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International Journal of Sediment Research 2015年第1期30卷 74-80页

作者： Travis G.gerwing alyssa m.allen gerwing Diana J.HAmILTON myriam A.BARBEAU Department of Biology University of New Brunswick Department of Biology Mount Allison University

As hypoxic conditions spread in our oceans,indices that quickly and efficiently assess oxygen content in sediment pore water,and habitat quality are increasingly becoming *** to the apparent redox potential discontinuity(aRPD) in sediment is one such index;however,the relationship between aRPD depth and oxygen content is still *** quantified oxygen content in sediment pore water with a dissolved oxygen(DO) probe,utilizing luminescent technology,to determine how DO concentration varies with depth in the sediment,and with position relative to the aRPD(above versus below) on an intertidal mudflat in the Bay of Fundy,*** on generalized linear regression models,we found that depth in the sediment was a poor predictor of pore water DO concentration,while position in the sediment relative to the aRPD was a good ***,sediment above the aRPD had higher DO content than sediment *** maintain that aRPD depth is a good measure of relative oxygen content in sediment pore water,as well as habitat ***,we recommend caution as the factors that influence aRPD depth arc numerous and variable;therefore,the relationship between aRPD depth and DO content should be experimentally confirmed in any system of interest before aRPD depth is used as an indicator.

关键词： Anoxia Apparent redox potential discontinuity(aRPD) Dissolved oxygen Habitat quality Hypoxia Intertidal marine benthos Sediment pore water.

Relationship between apparent redox potential discontinuity (aRPD) depth and environmental variables in soft-sediment habitats

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International Journal of Sediment Research 2017年第4期32卷 472-480页

作者： Travis G.gerwing alyssa m.allen gerwing Kieran Cox Francis Juanes Sarah E.Dudas Ecosystem Science and management Program University of Northern British Columbia Department of Biology University of Victoria Department of Biology Vancouver Island University

As global temperatures increase and dissolved oxygen(DO) content decreases in marine systems, indices assessing sediment DO content in benthic habitats are becoming increasingly useful. One such measure is the depth to the apparent redox potential discontinuity(aRPD), a transition of sediment color that serves as a relative measure of sediment DO content. We examined spatiotemporal variation of aRPD depth, and the nature of the relationships between aRPD depth and biotic(infauna and epibenthic predators) and abiotic variables(sediment properties), as well as the availability of resources(chlorophyll a concentration, and organic matter content) in the intertidal mudflats of the Bay of Fundy, Canada. aRPD depth varied significantly through space and time, and a combination of biotic(sessile and errant infauna, as well as epibenthic predators), and abiotic(exposure time of a plot, sediment particle size,penetrability, and water content) variables, as well as the availability of resources(sediment organic matter content, and chlorophyll a concentration) were correlated with aRPD depth. As such, knowledge of both biotic and abiotic variables are required for a holistic understanding of sediment DO *** variables likely dictate a suite of potential aRPD depth conditions, while biota and resource availability, via bioturbation and respiration, strongly influence the observed aRPD depth. As DO conditions in marine systems will continue to change due to global climate change, elucidating these relationships are a key first step in predicting the influence decreasing DO content may have upon marine benthos.

关键词： Relationship between apparent redox potential discontinuity depth and environmental variables in soft-sediment habitats DO

Depth to the apparent redox potential discontinuity(aRPD)as a parameter of interest in marine benthic habitat quality models

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International Journal of Sediment Research 2018年第2期33卷 149-156页

作者： Travis G.gerwing Kieran Cox alyssa m.allen gerwing Charmaine N.Carr-Harris Sarah E.Dudas Francis Juanes Ecosystem Science and management Program University of Northern British Columbia Department of Biology University of Victoria Skeena Fisheries Commission 4. Department of Biology Vancouver Island University

The usefulness of the apparent redox potential discontinuity(aRPD) in assessments of marine benthic habitat quality was explored at two intertidal mudflats along the north Pacific coast of Canada. Two transects were established at each intertidal site, with three sediment biogeochemistry cores collected from each transect four times over the summer of 2016. measurements of the sediment pore water dissolved oxygen(DO) content and redox(Eh) conditions were taken at the surface of the core(measured vertically), as well as at increasing depths(1 cm between readings) into the sediment(measured horizontally through predrilled holes in the biogeochemistry corer). While oxic, anoxic, oxidized, and reduced sediment pore water was observed above and below the aRPD, in general, sediment above the aRPD had higher DO content, and higher Eh values than sediment below the aRPD. Therefore, the aRPD depth can be used as a relative indicator of sediment pore water DO and Eh conditions: sediment with a deeper aRPD depth has more available DO, and the pore water has higher Eh values(more oxidized or less reduced) than sediment with a shallower aRPD depth. As such, the aRPD depth is a useful parameter to include in models that assess the quality of marine benthic habitats.

