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PCR-HRM for Genomic Surveillance of SARS-CoV-2: A Variant detection Tool in Côte d’Ivoire, West Africa

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American Journal of Molecular Biology 2024年第3期14卷 166-185页

作者： Aboubacar Sylla Solange Kakou-Ngazoa Tata Gniré Safiatou Coulibaly Yakoura Karidja Ouattara mireille Sylvie Kouamé-Sina Zeinab Ouattara david Ngolo Coulibaly Brice Kouakou Bla mireille d.sso Molecular Biology Platform Pasteur Institute Cte dIvoire Abidjan Cte dIvoire Laboratory of Biology and Health UFR Biosciences University Flix Houphout Boigny Abidjan Cte dIvoire Genetic and Cancer Laboratory Molecular Genetics Platform Pasteur Institute Cte dIvoire Abidjan Cte dIvoire Epidemic Virus department Pasteur Institute Cte dIvoire Abidjan Cte dIvoire

The rise of new viruses, like SARS-CoV-2 causing the COVId-19 outbreak, along with the return of antibiotic resistance in harmful bacteria, demands a swift and efficient reaction to safeguard the health and welfare of the global population. It is crucial to have effective measures for prevention, intervention, and monitoring in place to address these evolving and recurring risks, ensuring public health and international security. In countries with limited resources, utilizing recombinant mutation plasmid technology in conjunction with PCR-HRM could help differentiate the existence of novel variants. cdNA synthesis was carried out on 8 nasopharyngeal samples following viral RNA extraction. The P1 segment of the SARS-CoV-2 Spike S protein was amplified via conventional PCR. Subsequently, PCR products were ligated with the pGEM-T Easy vector to generate eight recombinant SARS-CoV-2 plasmids. Clones containing mutations were sequenced using Sanger sequencing and analyzed through PCR-HRM. The P1 segment of the S gene from SARS-CoV-2 was successfully amplified, resulting in 8 recombinant plasmids generated from the 231 bp fragment. PCR-HRM analysis of these recombinant plasmids differentiated three variations within the SARS-CoV-2 plasmid population, each displaying distinct melting temperatures. Sanger sequencing identified mutations A112C, G113T, A114G, G214T, and G216C on the P1 segment, validating the PCR-HRM findings of the variations. These mutations led to the detection of L452R or L452M and F486V protein mutations within the protein sequence of the Omicron variant of SARS-CoV-2. In summary, PCR-HRM is a vital and affordable tool for distinguishing SARS-CoV-2 variants utilizing recombinant plasmids as controls.

关键词： Genomic Surveillance SARS-CoV-2 PCR-HRM Variants Côte d’Ivoire

Physico-Chemical and Nutritional Properties of a Food Broth Based on Nere (Parkia biglobosa)

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Food and Nutrition Sciences 2024年第5期15卷 377-389页

作者： Lassana Bamba Gervais Melaine M’Boh N’Gbésso Amos Ekissi Kipré Laurent Séri Gnogbo Alexis Bahi Koffi Pierre Valery Niaba Allico Joseph djaman Grah Avit Maxwell Beugre Laboratory of Agro-Valorization Department of Agroforesterie Jean Lorougnon Gu&#233d&#233 University Daloa C&#244te d&#8217Ivoire Medical and Fundamental Biochemistry department Institut Pasteur of C&#244te d&#8217Ivoire Abidjan C&#244te d&#8217Ivoire Laboratory of Biotechnology Agriculture and Valorization of Biological Resources Department of Biosciences Felix Houphouet-Boigny University Abidjan Cote d&#8217Ivoire Biology and Health Laboratory Department of Biosciences Felix Houphouet-Boigny University Abidjan C&#244te d&#8217Ivoire

