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Evaluating the potential of(epi)genotype‑by‑low pass nanopore sequencing in dairy cattle:a study on direct genomic value and methylation analysis

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Journal of Animal Science and Biotechnology 2023年第6期14卷 2276-2289页

作者： Oscar Gonzalez‑Recio Adrian Lopez‑Catalina ramon peiro‑pastor Alicia Nieto‑Valle Monica Castro Almudena Fernandez Dpt.Mejora Genetica Animal INIA-CSICCtra La Coruna Km 7.528040 MadridSpain. ETSIAAB Universidad Politecnica de Madrid.Ciudad Universitaria S/N28040 MadridSpain.

Background Genotype-by-sequencing has been proposed as an alternative to SNP genotyping arrays in genomic selection to obtain a high density of markers along the genome.It requires a low sequencing depth to be cost effective,which may increase the error at the genotype assigment.Third generation nanopore sequencing technology offers low cost sequencing and the possibility to detect genome methylation,which provides added value to genotype-by-sequencing.The aim of this study was to evaluate the performance of genotype-by-low pass nanopore sequencing for estimating the direct genomic value in dairy cattle,and the possibility to obtain methylation marks simultaneously.Results Latest nanopore chemistry(LSK14 and Q20)achieved a modal base calling accuracy of 99.55%,whereas previous kit(LSK109)achieved slightly lower accuracy(99.1%).The direct genomic value accuracy from genotype-by-low pass sequencing ranged between 0.79 and 0.99,depending on the trait(milk,fat or protein yield),with a sequencing depth as low as 2×and using the latest chemistry(LSK114).Lower sequencing depth led to biased estimates,yet with high rank correlations.The LSK109 and Q20 achieved lower accuracies(0.57-0.93).More than one million high reliable methylated sites were obtained,even at low sequencing depth,located mainly in distal intergenic(87%)and promoter(5%)regions.Conclusions This study showed that the latest nanopore technology in useful in a LowPass sequencing framework to estimate direct genomic values with high reliability.It may provide advantages in populations with no available SNP chip,or when a large density of markers with a wide range of allele frequencies is needed.In addition,low pass sequencing provided nucleotide methylation status of>1 million nucleotides at≥10×,which is an added value for epigenetic studies.

关键词： Genomic selection Genomic values Low pass sequencing Low sequencing imputation Polygenic risk score

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Temporal stability and directional change in a color cline of a marine snail from NW Spain

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Current Zoology 2024年第2期70卷 163-173页

作者： Juan Gefaell ramon Vigo A.Honorato Gonzalez-Vazquez Juan Galindo Emilio Rolan-Alvarez Centro de Investigacion Marina Universidade de VigoDepartamento de BioquimicaGenetica e Inmunologia36310 VigoSpain

The evolution and maintenance of color clines is a classic topic of research in evolutionary ecology.However,studies analyzing the temporal dynamics of such clines are much less frequent,due to the difficulty of obtaining reliable data about past color distributions along environmen-tal gradients.In this article,we describe a case of decades-long temporal stability and directional change in a color cline of the marine snail Littorina saxatilis along the coastal inlet of the Ria de Vigo(NW Spain).L.saxatilis from this area shows a clear color cline with 3 distinct areas from the innermost to the more wave-exposed localities of the Ria:the inner,protected localities show an abundance of fawn-like individuals;the intermediate localities show a high diversity of colors;and the outer,wave-exposed localities show populations with a high frequency of a black and lineated morph.We compare data from the 1970s and 2022 in the same localities,showing that the cline has kept relatively stable for at least over half a century,except for some directional change and local variability in the frequency of certain morphs.Multiple regression analyses and biodiversity measures are presented to provide clues into the selective pressures that might be involved in the maintenance of this color cline.Future research avenues to properly test the explanatory power of these selective agents as well as the possible origins of the cline are discussed.

关键词： clinal variation color polymorphism ecological gradient Littorina saxatilis natural selection wave exposure.

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Has Coca-Cola treatment become the first-line therapy for gastric bezoars,both in general and specifically for western countries?

