hematologic improvement. In this context, we focused on the potential use of epigenetic data in clinical management to aid in diagnostic and therapeutic decision-making. First, we used the F-36P MDS cell line to establish an azacitidine-resistant F-36P cell line. We performed expression profiling of azacitidine-resistant and parental F-36P cells and used biological and bioinformatics approaches to analyze candidate azacitidine-resistance-related genes and pathways. Eighty candidate genes were identified and found to encode proteins previously linked to cancer, chronic myeloid leukemia, and transcriptional misregulation in cancer. Interestingly, 24 of the candidate genes had promoter methylation patterns that were inversely correlated with azacitidine resistance, suggesting that DNA methylation status may contribute to azacitidine resistance. In particular, the DNA methylation status and/or mRNA expression levels of the four genes (AMER1, HSPA2, NCX1, and TNFRSF10C) may contribute to the clinical effects of azacitidine in MDS. Our study provides information on azacitidine resistance diagnostic genes in MDS patients, which can be of great help in monitoring the effectiveness of treatment in progressing azacitidine treatment for newly diagnosed MDS patients. Full article
(This article belongs to the Section Molecular Biology)
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18 pages, 9886 KiB  
Article
amer1 Regulates Zebrafish Craniofacial Development by Interacting with the Wnt/β-Catenin Pathway
by Le Sun, Lu Ping, Xinmiao Fan, Yue Fan, Bo Zhang and Xiaowei Chen
Int. J. Mol. Sci. 2024, 25(2), 734; https://doi.org/10.3390/ijms25020734 - 5 Jan 2024
Cited by 3 | Viewed by 2210
Abstract
Microtia-atresia is a rare type of congenital craniofacial malformation causing severe damage to the appearance and hearing ability of affected individuals. The genetic factors associated with microtia-atresia have not yet been determined. The AMER1 gene has been identified as potentially pathogenic for microtia-atresia [...] Read more.
Microtia-atresia is a rare type of congenital craniofacial malformation causing severe damage to the appearance and hearing ability of affected individuals. The genetic factors associated with microtia-atresia have not yet been determined. The AMER1 gene has been identified as potentially pathogenic for microtia-atresia in two twin families. An amer1 mosaic knockdown zebrafish model was constructed using CRISPR/Cas9. The phenotype and the development process of cranial neural crest cells of the knockdown zebrafish were examined. Components of the Wnt/β-catenin pathway were examined by qPCR, Western blotting, and immunofluorescence assay. IWR-1-endo, a reversible inhibitor of the Wnt/β-catenin pathway, was applied to rescue the abnormal phenotype. The present study showed that the development of mandibular cartilage in zebrafish was severely compromised by amer1 knockdown using CRISPR/Cas9. Specifically, amer1 knockdown was found to affect the proliferation and apoptosis of cranial neural crest cells, as well as their differentiation to chondrocytes. Mechanistically, amer1 exerted an antagonistic effect on the Wnt/β-catenin pathway. The application of IWR-1-endo could partially rescue the abnormal phenotype. We demonstrated that amer1 was essential for the craniofacial development of zebrafish by interacting with the Wnt/β-catenin pathway. These findings provide important insight into the role of amer1 in zebrafish mandibular development and the pathology of microtia-atresia caused by AMER1 gene mutations in humans. Full article
(This article belongs to the Special Issue New Insights in Translational Bioinformatics)
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12 pages, 674 KiB  
Article
Seroprevalence of Swine Influenza A Virus (swIAV) Infections in Commercial Farrow-to-Finish Pig Farms in Greece
by Vasileios G. Papatsiros, Georgios I. Papakonstantinou, Eleftherios Meletis, Konstantinos Koutoulis, Zoi Athanasakopoulou, Georgios Maragkakis, Georgia Labronikou, Ilias Terzidis, Polychronis Kostoulas and Charalambos Billinis
Vet. Sci. 2023, 10(10), 599; https://doi.org/10.3390/vetsci10100599 - 30 Sep 2023
Cited by 2 | Viewed by 2343
Abstract
Swine influenza is a highly contagious respiratory disease caused by influenza A virus infection. Pigs play an important role in the overall epidemiology of influenza because of their ability to transmit influenza viruses of avian and human origin, which plays a potential role [...] Read more.
