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The genome-wide meiotic recombination landscape in ciliates and its implications for crossover regulation and genome evolution

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Journal of Genetics and Genomics 2024年第3期51卷 302-312页

作者： Lu Fu Chen Gu Kazufumi Mochizuki Jie Xiong Wei Miao Guangying Wang Key Laboratory of Aquatic Biodiversity and Conservation Institute of HydrobiologyChinese Academy of SciencesWuhanHubei 430072China University of Chinese Academy of sciences Beijing 100049China Institute of Human Genetics(IGH) CNRSUniversity of Montpellier34396 MontpellierFrance Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture Chinese Academy of SciencesWuhanHubei 430072China Key Laboratory of Lake and Watershed Science for Water Security Chinese Academy of SciencesNanjingJiangsu 210008China

Meiotic recombination is essential for sexual reproduction and its regulation has been extensively studied in many ***,genome-wide recombination landscape has not been reported in ciliates and it remains unknown how it is affected by the unique features of ciliates:the synaptonemal complex(SC)-independent meiosis and the nuclear ***,we show the recombination landscape in the model ciliate Tetrahymena thermophila by analyzing single-nucleotide polymorphism datasets from 38 hybrid *** detect 1021 crossover(CO)events(35.8 per meiosis),corresponding to an overall CO rate of 9.9 cM/***,gene conversion by non-crossover is rare(1.03 per meiosis)and not biased towards G or C *** with the reported roles of SC in CO interference,we find no obvious sign of CO *** tends to occur within germ-soma common genomic regions and many of the 44 identified CO hotspots localize at the centromeric or subtelomeric *** ontology analyses show that CO hotspots are strongly associated with genes responding to environmental *** discuss these results with respect to how nuclear dimorphism has potentially driven the formation of the observed recombination landscape to facilitate environmental adaptation and the sharing of machinery among meiotic and somatic recombination.

关键词： Meiotic recombination Hotspot Crossover interference Adaptive evolution

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Could near infrared spectroscopy be the new weapon in our understanding of the cerebral and muscle microvascular oxygen demand during exercise?

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Journal of Sport and Health Science 2024年第4期13卷 457-458页

作者： Stephane Perrey EuroMov Digital Health in Motion University of MontpellierIMT Mines AlesMontpellier 34090France

Near-infrared spectroscopy(NIRS)has been increasingly utilized in both sport and health sciences to assess various physiological parameters related to exercise performance.1 NIRS methods coupled with the recent development of portable and wearable devices suitable for field-based measurements have revolutionized the study of exercise physiology and the determinants of exercise performance by providing real-time,non-invasive,and spatially localized measurements of tissue oxygenation dynamics.

关键词： cerebral utilized exercise

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Sex-specific life-history trait expression in hybrids of a cave- and surface-dwelling fish (Poecilia mexicana, Poecilidae)

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Current Zoology 2024年第4期70卷 421-429页

作者： Rüdiger Riesch Luis R.Arriaga Ingo Schlupp Department of Biological sciences Royal Holloway University of LondonEghamTW20 OEXUK CEFE CNRSUnivMontpellierEPHEIRDMontpellierFrance Department of Biology University of OklahomaNormanOK 73019USA

Evaluating the fitness of hybrids can provide important insights into genetic differences between species or diverging *** focused on surface-and cave-ecotypes of the widespread Atlantic molly Poecilia mexicana and raised F1 hybrids of reciprocal crosses to sexual maturity in a common-garden *** were reared in a fully factorial 2 x 2 design consisting of lighting(light ***)and resource availability(high *** food).We quantified survival,ability to realize their full reproductive potential(i.e.,completed maturation for males and 3 consecutive births for females)and essential life-history *** to the performance of pure cave and surface fish from a previous experiment,F1s had the highest death rate and the lowest proportion of fish that reached their full reproductive *** also uncovered an intriguing pattern of sex-specific phenotype expression,because male hybrids expressed cave molly life histories,while female hybrids expressed surface molly life *** results provide evidence for strong selection against hybrids in the cave molly system,but also sug-gest a complex pattern of sex-specific(opposing)dominance,with certain surface molly genes being dominant in female hybrids and certain cavemollygenes beingdominant in malehybrids.