Purpose: diet and eating habits are major risk factors for the health and the development of disease, such as, for example, metabolic disorder leading to cardiovascular pathology and cancer, decreased immunity exposing to infections. This study of the physico-chemical and nutritional properties of a soumara-based food broth was carried out with the aim of promoting the consumption of organic broth made from nere seeds (soumara). That is to alleviate certain metabolic diseases, which is a matter of food safety, and also to limit the risk for the health about the consumption of some cooking stocks on the market. Methods: Several natural ingredients such as nere seeds (soumara), ginger, black pepper, parsley and garlic were used to create a nere-based stock. All these ingredients were freeze-dried and the powder obtained was used to make the broth, regarding their physical and chemical properties. Results: The broth had a good protein content of 17.41 ± 0.367 g/100g, a lipid content of 16.80 ± 0.08 g/100g and a fiber content of 8.66 ± 0.04 g/100g. In terms of nutritional values, the broth showed good levels of calcium 184.21 ± 0.09 mg/100g, potassium 50.04 ± 1.45 mg/100g and iron and zinc. In terms of antioxidant activity, the broth also showed good antioxidant activity. Conclusion: Regarding the properties of our food broth, whose composition is based on natural ingredients, could be recommended for consumption and, its properties, could play an important role in preventing and combating certain metabolic diseases.

关键词： Food Broth Nere Physico-Chemical Properties Nutrition Food Safety

Frequency of the C677T Polymorphism of MTHFR, G20210A of Prothrombin and R506Q of Factor V Leiden in Type 2 diabetics in Abidjan

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Open Journal of Genetics 2024年第1期14卷 13-25页

作者： N’Guessan-Blao Rebecca Yapo Vincent Yayo-Ayé mireille Adjambri Eusèbe Koné-Koné Fatoumata Sawadogo duni Hematology and General Biology Unit Faculty of Pharmaceutical and Biological Sciences Department of Biological Sciences Felix Houphouet-Boigny University Abidjan Ivory Coast Laboratory of Biology and Medical Research National Institute of Public Health (INSP) Abidjan Ivory Coast Molecular Biology Unit Center for Diagnosis and Research on AIDS and Other Infectious Diseases (CeDReS) Treichville University Hospital (CHU) Abidjan Ivory Coast

In Africa, the prevalence of diabetes is escalating and remains a concern due to the numerous complications it causes. Vascular damage associated with diabetes leads to a prothrombotic state observed in diabetic individuals. diabetes is a complex and multifactorial disease involving genetic components. With the aim of preventing complications and contributing to an efficient management of diabetes, we investigated genes likely to lead to a risk of thrombosis, in particular the C677T of MTHFR, G20210A of prothrombin, and R506Q of factor V Leiden in type 2 diabetics in Abidjan receiving ambulatory care. A descriptive cross-sectional study was carried out on consenting type 2 diabetic patients. Mutation detection was carried out using the PCR-RFLP method employing restriction enzymes. Hemostasis tests (fibrinogen, d-dimers, fibrin monomers, and von Willebrand factor) were performed using citrate tubes on the Stage? Star Max automated system. Plasminogen activator inhibitor was assayed by ELISA method, and biochemical parameters were determined using the COBAS C311. The study population consisted of 45 diabetic patients, 51.1% of whom presented vascular complications, mainly neuropathy. disturbances in hemostasis parameters were observed, with 15.5% of patients showing an increase in fibrin monomers. Mutation analysis revealed an absence of factor V mutation (factor V Leiden) and of G20210A mutation of the prothrombin gene. However, 15.6% of subjects had a heterozygous C677T mutation of MTHFR, with 57% of them being anemic. The exploration of biological and genetic factors associated with thrombotic risk is of significant interest in the optimal management of African type 2 diabetics.

关键词： Type 2 diabetes C677T of MTHFR G20210A Factor V Leiden Thrombosis

detection of ARV-Resistant Mutants in HIV-1-Infected Individuals in a Context of Systematic Switching to an Association Based on dolutegravir in Abidjan, Côte d’Ivoire

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American Journal of Molecular Biology 2024年第3期14卷 138-151页

作者： Odegue Kpadraux danielle Kakou-Ngazoa Solange dechi Jean-Jacques Renaud diallo Zelica Sina Kouamé mireille Sylla Aboubacar Tossea Koui Stéphane Kouakou Venance Adagba Marius Apia N’Chouo Kouamé Basile Touré Offianan André d.sso mireille Molecular Biology Platform Institut Pasteur Abidjan Cte dIvoire Laboratory of the Regional Blood Transfusion Center Yamoussoukro Cte dIvoire department of Infectious and Tropical diseases University Hospital Treichville Abidjan Cte dIvoire Laboratory of the Regional Blood Transfusion Center San-Pdro Cte dIvoire department of Epidemic Virus Institut Pasteur Abidjan Cte dIvoire department of Parasitology Mycology Institut Pasteur Abidjan Cte dIvoire department of Bacteriology-Virology Institut Pasteur Abidjan Cte dIvoire