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World Journal of Gastrointestinal Endoscopy 2024年第5期16卷 237-243页

作者： Maria Delgado Galan Luis ramon Rabago Department of Gastroenterology Hospital Severo OchoaLeganes 28914Spain Department of Gastroenterology Hospital San RafaelMadrid 28016Spain

Phytobezoars is a rare disease and less common in Western countries.The stomach is the primary site for these formations,and endoscopic treatment involving fragmentation and extraction has traditionally been the most effective approach.However,medical treatments using enzymatic and chemical agents,such as cellulase and Coca-Cola,aimed at dissolving the bezoars,have also been utilized,showing varying degrees of resolution success.Notably,the oral dissolution treatment with Coca-Cola has emerged as a promising,simpler,and more costeffective method.The study by Liu et al represents an important step in clinical research on this topic,despite some limitations that need addressing for a more comprehensive understanding of its findings.Key considerations for future research include sample size calculation,endoscopic procedure details,outpatient vs.inpatient treatment,and detailed cost calculations.The study's exclusions,such as patients with upper gastric surgery,phytobezoars older than 14 d,and cases of gastroparesis,limit its applicability to broader populations,especially in Western countries.Given the promising outcomes of the Coca-Cola treatment,it's advocated as a first-line therapy for phytobezoars.Nonetheless,further research is essential to overcome these limitations.However special situations such as perforation or small bowel obstruction will require surgical treatment.

关键词： Phytobezoars Endoscopic treatment Oral dissolution treatment with Coca-Cola Randomized study Editorial

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Precision in detecting colon lesions:A key to effective screening policy but will it improve overall outcomes?

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World Journal of Gastrointestinal Endoscopy 2024年第3期16卷 102-107页

作者： Luis ramon Rabago Maria Delgado Galan Department of Gastroenterology Hospital San RafaelMadrid 28016Spain Gastroenterology Department Hospital Severo OchoaLeganes 28914Spain

Colonoscopy is the gold standard for the screening and diagnosis of colorectal cancer,resulting in a decrease in the incidence and mortality of colon cancer.However,it has a 21%rate of missed polyps.Several strategies have been devised to increase polyp detection rates and improve their characterization and delimi-tation.These include chromoendoscopy(CE),the use of other devices such as Endo cuffs,and major advances in endoscopic equipment[high definition,magnification,narrow band imaging,i-scan,flexible spectral imaging color enhancement,texture and color enhancement imaging(TXI),etc.].In the retrospective study by Hiramatsu et al,they compared white-light imaging with CE,TXI,and CE+TXI to determine which of these strategies allows for better definition and delimitation of polyps.They concluded that employing CE associated with TXI stands out as the most effective method to utilize.It remains to be demonstrated whether these results are extrapolatable to other types of virtual CE.Additionally,further investigation is needed in order to ascertain whether this strategy could lead to a reduction in the recurrence of excised lesions and potentially lower the occurrence of interval cancer.

关键词： Colonoscopy screening Interval colorectal cancer Post colonoscopy colorectal cancer chromoendoscopy Virtual chromoendoscopy high-definition whitelight endoscopy Texture and color enhancement imaging Indigo carmine Adenoma Sessile serrated lesion

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Nickel-based cerium zirconate inorganic complex structures for CO_(2)valorisation via dry reforming of methane

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Journal of Environmental Sciences 2024年第6期140卷 12-23页

作者： Juan Luis Martín-Espejo Loukia-Pantzechroula Merkouri Jesús Gándara-Loe José Antonio Odriozola Tomas Ramirez Reina Laura pastor-Pérez Department of Inorganic Chemistry and Material Sciences Institute of Seville University of Seville-CSICSeville 41092Spain Department of Chemical and Process Engineering University of SurreyGuildford GU27XHUnited Kingdom

The increasing anthropogenic emissions of greenhouse gases(GHG)is encouraging extensive research in CO_(2)utilisation.Dry reforming of methane(DRM)depicts a viable strategy to convert both CO_(2)and CH4into syngas,a worthwhile chemical intermediate.Among the different active phases for DRM,the use of nickel as catalyst is economically favourable,but typically deactivates due to sintering and carbon deposition.The stabilisation of Ni at different loadings in cerium zirconate inorganic complex structures is investigated in this work as strategy to develop robust Ni-based DRM catalysts.XRD and TPR-H2analyses confirmed the existence of different phases according to the Ni loading in these materials.Besides,superficial Ni is observed as well as the existence of a CeNiO_(3)perovskite structure.The catalytic activity was tested,proving that 10 wt.%Ni loading is the optimum which maximises conversion.This catalyst was also tested in long-term stability experiments at 600and 800℃in order to study the potential deactivation issues at two different temperatures.At 600℃,carbon formation is the main cause of catalytic deactivation,whereas a robust stability is shown at 800℃,observing no sintering of the active phase evidencing the success of this strategy rendering a new family of economically appealing CO_(2)and biogas mixtures upgrading catalysts.