关键词： dominance life-history evolution local adaptation postzygotic isolation selection against hybrids.

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Remote sensing of quality traits in cereal and arable production systems:A review

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The Crop Journal 2024年第1期12卷 45-57页

作者： Zhenhai Li Chengzhi Fan Yu Zhao Xiuliang Jin Raffaele Casa Wenjiang Huang Xiaoyu Song Gerald Blasch Guijun Yang James Taylor Zhenhong Li College of Geodesy and Geomatics Shandong University of Science and TechnologyQingdao 266590ShandongChina Key Laboratory of Quantitative Remote Sensing in Ministry of Agriculture and Rural Affairs Information Technology Research CenterBeijing Academy of Agriculture and Forestry SciencesBeijing 100097China Institute of Crop sciences Chinese Academy of Agricultural Sciences/Key Laboratory of Crop Physiology and EcologyMinistry of Agriculture and Rural AffairsBeijing 100081China DAFNE Universitàdella TusciaVia San Camillo de Lellis01100 ViterboItaly Key Laboratory of Digital Earth Science Aerospace Information Research InstituteChinese Academy of SciencesBeijing 100094China International Maize and Wheat Improvement Center(CIMMYT) PO Box 5689Addis AbabaEthiopia ITAP Univ.MontpellierINRAEInstitut AgroMontpellier 34000France College of Geological Engineering and Geomatics Chang’an UniversityXi’an 710054ShaanxiChina

Cereal is an essential source of calories and protein for the global *** predicting cereal quality before harvest is highly desirable in order to optimise management for farmers,grading harvest and categorised storage for enterprises,future trading prices,and policy *** use of remote sensing data with extensive spatial coverage demonstrates some potential in predicting crop quality *** studies have also proposed models and methods for predicting such traits based on multiplatform remote sensing *** this paper,the key quality traits that are of interest to producers and consumers are *** literature related to grain quality prediction was analyzed in detail,and a review was conducted on remote sensing platforms,commonly used methods,potential gaps,and future trends in crop quality *** review recommends new research directions that go beyond the traditional methods and discusses grain quality retrieval and the associated challenges from the perspective of remote sensing data.

关键词： Remote sensing Quality traits Grain protein Cereal

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Application of near-infrared spectroscopy for fast germplasm analysis and classification in multi-environment using intact-seed peanut(Arachis hypogaea L.)

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Oil Crop Science 2024年第2期9卷 132-141页

作者： Fentanesh Chekole Kassie Gilles Chaix Hermine Bille Ngalle Maguette Seye Coura Fall Hodo-Abalo Tossim Aissatou Sambou Olivier Gibert Fabrice Davrieux Joseph Martin Bell Jean-Francois Rami Daniel Fonceka Joel Romaric Nguepjop Department of Plant Biology and Physiology Faculty of SciencesUniversity of Yaounde IYaoundeP.O.Box 337Cameroon Department of Plant Science College of AgricultureWolaita Sodo UniversitySodoP.O.Box 138Ethiopia CIRAD UMR AGAP InstitutMontpellierFrance AGAP Institut Univ MontpellierCIRADINRAEInstitut AgroMontpellierFrance ChemHouse Research Group MontpellierFrance Centre D’Etudes Regional Pour L’Amelioration de L’Adaptation a La Secheresse(CERAAS/ISRA) Route de KhomboleThiesBP 3320Senegal Dispositif de Recherche et de Formation en Partenariat Innovation et Amelioration Varietale en Afrique de L’Ouest(IAVAO)CERAASRoute de KhomboleThiesBP 3320Senegal CIRAD UMR QUALISUDSaint PierreFrance

