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Coupling virio-and bacterioplankton populations with environmental variable changes in the Bohai Sea

Acta Oceanologica Sinica 2020年第6期39卷 72-83页

作者： Caixia Wang Lin Wu Yibo Wang james S.Paterson james g.mitchell Xiaoke Hu Key Laboratory of Coastal Biology and Bioresource Utilization Yantai Institute of Coastal Zone ResearchChinese Academy of SciencesYantai 264003China Laboratory for Marine Biology and Biotechnology Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China University of Chinese Academy of Sciences Beijing 100049China Ocean School Yantai UniversityYantai 264003China College of Science and Engineering Flinders UniversityAdelaideSA 5001Australia

Uncovering the role of environmental factors and finding critical factors which harbor significant fractions in governing microbial communities remain key questions in coastal marine *** detect the interactions between environmental factors and distributions of virio-and bacterioplankton in trophic coastal areas,we used flow cytometry to investigate the abundance of virio-and bacterioplankton covering 31 stations in the Bohai Sea of *** results suggested that the average abundance of total virus(TV)in winter(~2.29×108 particles/mL)was slightly lower than in summer(~3.83×108 particles/mL).The mean total bacterial abundance(TB)was much lower in winter(~2.54×107 particles/mL)than in summer(~5.43×107 particles/mL).Correlation analysis via redundancy analysis(RDA)and network analysis among virioplankton,bacterioplankton and environmental factors revealed that the abundances of viral and bacterial subpopulations depend on environmental *** winter,only temperature significantly influenced the abundances of virio-and *** summer,in addition to temperature,both salinity and nutrient(SiO2)had a remarkable impact on the distribution of virioand *** results showed a clear seasonal and trophic pattern throughout the whole water system,which revealed that temperature and eutrophication may play crucial roles in microbial distribution pattern.

关键词： virioplankton bacterioplankton flow cytometry network Bohai Sea

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Taxonomic and metabolic shifts in the Coorong bacterial metagenome driven by salinity and external inputs

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Journal of Oceanology and Limnology 2018年第6期36卷 2033-2049页

作者： Kelly NEWTON Thomas C.JEFFRIES Renee J.SMITH Justin R.SEYMOUR Laurent SEURONT james g.mitchell School of Biological Sciences Flinders University School of Science and Health Western Sydney University Flinders Centre for Innovation in Cancer Flinders University Climate Change Cluster University of Technology Sydney Centre National de la Recherche Scientifi que Laboratoire d'Océanologie et de Géosciences

The Coorong estuary lies at the terminus of Australia's largest river system, the Murray-Darling; both are strongly influenced by human activities; including farming and extensive flow modification. Metagenomic approaches were used to determine the planktonic bacterial community composition and potential metabolic function at two extremes in the Coorong, the river mouth which exhibits marine-like salinity, and the hypersaline upper-reaches of the estuary. Significant shifts in taxa and metabolic function were seen between the two sites. The river mouth exhibited an increase in abundance of R hodobacteriaceae and Alteromonadaceae; families readily able to adapt to change in nutrient conditions; and the potentially pathogenic families B rucellaceae, Enterobacteriaceae and Vibrionaceae. Metabolisms over-represented include motility and chemotaxis, RNA metabolism and membrane transport, all of which are involved in actively searching for and obtaining nutrients. Also over-represented were metabolisms involved in population succession and stress response. An over-representation of taxa and metabolisms indicative of environmental change is reflective of anthropogenically af fected riverine input. In the hypersaline upper reaches of the estuary, the halophilic family Ectothiorhodospiraceae was over-represented, as were the families Flavobacteriaceae, Cytophagaceae and Nocardioidaceae, members of which are able to survive over a wide salinity range. Metabolisms over-represented here were reflective of increased bacterial growth, characteristic of hypersaline environments, and included DNA metabolism, nucleotide and nucleoside synthesis and cell cycle. Coorong metagenomes clustered taxonomically and metabolically with other planktonic metagenomes, but remained an outlier of this group with only 71% and 84% similarity, respectively. This indicates that the Coorong exhibits a unique planktonic bacterial community that is influenced by riverine input at the river mouth and sali

关键词： hypersaline estuary bacteria taxonomy metabolic potential

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Tinker,tailor,soldier,cell:the role of C-type lectins in the defense and promotion of disease

