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TWAs facilitates gene-scale trait genetic dissection through gene expression,structural variations,and alternative splicing in soybean

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Plant Communications 2024年第10期5卷 16-32页

作者： Delin Li Qi Wang Yu Tian Xiangguang Lyv Hao Zhang Huilong Hong Huawei Gao Yan-Fei Li Chaosen Zhao Jiajun Wang Ruizhen Wang Jinliang Yang Bin Liu patrick.s.schnable James C.schnable Ying-Hui Li Li-Juan Qiu The National Key Facility for Crop Gene Resources and Genetic Improvement(NFCRI)/Key Laboratory of Crop Gene Resource and Germplasm Enhancement(MOA)/state Key Laboratory of Crop Gene Resources and Breeding Institute of Crop ScienceChinese Academy of Agricultural SciencesBeijing 100081China College of Agriculture Northeast Agricultural UniversityHarbin 150030China National Nanfan Research Institute(sanya) Chinese Academy of Agricultural SciencesSanya 572024China Crops Research Institute of Jiangxi Academy of Agricultural sciences Nanchang 330200China soybean Research Institute Heilongjiang Academy of Agricultural SciencesHarbin 150086China Department of Agronomy and Horticulture University of Nebraska-LincolnLincolnNE 68583USA Department of Agronomy Iowa State UniversityAmesIA 50011USA

A genome-wide association study(GWAs)identifies trait-associated loci,but identifying the causal genes can be a bottleneck,due in part to slow decay of linkage disequilibrium(LD).A transcriptome-wide association study(TWAs)addresses this issue by identifying gene expression-phenotype associations or integrating gene expression quantitative trait loci with GWAs ***,we used self-pollinated soybean(Glycine max[L.]Merr.)as a model to evaluate the application of TWAs to the genetic dissection of traits in plant species with slow LD *** generated RNA sequencing data for a soybean diversity panel and identified the genetic expression regulation of 29286 soybean *** TWAs solutions were less affected by LD and were robust to the source of expression,identifing known genes related to traits from different tissues and developmental *** novel pod-color gene L2 was identified via TWAs and functionally validated by genome *** introducing a new exon proportion feature,we significantly improved the detection of expression variations that resulted from structural variations and alternative *** a result,the genes identified through our TWAs approach exhibited a diverse range of causal variations,including sNPs,insertions or deletions,gene fusion,copy number variations,and alternative *** this approach,we identified genes associated with flowering time,including both previously known genes and novel genes that had not previously been linked to this trait,providing insights complementary to those from *** summary,this study supports the application of TWAs for candidate gene identification in species with low rates of LD decay.

关键词： eQTLs TWAs structural variation alternative splicing soybean

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Genetic Diversity of Jute Mallow (Corchorus spp.) Accessions Based on IssR Markers

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American Journal of Plant sciences 2024年第5期15卷 316-328页

作者： Munguatosha Ngomuo Tsvetelina stoilova Tileye Feyissa patrick A. Ndakidemi school of Life sciences Nelson Mandela African Institute of Science and Technology Arusha Tanzania Tanzania Official seed Certification Institute (TOsCI) Arusha Tanzania AVRDC— World Vegetable Centre Arusha Tanzania Institute of Biotechnology Addis Ababa University Addis Ababa Ethiopia

Jute mallow is a nutritious leafy vegetable. The leaves are rich in proteins, vitamins and essential amino acids. Molecular characterization of Jute mallow with focus on improvement of leaf yield is scarcely reported. In the present study, inter sequence simple repeats (IssR) molecular markers were employed to assess genetic diversity and relationships of 83 accessions of Jute mallow from different parts of Africa and Asia conserved at the World Vegetable Center East and southern Africa. A total of 89 bands were amplified by 8 IssR primers. Number of polymorphic bands per primer ranged from 2 to 6 with an average of 2.75 bands per primer. Polymorphic information content (PIC) values ranged from 0.390 to 0.760 with average of 0.53. Average Nei’s gene diversity (h) and shannon’s information index (I) were 0.335 and 0.494 respectively. The highest pairwise genetic distance was 0.431 observed in a population from East Africa accessions. PC1 and PC2 axis explained 21.69% and 11.66% of the total variation respectively. UPGMA cluster analysis grouped the accessions into six main clusters at genetic similarity coefficient of 0.53 as standard value for classification. These results have important implications for jute mallow breeding and conservation.