关键词： Anoxia Apparent redox potential discontinuity(aRPD) Dissolved oxygen Habitat quality Hypoxia Intertidal marine benthos Sediment pore water

Daily genetic profiling indicates JAK/STAT signaling promotes early hepatic stellate cell transdifferentiation

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World Journal of Gastroenterology 2010年第40期16卷 5047-5056页

作者： Ashley m Lakner Cathy C moore alyssa A Gulledge Laura W Schrum Department of Biology University of North Carolina at Charlotte Digestive and metabolic Disorders Laboratory Carolinas Medical Center

AIm: To identify signaling pathways and genes that initiate and commit hepatic stellate cells (HSCs) to transdifferentiation. mETHODS: Primary HSCs were isolated from male Sprague-Dawley rats and cultured on plastic for 0-10 d. Gene expression was assessed daily (quiescent to day 10 culture-activation) by real time polymerase chain reaction and data clustered using AmADA software. The significance of JAK/STAT signaling to HSC transdifferentiation was determined by treating cells with a JAK2 inhibitor. RESULTS: Genetic cluster analyses, based on expression of these 21 genes, showed similar expression profiles on days 1-3, days 5 and 6, and days 7-10, while freshly isolated cells (day Q) and day 4 cells were genotypically distinct from any of the other days. Additionally, gene expression clustering revealed strong upregulation of interleukin-6, JAK2 and STAT3 mRNA in the early stages of activation. Inhibition of the JAK/STAT signaling pathway impeded the morphological transdifferentiation of HSCs which correlated with decreased mRNA expression of several profibrotic genes including collagens, α-SmA, PDGFR and TGFβR. CONCLUSION: These data demonstrate unique clustered genetic profiles during the daily progression of HSC transdifferentiation and that JAK/STAT signaling may be critical in the early stages of transdifferentiation.

关键词： Cluster analysis Fibrosis Genetic profile Hepatic stellate cell Interleukin-6

ezQTL:A Web Platform for Interactive Visualization and Colocalization of QTLs and GWAS Loci

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Genomics, Proteomics & Bioinformatics 2022年第3期20卷 541-548页

作者： Tongwu Zhang alyssa Klein Jian Sang Jiyeon Choi Kevin m.Brown Division of Cancer Epidemiology and Genetics National Cancer InstituteBethesdaMD 20892USA

Genome-wide association studies(GWAS)have identified thousands of genomic loci associated with complex diseases and traits,including *** vast majority of common traitassociated variants identified via GWAS fall in non-coding regions of the genome,posing a challenge in elucidating the causal variants,genes,and mechanisms *** quantitative trait locus(eQTL)and other molecular QTL studies have been valuable resources in identifying candidate causal genes from GWAS loci through statistical colocalization *** QTL colocalization is becoming a standard analysis in post-GWAS investigation,an easy web tool for users to perform formal colocalization analyses with either user-provided or public GWAS and eQTL datasets has been ***,we present ezQTL,a web-based bioinformatic application to interactively visualize and analyze genetic association data such as GWAS loci and molecular QTLs under different linkage disequilibrium(LD)patterns(1000 Genomes Project,UK Biobank,or user-provided data).This application allows users to perform data quality control for variants matched between different datasets,LD visualization,and two-trait colocalization analyses using two state-of-the-art methodologies(eCAVIAR and HyPrColoc),including batch *** is a free and publicly available cross-platform web tool,which can be accessed online at https://***/ezqtl.

关键词： Genome-wide association study Expression quantitative trait locus Colocalization Linkage disequilibrium Visualization

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Changes in physical activity,sedentary behavior,and self-reported cognitive function in cancer survivors before and during the COVID-19 pandemic:A cross-sectional study

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Journal of Sport and Health Science 2023年第6期12卷 653-663页

作者： Linda Trinh Allyson Tabaczynski Denise Bastas alyssa R.Neville m.Lauren Voss Alexis Whitehorn Faculty of Kinesiology&Physical Education University of TorontoTorontoOT M5S 2W6Canada