The emergence of antiretroviral resistance mutations represents a major threat to the achievement of national and global goals for the elimination of HIV-1 infection. The global strategy in 2019 in Cte d'Ivoire is a new national policy for the management of people living with HIV with the administration of dolutegravir (dTG)-based fixed-dose combination. The aim of our study was to evaluate HIV-1 resistance to antiretrovirals (ARVs) in infected adult subjects in Cte d’Ivoire in the context of a systematic switch to a dTG-based combination. Between February 2022 and October 2023, a cross-sectional survey with random sampling was conducted in 06 services caring for people living with HIV. A total of 139 participants were included in the study. Adults with a viral load ≥ 1000 copies/mL were tested for HIV-1 ARV resistance mutations. Molecular analyses were performed using protocol of ANRS-MIE (National Agency for Research on AIdS and emerging infectious diseases). The interpretation is performed by HIVGRAd (https://***/cms/grade/). The frequencies of HIV-1 resistance to non-nucleotide reverse transcriptase inhibitors (NNRTIs), nucleotide reverse transcriptase inhibitors (NRTIs), integrase inhibitors (IINTs) and protease inhibitors (PIs) were 82%, 73%, 19% and 11% respectively. The main mutations observed in the different classes were K103N (45%), M184V (64%), E157Q (19%) and L10V/M46I/A71V/I54V (6%) respectively. This study reveals the emergence of resistance to dTG-based fixed-dose combinations, favored by high rates of resistance to NRTIs and NNRTIs. This finding underlines the need for enhanced viral load monitoring and HIV-1 genotyping tests to guide the choice of NRTIs for combination therapy. In addition, monitoring for mutations to second-generation NRTIs is essential, given the scale-up of dTG-based regimens currently underway in Cte d’Ivoire.

关键词： Resistant Mutants dolutegravir HIV-1 Antiretrovirals Côte d’Ivoire

Snapshot imaging of ultrashort electron bunches

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Light(Science & Applications) 2024年第7期13卷 1226-1228页

作者： Andreas döpp Ludwig-Maximilian-Universität München Am Coulombwall 185748GarchingGermany Max Planck Institut für Quantenoptik Hans-Kopfermann-Strasse 1Garching85748Germany

New measurements combine spatial and temporal information from optical transition radiation to estimate the three-dimensional structure of electron bunches from a laser wakefield accelerator.

关键词： ultrashort Snapshot electron

Influence of Hemoglobin S Haplotypes on the Responses to Hydroxyurea Treatment in Children with Sickle Cell disease in Abidjan, Côte d’Ivoire

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Open Journal of Genetics 2024年第1期14卷 1-12页

作者： mireille Aye-Yayo Vincent Yapo Boidy Kouakou Missa Louis Adjé Adia Eusèbe Adjambri Ebah Hermance Kassi Taïratou Kamagate duni Sawadogo Hematology Unit Central Laboratory of the Teaching Hospital of Yogoupon Abidjan C&#244te d’Ivoire Hematology and Cell Biology Unit Laboratory of Biological Sciences Department of Pharmacy Felix Houphouet Boigny University Abidjan C&#244te d’Ivoire Molecular Biology Unit Center for Diagnostic and Research on AIDS and Other Infectious Diseases (CeDReS) Teaching Hospital of Treichville Abidjan C&#244te d’Ivoire Clinical Hematology Unit Teaching Hospital of Yogoupon Abidjan C&#244te d’Ivoire

Background: In Côte d’Ivoire so far, the circulating haplotypes have been inferred on the phenotypic profiling of SCd patients. The impact of the circulating haplotypes on the use of Hydroxyurea has not been assessed yet. Therefore the objective of this study is to identify in Abidjan the HbS haplotypes that modulate HU treatment responses. Methods: In a cross-sectional descriptive and analytical study, children aged 5 to 15 years with SCd, and carrying the hemoglobin phenotypes SSFA2 and SFA2, were recruited into a HU treatment cohort. Various parameters on the haplotypes and the outcomes of the treatment were analyzed. Results: Thirty nine children with SCd were included. The phenotypic profile of the cohort was 86.6% of SSFA2 and 15.4% of SFA2. Three haplotypes were found, the Benin haplotype, the Senegal haplotype, and an atypical one. The participants belonged to three genotypes, Benin/atypical (64.1%), Benin/Senegal (33.3%) and Senegal/Senegal (2.6%). Overall, HU treatment was successful in all haplotypes with 12 out of 39 patients failing treatment after 12 months in the Benin haplotype group. The association between HU treatment success and the Benin haplotype was found in terms of the decrease in the number of white blood cells and the students missing class. Conclusion: The study revealed that inferring haplotype based on the phenotypic profile could be inaccurate. The proportion of atypical haplotype that were not previously described in Côte d’Ivoire was high. All the haplotypes seemed to be associated with HU treatment success but some patients with Benin haplotype did not respond well.