关键词： Corchorus spp. Genetic Diversity IssRs Jute Mallow Leafy Vegetable

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General anesthetic agents induce neurotoxicity through oligodendrocytes in the developing brain

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Zoological Research 2024年第3期45卷 691-703页

作者： Wen-Xin Hang Yan-Chang Yang Yu-Han Hu Fu-Quan Fang Lang Wang Xing-Hua Qian patrick M.McQuillan Hui Xiong Jian-Hang Leng Zhi-Yong Hu Department of Anesthesiology First Affiliated HospitalZhejiang University School of MedicineHangzhouZhejiang 310003China Department of Cell Biology Yale UniversityNew HavenCT 06520USA Department of Neurology of the First Affiliated Hospital Interdisciplinary Institute of Neuroscience and TechnologySchool of Brain Science and Brain MedicineZhejiang University School of MedicineHangzhouZhejiang 310027China Department of Anesthesiology Jiaxing Maternity and Childcare Health HospitalJiaxingZhejiang 314009China Department of Anesthesiology Penn State Hershey Medical CentrePenn State College of MedicineHersheyPA 17033USA Department of Central Laboratory Affiliated Hangzhou First People’s HospitalWestlake University School of MedicineHangzhouZhejiang 310006China

General anesthetic agents can impact brain function through interactions with neurons and their effects on glial *** perform essential roles in the central nervous system,including myelin sheath formation,axonal metabolism,and neuroplasticity *** are particularly vulnerable to the effects of general anesthetic agents resulting in impaired proliferation,differentiation,and *** are increasingly interested in the effects of general anesthetic agents on *** agents not only act on the surface receptors of oligodendrocytes to elicit neuroinflammation through modulation of signaling pathways,but also disrupt metabolic processes and alter the expression of genes involved in oligodendrocyte development and *** this review,we summarize the effects of general anesthetic agents on *** anticipate that future research will continue to explore these effects and develop strategies to decrease the incidence of adverse reactions associated with the use of general anesthetic agents.

关键词： Oligodendrocytes General anesthetic agents Neurotoxicity Central nervous system Perioperative neurocognitive disorders

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Prenatal multiple micronutrient-fortified balanced energy-protein supplementation and newborn telomere length and mitochondrial DNA content: a randomized controlled efficacy trial in rural Burkina Faso

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Food science and Human Wellness 2024年

作者： Giles T.Hanley-Cook Yuri Bastos-Moreira Dries s.Martens Trenton Dailey-Chwalibóg Laeticia Celine Toe Brenda de Kok Lionel Ouédraogo Alemayehu Argaw Kokeb Tesfamariam patrick Kolsteren Lieven Huybregts Tim s.Nawrot sarah De saeger Marthe De Boevre Carl Lachat Department of Food Technology， safety and Health， Faculty of Bioscience Engineering， Ghent University Center of Excellence in Mycotoxicology and Public Health， MYTOXsOUTH~(?) Coordination Unit， Faculty of Pharmaceutical sciences， Ghent University Centre for Environmental sciences， Hasselt University Unité Nutrition et Maladies Métaboliques， Institut de Recherche en sciences de la santé (IRss) Centre Muraz Center of Excellence in Mycotoxicology and Public Health， MYTOXsOUTH? Coordination Unit， Faculty of Pharmaceutical sciences， Ghent University Nutrition， Diets， and Health Unit， Department of Food and Nutrition Policy， International Food Policy Research Institute (IFPRI) Department of Public Health & Primary Care， University of Leuven Department of Biotechnology and Food Technology， Faculty of science， University of Johannesburg， Doornfontein Campus