Background Physical activity(PA)and reductions in sedentary behavior(SED)may mitigate cancer-related cognitive *** purpose of this study was to examine(a)the associations between changes in PA,SED,and cognitive function in cancer survivors before and during the coronavirus disease 2019(COVID-19)pandemic;and(b)clinical subgroups that moderate this *** A cross-sectional survey was administered online to adult cancer survivors globally between July and November of *** was a secondary analysis of a cross-sectional survey examining changes in self-reported PA and quality of life in cancer survivors before and during the COVID-19 ***-reported Questionnaires assessed moderate-to-vigorous PA(mVPA)using the modified Godin Leisure Time Exercise Questionnaire,cognitive function using the Functional Assessment of Cancer Therapy-Cognitive Function(FACT-Cog)scale,and SED using the Domain-specific Sitting Time *** survivors were classified into no change in behavior,desirable change(i.e.,increase mVPA to meet PA guidelines or decrease SED by≥60 min/day),and undesirable change(i.e.,decrease mVPA tomin/week or increase SED by≥60 min/day).Analysis of covariance examined differences in FACT-Cog scores across the activity change *** contrasts compared differences in FACT-Cog scores between cancer survivors with(a)no meaningful change *** change,and(b)a desirable change *** undesirable *** There were no significant differences in FACT-Cog scores across activity-change categories in the full sample of cancer survivors(n=371;age=48.6±15.3 years(mean±SD)).However,cancer survivors who were diagnosed≥5 years ago(t(160)=–2.15,p=0.03)or who received treatment≥5 years ago(t(102)=–2.23,p=0.03)and who had a desirable change in activity reported better perceived cognitive abilities than those who had an undesirable *** PA promotion efforts should consider reducing SED in addition to mainta

关键词： Cancer-related cognitive impairment Cancer survivorship Exercise Sedentary time

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Reproductive behavior in horseshoe crabs:Does density matter?

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Current Zoology 2010年第5期56卷 634-642页

作者： Jennifer H.mATTEI mark A.BEEKEY Adam RUDmAN alyssa WORONIK Department of Biology Sacred Heart University Department of Biology Southern Connecticut State University

While the four species of horseshoe crabs share many common reproductive traits with respect to their reproductive systems, they do differ with respect to their mating behavior （monogamy vs. polygynandry）. Past research has attributed these differences to a number of factors including： spawning densities, operational sex ratios （OSR＇s）, male condition （or age）, environmental and/or genetic factors, or a combination thereof. mating behaviors in the three Asian horseshoe crab species （Tachy-pleus gigas, T. tridentatus, and Carcinoscorpius rotundicauda） with low spawning densities and 1：1 operational sex ratios are typically monogamous. In Limuluspolyphemus, mating behavior is more variable ranging fi＇om monogamy to polygynandry. Here we provide evidence, through a long term behavioral study, that variation in mating behavior is influenced by population density in L. polyphemus. Our study population on two beaches in Connecticut （Long Island Sound） have a spawning density 400 times less than that found in Delaware Bay （0.002 females/m2 vs. 0.8 females/m2） but similar operational sex ratios. Between 90%-95% of all spawning females in CT were paired with only one male, thus exhibiting monogamous behavior. In contrast, between 30 and 60% of spawning females in Delaware Bay have more than one mate and produce clutches of eggs with multiple paternities. male condition played no role in mating behavior in CT populations. We also observed that on average 18% of the females on the spawning beaches are single. These results suggest that population density is an important condition that determines mating behavior. Also, low population density may lead to decreased mate finding ability and lost opportunities for spawning

关键词： Limulus mating behavior Population density monogamy Polygynandry

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Understory Recovery in Coast Redwood Communities: A Case Study Comparing a Naturally Recovering and an Actively managed Forest

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Open Journal of Forestry 2018年第4期8卷 489-499页

作者： alyssa Hanover Will Russell Department of Environmental Studies San Jose State University San Jose USA

Restoration of late seral features in second growth Sequoia sempervirens (coast redwood) forests is increasingly important, as so little of the original old-growth remains. Natural recovery is an effective method restoring many late seral features, and does not require the additional disturbance of active management. In order to better understand management impacts on redwood understory abundance and composition, data were collected in naturally recovering stands and in stands that were actively managed with the explicit intent of promoting old-growth characteristics. Ten 10 m diameter plots with three 2 m diameter nested sub-plots were randomly sampled in two sites within each management type. Results indicate that tree canopy cover, native species cover and richness, richness of coast redwood associated species, and the cover of Trillium ovatum (western wake robin) were significantly higher in naturally recovering versus actively managed stands. In addition, several coast redwood associated understory species were exclusively recorded in the naturally recovering stands including: Asuram caudatum (wild ginger), Prosartes hookeri (hooker’s fairybells), maianthemum racemosum (false solomon seal), Scoliopus bigelovii (fetid adder’s tongue), Viola sempervirens (redwood violet);while only one such species was recorded exclusively in the actively managed stands: Trientalis latifolia (pacific star flower). Natural recovery appeared to support understory recovery more effectively than active forest management in this case.