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Protein & Cell 2023年第1期14卷 4-16页

作者： james N.Arnold Daniel A.mitchell School of Cancer and Pharmaceutical Sciences King's College LondonLondon SE11ULUK Warwick Medical School University of WarwickCoventry CV22DXUK

C-type lectins(CTLs)represent a large family of soluble and membrane-bound proteins which bind calcium dependently via carbohydrate recognition domains(CRDs)to glycan residues presented on the surface of a variety of *** deconvolution of a cell’s glycan code by CTLs underpins several important physiological processes in mammals such as pathogen neutralization and opsonization,leukocyte trafficking,and the inflammatory ***,as our knowledge of CTLs has developed it has become apparent that the role of this innate immune family of proteins can be double-edged,where some pathogens have developed approaches to subvert and exploit CTL interactions to promote infection and sustain the pathological ***,CTL interactions with host glycoproteins can contribute to inflammatory diseases such as arthritis and cancer whereby,in certain contexts,they exacerbate inflammation and drive malignant *** review discusses the‘dual agent’roles of some of the major mammalian CTLs in both resolving and promoting infection,inflammation and inflammatory disease and highlights opportunities and emerging approaches for their therapeutic modulation.

关键词： C-type lectins DC-SIgN MBL selectins infection arthritis cancer

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Silk-based nerve guidance conduits with macroscopic holes modulate the vascularization of regenerating rat sciatic nerve

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Neural Regeneration Research 2025年第6期20卷 1789-1800页

作者： Carina Hromada Patrick Heimel Markus Kerbl Lászlógál Sylvia Nürnberger Barbara Schaedl james Ferguson Nicole Swiadek Xavier Monforte Johannes C.Heinzel Antal Nógrádi Andreas H.Teuschl-Woller David Hercher Department Life Science Engineering University of Applied Sciences Technikum WienViennaAustria Austrian Cluster for Tissue Regeneration ViennaAustria Ludwig Boltzmann Institute for Traumatology The Research Center in Cooperation with AUVAViennaAustria University Clinic of Dentistry Medical University of ViennaViennaAustria Department of Plastic Reconstructive and Aesthetic SurgeryLandesklinikum Wiener Neustadt2700 Wiener NeustadtAustria Department of Anatomy Histology and EmbryologyAlbert Szent-Györgyi Medical SchoolUniversity of SzegedSzegedHungary Medical University of Vienna Department of Orthopedics and Trauma SurgeryDevision of Trauma SurgeryViennaAustria Department of Hand- PlasticReconstructive and Burn SurgeryBG Unfallklinik TuebingenUniversity of TuebingenTuebingenGermany

Peripheral nerve injuries induce a severe motor and sensory deficit. Since the availability of autologous nerve transplants for nerve repair is very limited, alternative treatment strategies are sought, including the use of tubular nerve guidance conduits(tNgCs). However, the use of tNgCs results in poor functional recovery and central necrosis of the regenerating tissue, which limits their application to short nerve lesion defects(typically shorter than 3 cm). given the importance of vascularization in nerve regeneration, we hypothesized that enabling the growth of blood vessels from the surrounding tissue into the regenerating nerve within the tNgC would help eliminate necrotic processes and lead to improved regeneration. In this study, we reported the application of macroscopic holes into the tubular walls of silk-based tNgCs and compared the various features of these improved silk^(+) tNgCs with the tubes without holes(silk^(–) tNgCs) and autologous nerve transplants in an 8-mm sciatic nerve defect in rats. Using a combination of micro-computed tomography and histological analyses, we were able to prove that the use of silk^(+) tNgCs induced the growth of blood vessels from the adjacent tissue to the intraluminal neovascular formation. A significantly higher number of blood vessels in the silk^(+) group was found compared with autologous nerve transplants and silk^(–), accompanied by improved axon regeneration at the distal coaptation point compared with the silk^(–) tNgCs at 7 weeks postoperatively. In the 15-mm(critical size) sciatic nerve defect model, we again observed a distinct ingrowth of blood vessels through the tubular walls of silk^(+) tNgCs, but without improved functional recovery at 12 weeks postoperatively. Our data proves that macroporous tNgCs increase the vascular supply of regenerating nerves and facilitate improved axonal regeneration in a short-defect model but not in a critical-size defect model. This study suggests that further optimizatio