Background: Evidence regarding the effectiveness of prenatal nutritional supplements has mainly considered anthropometric pregnancy outcomes. The effect on markers of health and disease， such as offspring telomere length (TL) and mitochondrial DNA content (mtDNAc) is unknown. Objectives: We assessed the efficacy of maternal multiple micronutrient (MMN)-fortified balanced-energy protein (BEP) and iron-folic acid (IFA) supplementation on newborn TL as a secondary outcome and mtDNAc as a non-declared outcome. Design: We conducted a randomized controlled trial in rural Burkina Faso， among pregnant females (15-40 years old) enrolled at s of gestation. Mothers received either MMN-fortified BEP and IFA (intervention) or IFA only (control) throughout pregnancy. Whole arterial blood samples were collected from the umbilical cord of 104 control and 90 intervention group infants， respectively. Average relative TL and mtDNAc were measured using quantitative polymerase chain reaction. Linear regression models were fitted to assess TL and mtDNAc differences across trial arms. Results: We found that a combined daily MMN-fortified BEP supplement and IFA tablet did not affect newborn TL [β = -0.010 (95% CI: -0.057， 0.036); P = 0.662] or mtDNAc [β = 0.065 (95% CI: -0.203， 0.073); P = 0.354]， as compared to an IFA tablet alone. These findings were confirmed (P > 0.05) by adjusting the regression models for potential prognostic factors of study outcomes at enrollment. Exploratory analyses indicated higher， but non-significantly different mtDNAc among children born either small-for-gestational age， low birthweight， or preterm. Conclusions: Newborns from mothers who received daily nutritional supplements across gestation did not have different relative TL or mtDNAc.

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structural Controls Analysis and Its Correlation with Geothermal Occurrence at Barrier Volcanic Complex (BVC), Turkana, Kenya

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International Journal of Geosciences 2024年第3期15卷 231-245页

作者： Philip Lomorukai Emekwi Nicholas O. Mariita patrick Chege Kariuki Geothermal Training and Research Institute (GeTRI) Dedan Kimathi University of Technology Nyeri Kenya

Geothermal is a clean energy source that is freely available in the subsurface. The exploitation of this vital resource needs intensive exploration in order to identify and quantify its occurrence. The three parameters considered when assessing the viability of a geothermal system include;heat source, fractures and fluids. Geological structures are important in transportation of fluids to and from the heat source aiding in recharge of the geothermal system and enhancing productivity. Remote sensing method was applied in mapping the structures at Barrier Volcanic Complex (BVC) by using hill shading technique which utilized four illumination angles of the sun (azimuth) i.e. 45°, 90°, 150°, and 315°, constant elevation of 45° and exaggeration of 10. The data used was shuttle Radar Topographic Mission (sRTM) satellite Imagery. ArcGIs software was used for lineaments delineation and density mapping, PCI Geomatica was used to generate major faults, while Georose and Rockworks 17 were used to generate the rose diagrams. Geological structural analysis was done by delineating lineaments, determining the density distribution of lineaments and finally determining the structural trends of lineaments. The generated major faults in the area and the location of the occurrence of surface manifestations were compared with the generated lineaments. A total of 260 lineaments were generated whereby at 45° there was a total of 60 lineaments, at 90° 95 lineaments, at 150° 61 lineaments, and at 315° 44 lineaments. The results of structural analysis in the area as shown by the rose diagrams indicate an NNE-ssW and N-s trending of structures. In conclusion, the study area is highly fractured as indicated by the presence of numerous lineaments. These lineaments provide good recharge to the geothermal system and enhance the geothermal reservoir in the area.