关键词： Restoration Natural Recovery Active management Old-Growth Late-Seral

Searching for Bacterial Biofilm in Recurrent Cholangitis in Primary Sclerosing Cholangitis:A Case Presentation and Introduction of an Unexplored Disease mechanism

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Journal of Clinical and Translational Hepatology 2018年第1期6卷 114-118页

作者： alyssa Y. Choi Florencia Jalikis maria Westerhoff Sarag Boukhar Elinor Pulcini Chris Damman Lei Yu Department of Internal medicine University of WashingtonSeattleWashingtonUSA Department of Pathology University of WashingtonSeattleWashingtonUSA Department of Pathology University of IowaIowa CityIowaUSA Center for Biofilm Engineering Montana State UniversityBozemanMontanaUSA Division of Gastroenterology University of WashingtonSeattleWashingtonUSA

Inflammation and fibrosis of the bile ducts are the defining pathological characteristics of primary sclerosing cholangitis(PSC).A previously unexplored mechanism for recurrent cholangitis,one of PSC's most common presentations,is bacterial colonization of the biliary epithelium in the form of biofilm,which may confer resistance to antibiotics and host phagocytic *** aim of the current study was to assess whether bacteria could be seen on the liver explant and whether they organized in the form of *** explanted PSC liver from a 60-year-old male who suffered from recurrent cholangitis was formalin-fixed,paraffinembedded and Gram *** specimens were observed under light *** bacteria nor biofilm were *** did not detect bacteria or biofilm in the liver explant of a single PSC patient with recurrent cholangitis using standard light *** suspect this may be in part due to techniques related to tissue preservation and microscopy.

关键词： Primary sclerosing cholangitis Recurrent cholangitis Biofilm

A bio-instructive parylene-based conformal coating suppresses thrombosis and intimal hyperplasia of implantable vascular devices

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Bioactive materials 2023年第10期28卷 467-479页

作者： Dake Hao Jonathan Lin Ruiwu Liu Christopher Pivetti Kaeli Yamashiro Linda m.Schutzman Junichiro Sageshima mimmie Kwong Nataliya Bahatyrevich Diana L.Farmer misty D.Humphries Kit S.Lam alyssa Panitch Aijun Wang Department of Surgery School of MedicineUniversity of California DavisSacramentoCA95817United States Institute for Pediatric Regenerative medicine Shriners Hospitals for ChildrenSacramentoCA95817United States Department of Biochemistry and molecular medicine School of MedicineUniversity of California DavisSacramentoCA95817United States Wallace H.Coulter Department of Biomedical Engineering Georgia Institute of Technology and Emory UniversityAtlant1GA30332United States Department of Biomedical Engineering University of California DavisDavisCA95616United States

Implantable vascular devices are widely used in clinical treatments for various vascular diseases. However, current approved clinical implantable vascular devices generally have high failure rates primarily due to their surface lacking inherent functional endothelium. Here, inspired by the pathological mechanisms of vascular device failure and physiological functions of native endothelium, we developed a new generation of bioactive parylene (poly(p-xylylene))-based conformal coating to address these challenges of the vascular devices. This coating used a polyethylene glycol (PEG) linker to introduce an endothelial progenitor cell (EPC) specific binding ligand LXW7 (cGRGDdvc) onto the vascular devices for preventing platelet adhesion and selectively capturing endogenous EPCs. Also, we confirmed the long-term stability and function of this coating in human serum. Using two vascular disease-related large animal models, a porcine carotid artery interposition model and a porcine carotid artery-jugular vein arteriovenous graft model, we demonstrated that this coating enabled rapid generation of self-renewable “living” endothelium on the blood contacting surface of the expanded polytetrafluoroethylene (ePTFE) grafts after implantation. We expect this easy-to-apply conformal coating will present a promising avenue to engineer surface properties of “off-the-shelf” implantable vascular devices for long-lasting performance in the clinical settings.

关键词： Parylene coating Integrin ligand Thrombosis Intimal hyperplasia Implantable vascular devices