Peanut is a worldwide oilseed crop and the need to assess germplasm in a non-destructive manner is important for seed nutritional *** this study,Near Infrared Spectroscopy(NIRS)was applied to rapidly assess germplasm variability from whole seed of 699 samples,field-collected and assembled in four genetic and environmentbased sets:one set of 300 varieties of a core-collection and three sets of 133 genotypes of an interspecific population,evaluated in three environments in a large spatial scale of two countries,Mbalmayo and Bafia in Cameroon and Nioro in Senegal,under rainfed *** elemental spectra were gathered on six subsets of seeds of each sample,after three rotation scans,with a spectral resolution of 16 cm-1over the spectral range of867 nm to 2530 *** were then processed by principal component analysis(PCA)coupled with Partial least squares-discriminant analysis(PLS-DA).As results,a huge variability was found between varieties and genotypes for all NIR wavelength within and between *** magnitude of genetic variation was particularly observed at 11 relevant wavelengths such as 1723 nm,usually related to oil content and fatty acid *** yielded the most chemical attributes in three significant PCs(i.e.,eigenvalues>10),which together captured 93%of the total variation,revealing genetic and environment structure of varieties and genotypes into four clusters,corresponding to the four samples *** pattern of genetic variability of the interspecific population covers,remarkably half of spectrum of the core-collection,turning out to be the ***,a PLS-DA model was developed and a strong accuracy of 99.6%was achieved for the four sets,aiming to classify each seed sample according to environment *** confusion matrix achieved for the two sets of Bafia and Nioro showed 100%of instances classified correctly with 100%at both sensitivity and specificity,confirming that their seed quality was different f

关键词： Groundnut Oilseed Near infrared spectroscopy Germplasm analysis Environment Nutritional Breeding

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The interactive effect of temperature and fertilizer types determines the dominant microbes in nitrous oxide emissions and the dicyandiamide efﬁcacy in a vegetable soil

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Soil Ecology Letters 2024年第3期6卷 121-133页

作者： Xiaoya Xu Haiyang Liu Yaowei Liu Didier Lesueur Laetitia Herrmann Hongjie Di Caixian Tang Jianming Xu Yong Li Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment College of Environmental and Resource SciencesZhejiang UniversityHangzhou 310058China College of Geography and Environment Shandong Normal UniversityJinan 250014China Centre de Coopération Internationale en Recherche Agronomique pour le Développement(CIRAD) UMR Eco&SolsHanoiVietnam Eco&Sols Universitéde Montpellier(UMR)CIRADInstitut National de Recherche pour l’Agriculturel’Alimentation et l’Environnement(INRAE)Institut de Recherche pour le Développement(IRD)Montpellier SupAgro34060 MontpellierFrance Alliance of Biodiversity International and International Center for Tropical Agriculture(CIAT) Asia hubCommon Microbial Biotechnology Platform(CMBP)HanoiVietnam School of Life and Environmental sciences Faculty of ScienceEngineering and Built Environment–Deakin UniversityMelbourneVIC 3125Australia Rubber Research Institute Chinese Academy of Tropical Agricultural SciencesHaikou 571737China La Trobe Institute for Sustainable Agriculture and Food Department of AnimalPlant&Soil SciencesLa Trobe UniversityBundooraVic 3086Australia