关键词： Geothermal Resource Lineaments Lineaments Density structural Controls

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Landscape of global urban environmental resistome and its association with local socioeconomic and medical status

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science China(Life sciences) 2024年第6期67卷 1292-1301页

作者： Jun Wu Yige Hu Michael H Perlin David Danko Jun Lu Manuela Oliveira Johannes Werner Maria M Zambrano Maria A sierra Olayinka O Osuolale Paweł Łabaj Nicolás Rascovan Nur Hazlin Hazrin-Chong soojin Jang Haruo suzuki Marina Nieto-Caballero Bharath Prithiviraj patrick K H Lee Agnieszka Chmielarczyk Anna Różańska Yongxiang Zhao Lan Wang Christopher E Mason Tieliu shi Center for Bioinformatics and Computational Biology and the Institute of Biomedical SciencesSchool of Life SciencesEast China Normal UniversityShanghai 200241China Department of Biology Program on Disease EvolutionUniversity of LouisvilleLouisville 40292USA Weill Cornell Medicine New York 10065USA The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine New York 10065USA Department of Pulmonary Medicine Shanghai Chest HospitalShanghai Jiao Tong UniversityShanghai 200025China i3s-Instituto de Investiga玢o e Inova玢o em saúde Universidade do PortoPorto 4050-290Portugal Ipatimup-Instituto de Patologia e Imunologia Molecular da Universidade do Porto Porto 4200-465Portugal Departamento de Biologia Faculdade de CiênciasUniversidade do PortoPorto 4050-290Portugal High Performance and Cloud Computing Group Zentrum für Datenverarbeitung(ZDV)Eberhard Karls University of TübingenW鋍hterstra遝7672074TübingenGermany Corporación Corpogen Research Center Bogotá110311Colombia Applied Environmental Metagenomics and Infectious Diseases Research(AEMIDR) Department of Biological SciencesElizade UniversityIlara-Mokin 340271Nigeria Maopolska Centre of Biotechnology Jagiellonian UniversityKraków 30-005Poland Aix-Marseille Université Mediterranean Institute of OceanologyUniversitéde ToulonCNRSIRDUM 110Marseille 83041France Department of Biological sciences and Biotechnology Faculty of Science and TechnologyUniversiti Kebangsaan Malaysia43600 UKM BangiSelangor Institut Pasteur Korea Seoul 13488Republic of Korea Faculty of Environment and Information studies Keio UniversityFujisawaKanagawa 252-0882Japan University of Colorado at Boulder CivilEnvironmental and Architectural DepartmentBoulder 80303USA Brooklyn College of the City University of New York Brooklyn 11210USA school of Energy and Environment City University of Hong KongHong Kong 999077China Department of Microbiology Faculty of MedicineJagiellonian UniversityKraków 30-005Poland Biological Targeting Diagnosis and The

Antimicrobial resistance(AMR)poses a critical threat to global health and development,with environmental factors—particularly in urban areas—contributing significantly to the spread of antibiotic resistance genes(ARGs).However,most research to date has been conducted at a local level,leaving significant gaps in our understanding of the global status of antibiotic resistance in urban *** address this issue,we thoroughly analyzed a total of 86,213 ARGs detected within 4,728 metagenome samples,which were collected by the Meta sUB International Consortium involving diverse urban environments in 60 cities of 27 countries,utilizing a deep-learning based *** findings demonstrated the strong geographical specificity of urban environmental resistome,and their correlation with various local socioeconomic and medical *** also identified distinctive evolutionary patterns of ARG-related biosynthetic gene clusters(BGCs)across different countries,and discovered that the urban environment represents a rich source of novel *** study provides a comprehensive overview of the global urban environmental resistome,and fills a significant gap in our knowledge of large-scale urban antibiotic resistome analysis.

关键词： urban environment metagenome antibiotic resistance resistance diversity biosynthetic gene clusters

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Diversity and connectedness of brine shrimp viruses in global hypersaline ecosystems

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science China(Life sciences) 2024年第1期67卷 188-203页