关键词： axon regeneration blood vessel functional recovery macroporous nerve lesion peripheral nerve repair sciatic nerve silk-based nerve guidance conduit vascularization

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Progressive heterosis in genetically defined tetraploid maize

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Journal of genetics and genomics 2019年第8期46卷 389-396页

作者： Jacob D.Washburn mitchell J.McElfresh james A.Birchler Division of Biological Sciences University of Missouri

Progressive heterosis, i.e., the additional hybrid vigor in double-cross tetraploid hybrids not found in their single-cross tetraploid parents, has been documented in a number of species including alfalfa,potato, and maize. In this study, four artificially induced maize tetraploids, directly derived from standard inbred lines, were crossed in pairs to create two single-cross hybrids. These hybrids were then crossed to create double-cross hybrids containing genetic material from all four original lines. Replicated fieldbased phenotyping of the materials over four years indicated a strong progressive heterosis phenotype in tetraploids but not in their diploid counterparts. In particular, the above ground dry weight phenotype of double-cross tetraploid hybrids was on average 34% and 56% heavier than that of the single-cross tetraploid hybrids and the double-cross diploid counterparts, respectively. Additionally,whole-genome resequencing of the original inbred lines and further analysis of these data did not show the expected spectrum of alleles to explain tetraploid progressive heterosis under the complementation of complete recessive model. These results underscore the reality of the progressive heterosis phenotype,its potential utility for increasing crop biomass production, and the need for exploring alternative hypothesis to explain it at a molecular level.

关键词： Maize Tetraploid Heterosis Dominance complementation Progressive heterosis

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The Mysterious Mid-Carnian “Wet Intermezzo” global Event

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Journal of Earth Science 2015年第2期26卷 181-191页

作者： james g.Ogg Department of Earth Atmospheric and Planetary Sciences Purdue University Key Laboratory of Biogeology and Environmental geology of Ministry of Education China University of Geosciences

Approximately 230 million years ago in the middle of the Carnian stage of the Upper Triassic, the sedimentary records in different regional basins display dramatic changes. Tropical carbonate platforms abruptly ended, and engorged river systems left widespread sand-rich layers across inland basins and coastal regions. This pulse lasted less than a million years in some basins, but constituted a permanent shift in others. Following this event, the Late Carnian has the earliest record of significant dinosaurs on land and the emergence of the calcareous nannoplankton in the oceans that now govern Earth＇s carbon cycle. This ＂most distinctive climate change within the Tri- assic＂ has been interpreted by some geoscientists as a global disruption of the Earth＇s land-ocean-biological system. The eruption of the Wrangellia large igneous province may have been the trigger for a sudden carbon-dioxide-induced warming and associated increased rainfall in some of these regions. Indeed, some workers have proposed that this ＂wet intermezzo＂ warming event is a useful analog to aid in predicting the effects of our future greenhouse on land ecosystems and ocean chemistry. However, the understanding of the onset, duration, global impacts and relatively rapid termination of this postulated warming pulse has been hindered by lack of a global dataset with inter-calibrated terrestrial and marine biostratigraphy, precise radio-isotopic ages, stable isotope records of temperature and the carbon system, and cycle-calibrated rates of regional and global change.

关键词： Triassic Carnian climate pluvial Wrangellia carbon isotope excursion dolomite China LIP Yangtze Platform Wet Intermezzo large igneous province.

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Formation of a 40 A DC Current Arc During the Opening of Silver Contacts

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Plasma Science and Technology 2014年第5期16卷 471-478页

作者： M'hammed ABBAOUI André LEFORT Erwann CARVOU Damien SALLAIS james Brian Alexander mitchell Noureddine BEN JEMAA Clermont Université Université d'AuvergneEA 3120LAEPTBP 10448F-63000 Clermont-FerrandFrance Equipe Contacts Electriques IPR(UMR CNRS 6251)Universite de Rennes 135042 Rennes CedexFrance

The erosion of silver contacts due to break arcs with length proportional to time and of variable duration has been measured by weighing the contacts following 5000 openings at a constant current equal to 40 *** experimental results show that,for arc durations shorter than 60 μs,the transfer of metal from the anode to the cathode occurs,but after passing this stage,when the two electrodes are separated by greater distances,each will display *** is the result of the diffusion of material outside the space between the two *** order to interpret these results,we have applied a classical model of the physical phenomena occurring at the root of the *** of the experimental results shows that for an arc duration of less than15 μs,no distinct cathode root is seen to exist,but beyond this,several spots appear gradually on the cathode for arc duration up to 50 μs,after which they merge into a single *** comparison between experiment results and theoretical interpretation is reasonable up to 60 μs.