关键词： CO_(2)conversion Dry reforming of methane Nickel catalysts Pyrochlore Cerium zirconate

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Whole Perfect Vectors and Fermat’s Last Theorem

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Journal of Applied Mathematics and Physics 2024年第1期12卷 34-42页

作者： ramon Carbó-Dorca Institut de Química Computacional Universitat de Girona Girona Spain Ronin Institute Montclair USA

A naïve discussion of Fermat’s last theorem conundrum is described. The present theorem’s proof is grounded on the well-known properties of sums of powers of the sine and cosine functions, the Minkowski norm definit... 详细信息

关键词： Fermat’s Last Theorem Whole Perfect Vectors Sine and Cosine Functions Natural and Rational Vectors Fermat Vectors

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Aerosol deposition technology and its applications in batteries

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Nano Materials Science 2024年第1期6卷 24-37页

作者： Xinyu Wang ramon Alberto Paredes Camacho Xiaoyu Xu Yumei Wang Yi Qiang Hans Kungl Ruediger-AEichel Yunfeng Zhang Li Lu National University of Singapore(Chongqing)Research Institute Chongqing401123PR China National University of Singapore Singapore117576 Fundamental Electrochemistry(IEK-9) Institute of Energy and Climate ResearchForschungszentrum Jülich52425JülichGermany

Aerosol deposition(AD)method is a kind of additive manufacturing technology for fabricating dense films such as metals and ceramics at room temperature.It resolves the challenge of integrating ceramic films onto temperaturesensitive substrates,including metals,glasses,and polymers.It should be emphasized that the AD is a spray coating technology that uses powder without thermal assistance to generate films with high density.Compared to the traditional sputter-based approach,the AD shows several advantages in efficiency,convenience,better interfacial bonding and so on.Therefore,it opens some possibilities to the field of batteries,especially all-solidstate batteries(ASSBs)and draws much attention not only for research but also for large scale applications.The purpose of this work is to provide a critical review on the science and technology of AD as well as its applications in the field of batteries.The process,mechanism and effective parameters of AD,and recent developments in AD applications in the field of batteries will be systematically reviewed so that a trend for AD will be finally provided.

关键词： Aerosol deposition Room temperature impact consolidation Ceramic film All-solid-state battery Spray coating technology

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Biomass gasification,catalytic technologies and energy integration for production of circular methanol:New horizons for industry decarbonisation

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Journal of Environmental Sciences 2024年第6期140卷 306-318页

作者： Luis F.Bobadilla Lola Azancot Miriam González-Castañ Estela Ruíz-López Laura pastor-Pérez Francisco J.Durán-Olivencia Runping Ye Katie Chong Paula HBlanco-Sánchez Zenthao Wu Tomás R.Reina JoséA.Odriozola Departamento de Química Inorgánica e Instituto de Ciencia de Materiales de Sevilla Centro Mixto CSIC-Universidad de SevillaAvda.Américo Vespucio 49Sevilla 41092Spain Departamento de Ingeniería Universidad Loyola AndalucíaAvda.de Las Universidades s/nSevilla 41704Spain Key Laboratory of Jiangxi Province for Environment and Energy Catalysis School of Chemistry and Chemical EngineeringNanchang UniversityNanchang330031China Energy and Bioproducts Research Institute(EBRI) Aston UniversityBirminghamB47ETUnited Kingdom Department of Chemical and Process Engineering University of SurreyGuildfordGU27XHUnited Kingdom

The Intergovernmental Panel on Climate Change(IPCC)recognises the pivotal role of renewable energies in the future energy system and the achievement of the zero-emission target.The implementation of renewables should provide major opportunities and enable a more secure and decentralised energy supply system.Renewable fuels provide long-term solutions for the transport sector,particularly for applications where fuels with high energy density are required.In addition,it helps reducing the carbon footprint of these sectors in the long-term.Information on biomass characteristics feedstock is essential for scaling-up gasification from the laboratory to industrial-scale.This review deals with the transformation biogenic residues into a valuable bioenergy carrier like biomethanol as the liquid sunshine based on the combination of modified mature technologies such as gasification with other innovative solutions such as membranes and microchannel reactors.Tar abatement is a critical process in product gas upgrading since tars compromise downstream processes and equipment,for this,membrane technology for upgrading syngas quality is discussed in this paper.Microchannel reactor technology with the design of state-of-the-art multifunctional catalysts provides a path to develop decentralised biomethanol synthesis from biogenic residues.Finally,the development of a process chain for the production of(i)methanol as an intermediate energy carrier,(ii)electricity and(iii)heat for decentralised applications based on biomass feedstock flexible gasification,gas upgrading and methanol synthesis is analysed.