Heat waves associated with global warming and extreme climates would arouse serious consequences on nitrogen(N)***,the responses of the functional guilds to different temperatures,especially high temperature and the cascading effect on N_(2)O emissions remain *** incubation study was conducted to examine the effect of different temperatures(20°C,30°C,and 40°C)and fertilizer types(urea and manure)on N_(2)O-producers and N_(2)O-reducers,as well as the efficacy of dicyandiamide(DCD)on N_(2)O emissions in a vegetable *** showed that ammonia oxidizers and nirS-type denitrifiers were well adapted to high temperature(40°C)with manure application,while the fungal nirK-denitrifiers had better tolerance with urea *** nosZ clade I microbes had a strong adaptability to various temperatures regardless of fertilization type,while the growth of nosZ clade II group microbes in non-fertilized soil(control)were significantly inhibited at higher *** N_(2)O emissions were significantly decreased with increasing temperature and DCD application(up to 60%,even at 40°C).Under high temperature conditions,fungal denitrifiers play a significant role in N-limited soils(non-fertilized)while nirS-type denitrifiers was more important in fertilized soils in N_(2)O emissions,which should be specially targeted when mitigating N_(2)O emissions under global warming climate.

关键词： nitrogen fertilizer microorganisms nitrification inhibitor bacteria archaea fungi

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Volumetric lattice Boltzmann method for pore-scale mass diffusionadvection process in geopolymer porous structures

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Journal of Rock Mechanics and Geotechnical Engineering 2024年第6期16卷 2126-2136页

作者： Xiaoyu Zhang Zirui Mao Floyd W.Hilty Yulan Li Agnes Grandjean Robert Montgomery Hans-Conrad zur Loye Huidan Yu Shenyang Hu Purdue University IndianapolisIN46202USA Pacific Northwest National Laboratory RichlandWA99352USA CEA DESISECDMRCUniv.MontpellierMarcouleFrance Department of Chemistry and Biochemistry University of South CarolinaColumbiaSC29208USA

Porous materials present significant advantages for absorbing radioactive isotopes in nuclear waste *** improve absorption efficiency in nuclear waste treatment,a thorough understanding of the diffusion-advection process within porous structures is essential for material *** this study,we present advancements in the volumetric lattice Boltzmann method(VLBM)for modeling and simulating pore-scale diffusion-advection of radioactive isotopes within geopolymer porous *** structures are created using the phase field method(PFM)to precisely control pore *** our VLBM approach,we introduce a concentration field of an isotope seamlessly coupled with the velocity field and solve it by the time evolution of its particle population *** address the computational intensity inherent in the coupled lattice Boltzmann equations for velocity and concentration fields,we implement graphics processing unit(GPU)*** of the developed model involves examining the flow and diffusion fields in porous ***,good agreement is observed for both the velocity field from VLBM and multiphysics object-oriented simulation environment(MOOSE),and the concentration field from VLBM and the finite difference method(FDM).Furthermore,we investigate the effects of background flow,species diffusivity,and porosity on the diffusion-advection behavior by varying the background flow velocity,diffusion coefficient,and pore volume fraction,***,all three parameters exert an influence on the diffusion-advection *** background flow and diffusivity markedly accelerate the process due to increased advection intensity and enhanced diffusion capability,***,increasing the porosity has a less significant effect,causing a slight slowdown of the diffusion-advection process due to the expanded pore *** comprehensive parametric study provides valuable insights into the kinetics of isotope

关键词： Volumetric lattice Boltzmann method(VLBM) Phase field method(PFM) Pore-scale diffusion-advection Nuclear waste treatment Porous media flow Graphics processing unit(GPU) parallelization

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Fluctuating Asymmetry of Elopes lacerta (Valenciennes, 1847) Otoliths in the Western African Waters

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Open Journal of Marine Science 2024年第3期14卷 41-62页

作者： Madel Floriane Adjibayo Houeto Marwa Mejri Malek Tazarki Marius Sounouvou Nicolas Andrialovanirina Meriem Ben Ghorbel Pierre Dossou-Yovo Abdellah Chalh Pierre Quignard Monia Trabelsi Kélig Mahé Laboratory of Ecology Biology and Physiology of Aquatic Organisms Faculty of Sciences of Tunis University of Tunis El Manar Tunis Tunisia Institute of Mathematics and Physical sciences University of Abomey-Calavi (UAC) Abomey-Calavi Benin IFREMER Unit HMMN Halieutic Resources Laboratory Boulogne-sur-Mer France Laboratory for Research into the Processing and Conservation of Fishery Products (LAREPROH) University of Abomey-Calavi (UAC) Abomey-Calavi Benin Unit of Population Genetics and Biological Resources Faculty of Sciences of Tunis University of Tunis El Manar Tunis Tunisia Laboratoire dIchtyologie Universit Montpellier Montpellier France