关键词： Sickle Cell disease Children Haplotype Hydroxyurea Côte d’Ivoire

Influence of variable viscosity and double diffusion on the convective stability of a nanofluid flow in an inclined porous channel

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Applied Mathematics and Mechanics(English Edition) 2024年第3期45卷 563-580页

作者： N.HUMNEKAR d.SRINIVASACHARYA department of Mathematics National Institute of TechnologyWarangal 506004TelanganaIndia

The influence of variable viscosity and double diffusion on the convective stability of a nanofluid flow in an inclined porous channel is *** darcyBrinkman model is used to characterize the fluid flow dynamics in porous *** analytical solutions are obtained for the unidirectional and completely developed *** on a normal mode analysis,the generalized eigenvalue problem under a perturbed state is *** eigenvalue problem is then solved by the spectral ***,the critical Rayleigh number with the corresponding wavenumber is evaluated at the assigned values of the other flow-governing *** results show that increasing the darcy number,the Lewis number,the dufour parameter,or the Soret parameter increases the stability of the system,whereas increasing the inclination angle of the channel destabilizes the ***,the flow is the most unstable when the channel is vertically oriented.

关键词： nanofluid inclined channel variable viscosity linear stability double dif-fusion porous medium

decomposition mechanisms of nuclear-grade cationic exchange resin by advanced oxidation processes:Statistical molecular fragmentation model and dFT calculations

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Journal of Environmental Sciences 2024年第1期135卷 433-448页

作者： Xiang Meng Pierre désesquelles Lejin Xu department of Nuclear Engineering and Technology School of Energy and Power EngineeringHuazhong University of Science&TechnologyWuhan 430074China CNRS Laboratoire de Physique des Gaz et des PlasmasUniversitéParis-SaclayOrsay 91405France State Key Laboratory of Coal Combustion School of Energy and Power EngineeringHuazhong University of Science and TechnologyWuhan 430074China

The treatment and disposal of radioactive waste are presently facing great *** ion exchange resins have become a focus of attention due to their high production and serious environmental *** this paper,a simplified model of cationic exchange resin is proposed,and the degradation processes of cationic resin monomer initiated by hydroxyl radicals(·OH)are clarified by combining statistical molecular fragmentation(SMF)model and density functional theory(dFT)*** prediction of active sites indicates that the S-O bonds and the C-S bond of the sulfonic group are more likely to react during the *** meta-position of the sulfonic group on the benzene ring is the most active site,and the benzene ring without the sulfonic group has a certain *** C11-C14 and C17-C20 bonds,on the carbon skeleton,are the most easily *** is also found that dihydroxy addition and elimination reactions play a major role in the process of desulfonation,carbon skeleton cleavage and benzene ring *** decomposition mechanisms found through the combination of physical models and chemical calculations,provide theoretical guidance for the treatment of complex polycyclic aromatic hydrocarbons.

关键词： Cationic exchange resin Statistical molecular fragmentation model density functional theory Hydroxyl radical decomposition mechanism

Role of pituitary adenylate cyclase-activating polypeptide in peripheral nerve regeneration:a cellular and molecular perspective

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Neural Regeneration Research 2024年第7期19卷 1429-1430页

作者： Grazia Maugeri Velia d’Agata Section of Anatomy Histology and Movement SciencesDepartment of Biomedical and Biotechnological SciencesUniversity of CataniaCataniaItaly

Neuro regeneration is a very complex phenomenon characterized by the generation of new neurons and synapses,involving connections between adjacent cells and axonal *** supplies additional longterm resources to replace... 详细信息

关键词： replace functional regeneration