作者： Xuan Dong Cixiu Li Yiting Wang Tao Hu Fan Zhang Fanzeng Meng Meirong Gao Xuekai Han Guohao Wang Jiahao Qin Hans Nauwynck Edward CHolmes patrick.s.rgeloos Liying sui Jie Huang Weifeng shi state Key Laboratory of Mariculture Biobreeding and sustainable Goods Yellow Sea Fisheries Research InstituteChinese Academy of Fishery SciencesLaboratory for Marine Fisheries Science and Food Production ProcessesLaoshan LaboratoryKey Laboratory of Maricultural Organism Disease ControlMinistry of Agriculture and Rural AffairsQingdao Key Laboratory of Mariculture Epidemiology and BiosecurityQingdao 266071China shandong Provincial Hospital Affiliated to shandong First Medical University Jinan 250021China Key Laboratory of Emerging Infectious Diseases in Universities of shandong Shandong First Medical University&Shandong Academy of Medical SciencesTaian 271000China Dalian Ocean University Dalian 116023China Asian Regional Artemia Reference Center Tianjin University of Science&TechnologyTianjin 300457China Ghent University Ghent 9000Belgium sydney Institute for Infectious Diseases School of Medical SciencesThe University of SydneySydney 2006Australia Network of Aquaculture Centres in Asia-Pacific Bangkok 10900Thailand school of Public Health Shandong First Medical University&Shandong Academy of Medical SciencesJinan 250117China

Brine shrimp(Artemia)has existed on Earth for 400 million years and has major ecological importance in hypersaline *** a crucial live food in aquaculture,brine shrimp cysts have become one of the most important aquatic products traded ***,our understanding of the biodiversity,prevalence and global connectedness of viruses in brine shrimp is still very limited.A total of 143 batches of brine shrimp(belonging to seven species)cysts were collected from six continents including 21 countries and more than 100 geographic locations worldwide during 1977–*** total,55 novel RNA viruses were identified,which could be assigned to 18 different viral families and related *** viruses were dsRNA viruses,16 were+ssRNA viruses,and 28 were−ssRNA *** analyses of the RNA-directed RNA polymerase(RdRp)showed that brine shrimp viruses were often grouped with viruses isolated from other invertebrates and ***,most brine shrimp viruses were related to those from different hosts that might feed on brine shrimp or share the same ecological niche.A notable case was the novel brine shrimp noda-like virus 3,which shared 79.25%(RdRp)and 63.88%(capsid proteins)amino acid identity with covert mortality nodavirus(CMNV)that may cause losses in *** addition,both virome composition and phylogenetic analyses revealed global connectedness in certain brine shrimp viruses,particularly among Asia and Northern *** highlights the incredible species diversity of viruses in these ancient species and provides essential data for the prevalence of RNA viruses in the global aquaculture *** broadly,these findings provide novel insights into the previously unrecognized RNA virosphere in hypersaline ecosystems worldwide and demonstrate that human activity might have driven the global connectedness of brine shrimp viruses.

关键词： brine shrimp Artemia virus diversity novel virus discovery global connectedness hypersaline ecosystem

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Investigation of Acoustomagnetoelectric Effect in Bandgap Graphene by the Boltzmann Transport Equation

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World Journal of Condensed Matter Physics 2024年第1期14卷 10-20页

作者： Raymond Edziah samuel s. Bentsiefi Kwadwo Dompreh Anthony Twum Emmanuel Kofi Amewode patrick Mensah-Amoah Ebenezer T. Tatchie Cynthia Jebuni-Adanu samuel Y. Mensah Department of Physics University of Cape Coast Cape Coast Ghana Department of Physics Education University of Education Winneba Ghana

We study the acoustomagnetoelectric (AME) effect in two-dimensional graphene with an energy bandgap using the semiclassical Boltzmann transport equation within the hypersound regime, (where represents the acoustic wavenumber and is the mean free path of the electron). The Boltzmann transport equation and other relevant equations were solved analytically to obtain an expression for the AME current density, consisting of longitudinal and Hall components. Our numerical results indicate that both components of the AME current densities display oscillatory behaviour. Furthermore, geometric resonances and Weiss oscillations were each defined using the relationship between the current density and surface Acoustic Wave (sAW) frequency and the inverse of the applied magnetic field, respectively. Our results show that the AME current density of bandgap graphene, which can be controlled to suit a particular electronic device application, is smaller than that of (gapless) graphene and is therefore, more suited for nanophotonic device applications.