关键词： Biogenic residues Gasification Biomethanol Circular Economy Microreactors

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Stay in touch with the endoplasmic reticulum

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Science China(Life Sciences) 2024年第2期67卷 230-257页

作者： Sha Sun Gan Zhao Mingkang Jia Qing Jiang Shulin Li Haibin Wang Wenjing Li Yunyun Wang Xin Bian Yan G.Zhao Xun Huang Ge Yang Huaqing Cai Jose C.pastor-Pareja Liang Ge Chuanmao Zhang Junjie Hu National Laboratory of Biomacromolecules Institute of BiophysicsUniversity of Chinese Academy of SciencesChinese Academy of SciencesBeijing 100101China The Ministry of Education Key Laboratory of Cell Proliferation and Differentiation College of Life SciencesPeking UniversityBeijing 100871China State Key Laboratory of Membrane Biology Tsinghua-Peking Center for Life SciencesSchool of Life SciencesTsinghua UniversityBeijing 100084China Laboratory of Computational Biology&Machine Intelligence School of Artificial IntelligenceUniversity of Chinese Academy of SciencesBeijing 100049China State Key Laboratory of Medicinal Chemical Biology College of Life SciencesNankai UniversityTianjin 300071China Brain Research Center Department of BiologySchool of Life SciencesSouthern University of Science and TechnologyShenzhen 518055China State Key Laboratory of Molecular Developmental Biology Institute of Genetics and Developmental BiologyInnovation Academy for Seed DesignChinese Academy of SciencesBeijing 100101China Institute of Neurosciences Consejo Superior de Investigaciones Científicas-Universidad Miguel HernándezSan Juan de Alicante 03550Spain

The endoplasmic reticulum(ER),which is composed of a continuous network of tubules and sheets,forms the most widely distributed membrane system in eukaryotic cells.As a result,it engages a variety of organelles by establishing membrane contact sites(MCSs).These contacts regulate organelle positioning and remodeling,including fusion and fission,facilitate precise lipid exchange,and couple vital signaling events.Here,we systematically review recent advances and converging themes on ER-involved organellar contact.The molecular basis,cellular influence,and potential physiological functions for ER/nuclear envelope contacts with mitochondria,Golgi,endosomes,lysosomes,lipid droplets,autophagosomes,and plasma membrane are summarized.

关键词： endoplasmic reticulum nuclear envelope mitochondria Golgi apparatus endosome lysosome lipid droplets autophagosome plasma membrane membrane contact site

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Beyond cotton and polyester: An evaluation of emerging feedstocks and conversion methods for the future of fashion industry

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Journal of Bioresources and Bioproducts 2024年第2期9卷 130-159页

作者： Ryen M.Frazier Keren A.Vivas Ivana Azuaje ramon Vera Alonzo Pifano Naycari Forfora Hasan Jameel Ericka Ford Joel J.Pawlak Richard Venditti Ronalds Gonzalez Department of Forest Biomaterials North Carolina State UniversityRaleighNC 27695USA Department of Textile Engineering Chemistry and ScienceThe Nonwovens InstituteNorth Carolina State UniversityRaleighNC 27695USA

As the global population grows,the demand for textiles is increasing rapidly.However,this puts immense pressure on manufacturers to produce more fiber.While synthetic fibers can be pro-duced cheaply,they have a negative impact on the environment.On the other hand,fibers from wool,sisal,fique,wood pulp(viscose),and man-made cellulose fibers(MMCFs)from cotton can-not alone meet the growing fiber demand without major stresses on land,water,and existing markets using these materials.With a greater emphasis on transparency and circular economy practices,there is a need to consider natural non-wood alternative sources for MMCFs to supple-ment other fiber types.However,introducing new feedstocks with different compositions may require different biomass conversion methods.Therefore,based on existing work,this review ad-dresses the technical feasibility of various alternative feedstocks for conversion to textile-grade fibers.First,alternative feedstocks are introduced,and then conventional(dissolving pulp)and emerging(fibrillated cellulose and recycled material)conversion technologies are evaluated to help select the most suitable and promising processes for these emerging alternative sources of cellulose.It is important to note that for alternative feedstocks to be adopted on a meaningful scale,high biomass availability and proximity of conversion facilities are critical factors.In North America,soybean,wheat,rice,sorghum,and sugarcane residues are widely available and most suitable for conventional conversion through various dissolving pulp production methods(pre-hydrolysis kraft,acid sulfite,soda,SO2-ethanol-water,and potassium hydroxide)or by emerging cellulose fibrillation methods.While dissolving pulp conversion is well-established,fibrillated cel-lulose methods could be beneficial from cost,efficiency,and environmental perspectives.Thus,the authors strongly encourage more work in this growing research area.However,conducting thorough cost and sustainability assessments is important to determine the best feedstock a

关键词： Non-wood Residue Regenerated cellulose Dissolving pulp Man-made cellulose fiber Apparel textile

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