The importance of this study lies in the in-depth exploration of the ecological diversity of otoliths in Elopes lacerta, based on the analysis of data from 260 individuals collected from various sites, including the Porto Novo lagoon, the Cotonou lagoon, Lake Nokou, and the Atlantic coast in southern Benin. The results highlight significant variations in otolith morphology, establishing relevant links with the biological parameters of the fish at each site. Exploration of the asymmetry between the right and left sides reveals notable distinctions between these two aspects. Analysis of otolith shape thus emerges as a valuable tool for discriminating between stocks and providing a better understanding of ecological variations. The local diversity observed highlights the crucial importance of implementing adaptive management strategies to ensure effective conservation of the species and its habitat.

关键词： Analysis Porto-Novo Lagoon Cotonou Lagoon Lake Nokoué Coast Atlantic

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Mitogenomic phylogeny,biogeography,and cryptic divergence of the genus Silurus(Siluriformes:Siluridae)

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Zoological Research 2024年第4期45卷 711-723页

作者： Weitao Chen Nicolas Hubert Yuefei Li Shuli Zhu Jun Wang Denggao Xiang Shang Gao Chunni Kou Jilong Wang Tai Wang Zhiqiang Liang Junjie Wu Xinhui Li Jie Li Pearl River Fisheries Research Institute Chinese Academy of Fishery SciencesGuangzhouGuangdong 510380China China Key Laboratory of Aquatic Animal Immune Technology of Guangdong Province GuangzhouGuangdong 510380China Key Laboratory of Prevention and Control for Aquatic Invasive Alien Species Ministry of Agriculture and Rural AffairsGuangzhouGuangdong 510380China Scientific Observing and Experimental Station of National Fisheries Resources and Environment GuangzhouGuangdong 510380China Institut de Recherche pour le Développement MontpellierUMR 226 ISEM(UM-CNRS-IRD)France State Key Laboratory of Eco-hydraulic in Northwest Arid Region of China Xi’an University of TechnologyXi’anShaanxi 710048China Heilongjiang River Fisheries Research Institute Chinese Academy of Fishery SciencesHarbinHeilongjiang 150076China Gansu Fisheries Research Institute LanzhouGansu 730030China Hunan Fisheries Science Institute ChangshaHunan 410153China Yunnan Institute of Fishery sciences Research KunmingYunnan 650111China

The genus Silurus,an important group of catfish,exhibits heterogeneous distribution in Eurasian freshwater *** group includes economically important and endangered species,thereby attracting considerable scientific *** this interest,the lack of a comprehensive phylogenetic framework impedes our understanding of the mechanisms underlying the extensive diversity found within this ***,we analyzed 89 newly sequenced and 20 previously published mitochondrial genomes(mitogenomes)from 13 morphological species to reconstruct the phylogenetic relationships,biogeographic history,and species diversity of *** phylogenetic reconstructions identified eight clades,supported by both maximum-likelihood and Bayesian ***-based species delimitation analyses yielded multiple molecular operational taxonomic units(MOTUs)in several taxa,including the Silurus asotus complex(four MOTUs)and Silurus microdorsalis(two MOTUs),suggesting that species diversity is underestimated in the genus.A reconstructed time-calibrated tree of Silurus species provided an age estimate of the most recent common ancestor of approximately 37.61 million years ago(Ma),with divergences among clades within the genus occurring between 11.56 Ma and 29.44 Ma,and divergences among MOTUs within species occurring between 3.71 Ma and 11.56 *** reconstructions suggested that the ancestral area for the genus likely encompassed China and the Korean Peninsula,with multiple inferred dispersal events to Europe and Central and Western Asia between 21.78 Ma and 26.67 Ma and to Japan between 2.51 Ma and 18.42 *** factors such as the Eocene-Oligocene extinction event,onset and intensification of the monsoon system,and glacial cycles associated with sea-level fluctuations have likely played significant roles in shaping the evolutionary history of the genus Silurus.