关键词： Boltzmann Transport Equation Acoustomagnetoelctric Effect surface Acoustic Wave Gapless Graphene Weiss Oscillations

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The Influence of Biomass Cokes on the Microstructure and Thermal shock Resistance of MgO-C Refractories

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China's Refractories 2024年第3期33卷 9-14页

作者： patrick GEHRE Magzhan KAPEssOV stefan GUHL Martin GRÄBNER Christos G.ANEZIRIs Institute of Ceramics Refractories and Composite MaterialsTU Bergakademie FreibergFreiberg 09599Germany Institute of Energy Process Engineering and Chemical Engineering TU Bergakademie FreibergFreiberg 09599Germany

In this study,biomass cokes from sunflower seed hull(sFsH)and wood pellets(WP)were added to a MgO-C batch(3 mass%C)to replace 1.1 mass%of *** hardening and carbonizing the samples,the influence of the biomass cokes on the microstructure and thermal shock resistance was *** replacement of flaky graphite by carbonized WP and sFsH reduced the bulk density and increased the apparent porosity after pressing and carbonization,but the degree was only *** was confirmed by sEM investigations,where the biomass-coke containing samples exhibited a microstructure with a higher amount of pores between the fine MgO *** thermal shock resistance of the porous wood pellet coke containing MgO-C is at the same level as the reference sample but not superior to it.

关键词： MgO-C carbon biomass microstructure thermal shock

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Cardiac surgery at Yaoundé General Hospital by a Local Team: Activity Report from september 2022 to January 2024

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World Journal of Cardiovascular surgery 2024年第6期14卷 87-94页

作者： Laurence Carole Ngo Yon Charles Mve Mvondo Hermann Nestor Tsague Kengni Zephanie Kobe Fokalbo sépolin Lowe Mireille Dakleu Alain patrick Menanga William Ngatchou Djomo Vincent De Paul Djientcheu Department of Cardiothoracic and Vascular surgery Yaound General Hospital Yaound Cameroon Department of surgery and specialities Faculty of Medicine and Pharmaceutical Sciences University of Douala Douala Cameroon Department of Clinical sciences Faculty of Medicine and Pharmaceutical Sciences University of Douala Douala Cameroon Department of Clinical sciences Faculty of Medicine and Biomedical Sciences University of Yaound Yaound Cameroon Department of surgery and specialities Faculty of Medicine and Biomedical Sciences University of Yaound Yaound Cameroon

Introduction: The practice of cardiac surgery (Cs) in sub-saharan Africa faces a number of challenges. We report on the surgical activities of the first 17 months of the program launched at the Yaoundé General Hospital (YGH), describing the types of interventions and the early results. Patients and Methods: This was a descriptive cross-sectional study including patients who underwent Cs from september 2022 to January 2024 at the YGH. Clinical, operative and postoperative data were collected and analysed retrospectively by R software. Results: A total of 37 patients underwent Cs during the study period, divided into 23 (62.2%) open-heart and 14 (37.8%) closed-heart cases. Males predominated (sex ratio 1.17). The median age and interquartile range (IQR) were 36 years (9 - 51). Isolated valve surgery, in 15 (40.5%) cases, was the most common procedure in open-heart surgery cases. Closed-heart surgery involved closure of the patent ductus arteriosus in 9 (24.3%) cases, coronary artery bypass grafting in 3 (8.1%) cases, and pericardectomy in 2 (5.4%) cases. The median duration of extracorporeal circulation and aortic cross-clamping was 101 min (IQR 84 - 143) and 74 min (IQR 54 - 112) respectively. The median duration of mechanical ventilation was 2 hours (IQR 2 - 3). The median intensive care unit stay and median hospital stay were 2 days (IQR 2 - 3) and 7 days (IQR 5 - 8) respectively. Operative mortality was 2 (5.4%). Conclusion: Cardiac surgery remains a major challenge for African populations. The early results achieved by the local team are satisfactory. An increase in surgical activity should be strongly encouraged to facilitate local training and ensure the sustainability of the activity.

关键词： Cardiac surgery sub-saharan Africa Cameroon

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