Swine influenza is a highly contagious respiratory disease caused by influenza A virus infection. Pigs play an important role in the overall epidemiology of influenza because of their ability to transmit influenza viruses of avian and human origin, which plays a potential role in the emergence of zoonotic strains with pandemic potential. The aim of our study was to assess the seroprevalence of Swine Influenza Viruses (swIAVs) in commercial pig farms in Greece. A total of 1416 blood samples were collected from breeding animals (gilts and sows) and pigs aged 3 weeks to market age from 40 different swIAV vaccinated and unvaccinated commercial farrow-to-finish pig farms. For the detection of anti-SIV antibodies, sera were analyzed using an indirect ELISA kit CIVTEST SUIS INFLUENZA®, Hipra (Amer, Spain). Of the total 1416 animals tested, 498 were seropositive, indicating that the virus circulates in both vaccinated (54% seroprevalence) and unvaccinated Greek pig farms (23% seroprevalence). In addition, maternally derived antibody (MDA) levels were lower in pigs at 4 and 7 weeks of age in unvaccinated farms than in vaccinated farms. In conclusion, our results underscore the importance of vaccination as an effective tool for the prevention of swIAV infections in commercial farrow-to-finish pig farms. Full article
(This article belongs to the Special Issue Emerging and Re-emerging Swine Viruses)
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10 pages, 549 KiB  
Review
Systematic Review and Critical Evaluation of Quality of Clinical Practice Guidelines on Nutrition in Pregnancy
by Marika De Vito, Sara Alameddine, Giulia Capannolo, Ilenia Mappa, Paola Gualtieri, Laura Di Renzo, Antonino De Lorenzo, Francesco D’ Antonio and Giuseppe Rizzo
Healthcare 2022, 10(12), 2490; https://doi.org/10.3390/healthcare10122490 - 9 Dec 2022
Cited by 7 | Viewed by 3234
Abstract
Objective: To report the quality and clinical heterogeneity of the published clinical practice guidelines (CPGs) on nutrition in pregnancy. Methods: MEDLINE, Embase, Scopus, and ISI Web of Science databases were searched. The following aspects related to nutrition in pregnancy were addressed: specific requirements [...] Read more.
Objective: To report the quality and clinical heterogeneity of the published clinical practice guidelines (CPGs) on nutrition in pregnancy. Methods: MEDLINE, Embase, Scopus, and ISI Web of Science databases were searched. The following aspects related to nutrition in pregnancy were addressed: specific requirements during pregnancy, description of a balanced diet, weight gain, prevention of food-borne, nutrition in peculiar sub-groups of women, and maternal or perinatal outcomes. The assessment of the risk of bias and quality assessment of the included CPGs were performed using “The Appraisal of Guidelines for REsearch and Evaluation (AGREE II)” tool divided in six quality domains: scope and purpose, stakeholder involvement, rigor of development, clarity of presentation, applicability, editorial independence. Mean ± standard deviation (SD) was used to summarize the scores across all the guidelines per domain. The quality of each guideline was computed using the scoring system proposed by Amer et al. A cut-off of >60% was sued to define a CGP as recommended. Results: Eighteen CPGs were included. There was a substantial heterogeneity in the recommended dose for vitamins, folic acid, and micronutrient intake during pregnancy among the different published CPGs. 27.8% (5/18) of the CPGs recommended a daily intake of folic acid of 200 mcg, 38.8% (7/18) 400 mcg, 16.7% (3/18) 600 mcg while the remaining CPGs suggested dose between 400 and 600–800 mc per day. Adequate maternal hydration was advocated in the large majority of included CPGs, but a specific amount of water intake was not reported in 83.3% (15/18) cases. There was also significant heterogeneity in various other aspects of nutrition recommendation among the different CPGs, including gestational weight gain (55.5%), prevention of food-borne diseases in pregnancy (72.2%), nutrition in particular groups of pregnant women (83.3%), maternal and perinatal outcomes (72.2%). The AGREE II standardized domain scores for the first overall assessment (OA1) had a mean of 65% but only half scored more than 60%. Conclusion: The published CPGs on nutrition in pregnancy show an overall good methodology, but also a substantial heterogeneity as regard as different major aspects on nutrition in pregnancy. Full article