关键词： Maximum likelihood Bayesian inferences Ancestral area estimation Cryptic diversity Dispersal pathways Mitogenomes Sea levels

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Molecular Detection of Pathogens Involved in Sexually Transmitted Infections in Brazzaville, Congo

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Open Journal of Medical Microbiology 2024年第3期14卷 190-205页

作者： Jeanine Mireille Sita Maboundou Bitsi Nina Esther Ngoyi Ontsira Edith Sophie Kombo Bayonne Tanguy Mieret Geril Sekangue Obili Herlen Tsoumou Lina Foungou Kessengue Samantha Potokoue Mpia Chloé Dupont Guilhem Conquet Gickel Mpika Bitsene Bienvenu Roland Ibara Ossibi Axel Aloumba Etienne Nguimbi Sylvain Godreuil Faculty of sciences and Technology Marien NGOUABI University Brazzaville Republic of the Congo Faculty of Health sciences Marien NGOUABI University Brazzaville Republic of the Congo Bacteriology-Virology Laboratory University Hospital Center Brazzaville Republic of the Congo Department of Infectious Diseases Referral Hospital Center of Talanga Brazzaville Republic of the Congo Parasitology-Mycology Laboratory University Hospital Center Brazzaville Republic of the Congo Department of Gynecology-Obstetrics University Hospital Center Brazzaville Republic of the Congo UMR IRD224-CNRS5290-UM MIVEGEC Infectious Diseases and Vectors: Ecology Genetics Evolution and Control CREES (Reshearch Center in Ecology and Evolution Health) Montpellier France Bacteriology Laboratory Arnaud de Villeneuve University Hospital CHU of Montpellier Montpellier France Department of Infectious Diseases University Hospital Center Brazzaville Republic of the Congo

The objective of this multicentric study was to assess the prevalence of Chlamydia trachomatis, Neisseria gonorrhoeae, Mycoplasma génitalium and Trichomonas vaginalis infections in Brazzaville, in the Republic of Congo, using molecular methods. From January to December 2021, the sexually transmitted disease risk participants were recruited from six centers: The Association of Young HIV-Positive People of Congo, The Congolese Association for Family Welfare, The Association for Support to Vulnerable Groups, Talangaï hospital, Brazzaville university hospital (outpatient service) and the private clinic COGEMO (outpatient service). The real-time multiplex PCR was carried out to detect these pathogens. Each patient had at least one specimen (urine, urethral, anal and/or vaginal samples). The patients were considered infected when one of their samples was positive. 287 participants made of 227 women and 60 men were tested. The general prevalence of these infections was: Chlamydia trachomatis 2.79%, Neisseria gonorrhoeae 3.14%, Mycoplasma génitalium 3.45% and Trichomonas vaginalis 2.97. The prevalence rates according to sex were: C. trachomatis, M. génitalium, N. gonorrhea and T. vaginalis were 1.32%, 2.05%, 1.32% and 3.42% in women and 8.33%, 7.02%, 10% and 1.75% in men, respectively. Most infected patients were asymptomatic. Prevalence rates were higher in bisexual individuals, with the exception of T. vaginalis which showed higher prevalence in heterosexual patients. The bisexual and homosexual individuals represent a major public health problem in sexually active young adults, particularly among men having sex with men. These sexually transmitted infections are mainly asymptomatic, their diagnosis and management remain difficult in developing countries.

关键词： Prevalence Chlamydia trachomatis Neisseria gonorrhoeae Mycoplasma génitalium Trichomonas vaginalis

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