关键词： arc root cathode spot anode spot erosion contacts current density

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Selective androgen receptor modulators for the treatment of late onset male hypogonadism

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Asian Journal of Andrology 2014年第2期16卷 256-261,I0009页

作者： Christopher C Coss Amanda Jones Michael L Hancock mitchell S Steiner james T Dalton gTx Inc. Memphis Tennessee USA.

Several testosterone preparations are used in the treatment of hypogonadism in the ageing male. These therapies differ in their convenience, flexibility, regional availability and expense but share their pharmacokinetic basis of approval and dearth of long-term safety data. The brevity and relatively reduced cost of pharmacokinetic based registration trials provides little commercial incentive to develop improved novel therapies for the treatment of late onset male hypogonadism. Selective androgen receptor modulators （SARMs） have been shown to provide anabolic benefit in the absence of androgenic effects on prostate, hair and skin. Current clinical development for SARMs is focused on acute muscle wasting conditions with defined clinical endpoints of physical function and lean body mass. Similar regulatory clarity concerning clinical deficits in men with hypogonadism is required before the beneficial pharmacology and desirable pharmacokinetics of SARMs can be employed in the treatment of late onset male hypogonadism.

关键词： hypogonadism late onset hypogonadism selective androgen receptor modulators testosterone

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Compressing local atomic neighbourhood descriptors

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npj Computational Materials 2022年第1期8卷 1593-1605页

作者： james P.Darby james R.Kermode gábor Csányi Engineering Dept University of CambridgeTrumpington StCambridgeCB21PZUK Warwick Centre for Predictive Modelling School of EngineeringUniversity of WarwickCoventryCV47ALUK

Many atomic descriptors are currently limited by their unfavourable scaling with the number of chemical elements S *** length of body-ordered descriptors,such as the SOAP power spectrum(3-body)and the(ACE)(multiple body-orders),scales as(NS)^(ν)whereν+1 is the body-order and N is the number of radial basis functions used in the density *** introduce two distinct approaches which can be used to overcome this scaling for the SOAP power ***,we show that the power spectrum is amenable to lossless compression with respect to both S and N,so that the descriptor length can be reduced from O(N^(2)S^(2))to O(NS).Secondly,we introduce a generalised SOAP kernel,where compression is achieved through the use of the total,element agnostic density,in combination with radial *** ideas used in the generalised kernel are equally applicably to any other body-ordered descriptors and we demonstrate this for the(ACSF).

关键词： SOAP scaling kernel

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Sampling lattices in semi-grand canonical ensemble with autoregressive machine learning

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npj Computational Materials 2022年第1期8卷 588-597页

作者： james Damewood Daniel Schwalbe-Koda Rafael gómez-Bombarelli Department of Materials Science and Engineering Massachusetts Institute of Technology77 Massachusetts AvenueCambridgeMA02319USA

Calculating thermodynamic potentials and observables efficiently and accurately is key for the application of statistical mechanics simulations to materials ***,naive Monte Carlo approaches,on which such calculations are often dependent,struggle to scale to complex materials in many state-of-the-art disciplines such as the design of high entropy alloys or multi-component *** address this issue,we adapt sampling tools built upon machine learning-based generative modeling to the materials space by transforming them into the semi-grand canonical ***,we show that the resulting models are transferable across wide ranges of thermodynamic conditions and can be implemented with any internal energy model U,allowing integration into many existing materials *** demonstrate the applicability of this approach to the simulation of benchmark systems (AgPd,CuAu) that exhibit diverse thermodynamic behavior in their phase ***,we discuss remaining challenges in model development and promising research directions for future improvements.

关键词： canonical thermodynamic directions

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