(This article belongs to the Section Women's Health Care)
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5 pages, 510 KiB  
Correction
Correction: Amer et al. Assessing Patient Experience and Attitude: BSC-PATIENT Development, Translation, and Psychometric Evaluation—A Cross-Sectional Study. Int. J. Environ. Res. Public Health 2022, 19, 7149
by Faten Amer, Sahar Hammoud, David Onchonga, Abdulsalam Alkaiyat, Abdulnaser Nour, Dóra Endrei and Imre Boncz
Int. J. Environ. Res. Public Health 2022, 19(19), 12319; https://doi.org/10.3390/ijerph191912319 - 28 Sep 2022
Cited by 2 | Viewed by 1377
Abstract
The authors wish to make the following corrections to this paper [...] Full article
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22 pages, 86833 KiB  
Article
Coastal Scenic Quality Assessment of Moroccan Mediterranean Beaches: A Tool for Proper Management
by Noureddine Er-Ramy, Driss Nachite, Giorgio Anfuso and Allan T. Williams
Water 2022, 14(12), 1837; https://doi.org/10.3390/w14121837 - 7 Jun 2022
Cited by 21 | Viewed by 5999
Abstract
This paper focuses on the study of landscape quality of Moroccan Mediterranean coastal areas, with a view to distinguishing exceptional beaches with high scenic value. The main characteristics of 50 beaches along the studied coast were assessed using a coastal scenic evaluation system [...] Read more.
This paper focuses on the study of landscape quality of Moroccan Mediterranean coastal areas, with a view to distinguishing exceptional beaches with high scenic value. The main characteristics of 50 beaches along the studied coast were assessed using a coastal scenic evaluation system based on a set of 26 selected parameters, including physical (18) and human (8) parameters. Each parameter was examined via a five-point rating scale, ranging from presence/absence or poor quality (1) to excellent quality (5). A decision index (D) is afterward obtained and used to classify sites into five classes: Class I: D ≥ 0.85, which included 9 sites (18%); Class II: 0.85 > D ≥ 0.65, 10 sites (20%); Class III: 0.65 > D ≥ 0.40, 8 sites (16%); Class IV: 0.40 > D ≥ 0.00, 16 sites (32%); and Class V: D < 0.00, 7 sites (14%). The sites of Belyounech 2, Maresdar, El Hwad, and Dalya are the best examples of Class I and represent extremely attractive coastal landscapes. The sites of Ghandouri, Tangier Municipal, M’Diq, Martil, and Tangier Malabata are examples of degraded urban sites that are very unattractive due to high human pressures. Management efforts in Moroccan coastal landscapes can strengthen the control of human activities and improve the scenic value of the sites. Class II beaches, such as Mrisat, Souani, Taourirt, and Sfiha, could improve and upgrade to Class I through litter cleaning and a regular maintenance program. Using the same principle, Class III sites, such as Sidi Amer O Moussa and Sidi Driss, could improve and upgrade to Class II. Indeed, litter and sewage appear as the main factors of degradation of Moroccan coasts, and many excellent beaches are strongly affected by them. This should be a wakeup call to the Moroccan authorities to take urgent and appropriate management measures. Full article
(This article belongs to the Section Oceans and Coastal Zones)
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12 pages, 297 KiB  
Article
The Sehgal’s Fixed Point Result in the Framework of ρ-Space
by Nicolae Adrian Secelean, Dariusz Wardowski and Mi Zhou
Mathematics 2022, 10(3), 459; https://doi.org/10.3390/math10030459 - 30 Jan 2022
Cited by 2 | Viewed by 2202
Abstract
In this paper, we prove a fixed point theorem of Sehgal type (see Sehgal, V.M., Proc Amer Math Soc 23: 631–634, 1969) in a more general setting of ρ-space (see Secelean, N.A. and Wardowski, D., Results Math, 72: 919–935, 2017). In this [...] Read more.
In this paper, we prove a fixed point theorem of Sehgal type (see Sehgal, V.M., Proc Amer Math Soc 23: 631–634, 1969) in a more general setting of ρ-space (see Secelean, N.A. and Wardowski, D., Results Math, 72: 919–935, 2017). In this way, we can find, as particular cases, some results of Sehgal type in metric, b-metric and rectangular b-metric spaces. Full article
(This article belongs to the Section E: Applied Mathematics)
26 pages, 4044 KiB  
Article
Environmental Risk Assessment of Petroleum Activities in Surface Sediments, Suez Gulf, Egypt
by Magda M. Abou El-Safa, Mohamed Gad, Ebrahem M. Eid, Ashwaq M. Alnemari, Mohammed H. Almarshadi, Abdullah S. Alshammari, Farahat S. Moghanm and Ali H. Saleh
J. Mar. Sci. Eng. 2021, 9(5), 473; https://doi.org/10.3390/jmse9050473 - 27 Apr 2021
Cited by 5 | Viewed by 3647
Abstract
The present study focuses on the risk assessment of heavy metal contamination in aquatic ecosystems by evaluating the current situation of heavy metals in seven locations (North Amer El Bahry, Amer, Bakr, Ras Gharib, July Water Floud, Ras Shokeir, and El Marageen) along [...] Read more.
The present study focuses on the risk assessment of heavy metal contamination in aquatic ecosystems by evaluating the current situation of heavy metals in seven locations (North Amer El Bahry, Amer, Bakr, Ras Gharib, July Water Floud, Ras Shokeir, and El Marageen) along the Suez Gulf coast that are well-known representative sites for petroleum activities in Egypt. One hundred and forty-six samples of surface sediments were carefully collected from twenty-seven profiles in the intertidal and surf zone. The hydrochemical parameters, such as pH and salinity (S‰), were measured during sample collection. The mineralogy study was carried out by an X-ray diffractometer (XRD), and the concentrations of Al, Mn, Fe, Cr, Cu, Co, Zn, Cd, and Pb were determined using inductively coupled plasma mass spectra (ICP-MS). The ecological risks of heavy metals were assessed by applying the contamination factor (CF), enrichment factor (EF), geoaccumulation index (Igeo), pollution load index (PLI), and potential ecological risk index (RI). The mineralogical composition mainly comprised quartz, dolomites, calcite, and feldspars. The average concentrations of the detected heavy metals, in descending order, were Al > Fe > Mn > Cr > Pb > Cu > Zn > Ni > Co > Cd. A non-significant or negative relationship between the heavy metal concentration in the samples and their textural grain size characteristics was observed. The coastal surface sediment samples of the Suez Gulf contained lower concentrations of heavy metals than those published for other regions in the world with petroleum activities, except for Al, Mn, and Cr. The results for the CF, EF, and Igeo showed that Cd and Pb have severe enrichment in surface sediment and are derived from anthropogenic sources, while Al, Mn, Fe, Cr, Co, Ni, Cu, and Zn originate from natural sources. By comparison, the PLI and RI results indicate that the North Amer El Bahry and July Water Floud are considered polluted areas due to their petroleum activities. The continuous monitoring and assessment of pollutants in the Suez Gulf will aid in the protection of the environment and the sustainability of resources. Full article
(This article belongs to the Section Geological Oceanography)
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10 pages, 284 KiB  
Article
On Some New Contractive Conditions in Complete Metric Spaces
by Jelena Vujaković, Eugen Ljajko, Mirjana Pavlović and Stojan Radenović
Mathematics 2021, 9(2), 118; https://doi.org/10.3390/math9020118 - 7 Jan 2021
Cited by 2 | Viewed by 2050
Abstract
One of the main goals of this paper is to obtain new contractive conditions using the method of a strictly increasing mapping F:(0,+)(,+). According to the recently [...] Read more.
One of the main goals of this paper is to obtain new contractive conditions using the method of a strictly increasing mapping F:(0,+)(,+). According to the recently obtained results, this was possible (Wardowski’s method) only if two more properties (F2) and (F3) were used instead of the aforementioned strictly increasing (F1). Using only the fact that the function F is strictly increasing, we came to new families of contractive conditions that have not been found in the existing literature so far. Assuming that α(u,v)=1 for every u and v from metric space Ξ, we obtain some contractive conditions that can be found in the research of Rhoades (Trans. Amer. Math. Soc. 1977, 222) and Collaco and Silva (Nonlinear Anal. TMA 1997). Results of the paper significantly improve, complement, unify, generalize and enrich several results known in the current literature. In addition, we give examples with results in line with the ones we obtained. Full article
7 pages, 627 KiB  
Case Report
Deletion of Exon 1 in AMER1 in Osteopathia Striata with Cranial Sclerosis
by Jingyi Mi, Padmini Parthasarathy, Benjamin J. Halliday, Tim Morgan, John Dean, Malgorzata J. M. Nowaczyk, David Markie, Stephen P. Robertson and Emma M. Wade
Genes 2020, 11(12), 1439; https://doi.org/10.3390/genes11121439 - 30 Nov 2020
Cited by 9 | Viewed by 4667
Abstract
Osteopathia striata with cranial sclerosis (OSCS) is an X-linked dominant condition characterised by metaphyseal striations, macrocephaly, cleft palate, and developmental delay in affected females. Males have a more severe phenotype with multi-organ malformations, and rarely survive. To date, only frameshift and nonsense variants [...] Read more.
Osteopathia striata with cranial sclerosis (OSCS) is an X-linked dominant condition characterised by metaphyseal striations, macrocephaly, cleft palate, and developmental delay in affected females. Males have a more severe phenotype with multi-organ malformations, and rarely survive. To date, only frameshift and nonsense variants in exon 2, the single coding exon of AMER1, or whole gene deletions have been reported to cause OSCS. In this study, we describe two families with phenotypic features typical of OSCS. Exome sequencing and multiplex ligation-dependent probe amplification (MLPA) did not identify pathogenic variants in AMER1. Therefore, genome sequencing was employed which identified two deletions containing the non-coding exon 1 of AMER1 in the families. These families highlight the importance of considering variants or deletions of upstream non-coding exons in conditions such as OSCS, noting that often such exons are not captured on probe or enrichment-based platforms because of their high G/C content. Full article
(This article belongs to the Section Human Genomics and Genetic Diseases)
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16 pages, 331 KiB  
Article
Periodic Intermediate β-Expansions of Pisot Numbers
by Blaine Quackenbush, Tony Samuel and Matt West
Mathematics 2020, 8(6), 903; https://doi.org/10.3390/math8060903 - 3 Jun 2020
Cited by 1 | Viewed by 3028
Abstract
The subshift of finite type property (also known as the Markov property) is ubiquitous in dynamical systems and the simplest and most widely studied class of dynamical systems are β -shifts, namely transformations of the form [...] Read more.
The subshift of finite type property (also known as the Markov property) is ubiquitous in dynamical systems and the simplest and most widely studied class of dynamical systems are β -shifts, namely transformations of the form T β , α : x β x + α mod 1 acting on [ α / ( β 1 ) , ( 1 α ) / ( β 1 ) ] , where ( β , α ) Δ is fixed and where Δ { ( β , α ) R 2 : β ( 1 , 2 ) and 0 α 2 β } . Recently, it was shown, by Li et al. (Proc. Amer. Math. Soc. 147(5): 2045–2055, 2019), that the set of ( β , α ) such that T β , α has the subshift of finite type property is dense in the parameter space Δ . Here, they proposed the following question. Given a fixed β ( 1 , 2 ) which is the n-th root of a Perron number, does there exists a dense set of α in the fiber { β } × ( 0 , 2 β ) , so that T β , α has the subshift of finite type property? We answer this question in the positive for a class of Pisot numbers. Further, we investigate if this question holds true when replacing the subshift of finite type property by the sofic property (that is a factor of a subshift of finite type). In doing so we generalise, a classical result of Schmidt (Bull. London Math. Soc., 12(4): 269–278, 1980) from the case when α = 0 to the case when α ( 0 , 2 β ) . That is, we examine the structure of the set of eventually periodic points of T β , α when β is a Pisot number and when β is the n-th root of a Pisot number. Full article
(This article belongs to the Special Issue Fractals: Geometry, Analysis and Mathematical Physics)
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14 pages, 2731 KiB  
Article
Uncovering Potential Therapeutic Targets in Colorectal Cancer by Deciphering Mutational Status and Expression of Druggable Oncogenes
by Otília Menyhart, Tatsuhiko Kakisaka, Lőrinc Sándor Pongor, Hiroyuki Uetake, Ajay Goel and Balázs Győrffy
Cancers 2019, 11(7), 983; https://doi.org/10.3390/cancers11070983 - 14 Jul 2019
Cited by 21 | Viewed by 4373
Abstract
Background: Numerous driver mutations have been identified in colorectal cancer (CRC), but their relevance to the development of targeted therapies remains elusive. The secondary effects of pathogenic driver mutations on downstream signaling pathways offer a potential approach for the identification of therapeutic targets. [...] Read more.
Background: Numerous driver mutations have been identified in colorectal cancer (CRC), but their relevance to the development of targeted therapies remains elusive. The secondary effects of pathogenic driver mutations on downstream signaling pathways offer a potential approach for the identification of therapeutic targets. We aimed to identify differentially expressed genes as potential drug targets linked to driver mutations. Methods: Somatic mutations and the gene expression data of 582 CRC patients were utilized, incorporating the mutational status of 39,916 and the expression levels of 20,500 genes. To uncover candidate targets, the expression levels of various genes in wild-type and mutant cases for the most frequent disruptive mutations were compared with a Mann–Whitney test. A survival analysis was performed in 2100 patients with transcriptomic gene expression data. Up-regulated genes associated with worse survival were filtered for potentially actionable targets. The most significant hits were validated in an independent set of 171 CRC patients. Results: Altogether, 426 disruptive mutation-associated upregulated genes were identified. Among these, 95 were linked to worse recurrence-free survival (RFS). Based on the druggability filter, 37 potentially actionable targets were revealed. We selected seven genes and validated their expression in 171 patient specimens. The best independently validated combinations were DUSP4 (p = 2.6 × 10−12) in ACVR2A mutated (7.7%) patients; BMP4 (p = 1.6 × 10−04) in SOX9 mutated (8.1%) patients; TRIB2 (p = 1.35 × 10−14) in ACVR2A mutated patients; VSIG4 (p = 2.6 × 10−05) in ANK3 mutated (7.6%) patients, and DUSP4 (p = 7.1 × 10−04) in AMER1 mutated (8.2%) patients. Conclusions: The results uncovered potentially druggable genes in colorectal cancer. The identified mutations could enable future patient stratification for targeted therapy. Full article
(This article belongs to the Special Issue New Biomarkers in Cancers)
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