Alteration of HDL Protein Composition with Hemodialysis Initiation

Total Page:16

File Type:pdf, Size:1020Kb

Alteration of HDL Protein Composition with Hemodialysis Initiation Article Alteration of HDL Protein Composition with Hemodialysis Initiation Ke Wang,1,2 Leila R. Zelnick ,1,2 Andrew N. Hoofnagle,1,2,3 Tomas Vaisar,1 Clark M. Henderson,3 Peter B. Imrey ,4,5 Cassianne Robinson-Cohen ,6 IanH.deBoer,1,2 Yan-Ting Shiu,7 Jonathan Himmelfarb,1,2 Gerald J. Beck,4,5 and Bryan Kestenbaum,1,2 on behalf of the HFM Study Abstract Departments of Background and objectives HDL particles obtained from patients on chronic hemodialysis exhibit lower 1 fl fl Medicine and cholesterol ef ux capacity and are enriched in in ammatory proteins compared with those in healthy individuals. 3Laboratory Medicine Observed alterations in HDL proteins could be due to effects of CKD, but also may be influenced by the and 2Kidney Research hemodialysis procedure, which stimulates proinflammatory and prothrombotic pathways. Institute, University of Washington, Seattle, Washington; Design, setting, participants, & measurements We compared HDL-associated proteins in 143 participants who 4Department of initiated hemodialysis within the previous year with those of 110 participants with advanced CKD from the Quantitative Health Hemodialysis Fistula Maturation Study. We quantified concentrations of 38 HDL-associated proteins relative to Sciences, Lerner total HDL protein using targeted mass spectrometry assays that included a stable isotope–labeled internal Research Institute, standard. We used linear regression to compare the relative abundances of HDL-associated proteins after Cleveland Clinic, # Cleveland, Ohio; adjustment and required a false discovery rate q value 10% to control for multiple testing. We further assessed 5Department of the association between hemodialysis initiation and cholesterol efflux capacity in a subset of 80 participants. Medicine, Cleveland Clinic Lerner College ResultsAfter adjustment for demographics,comorbidities, and other clinical characteristics, eight HDL-associated of Medicine of Case fi Western Reserve proteins met the prespeci ed false discovery threshold for association. Recent hemodialysis initiation was University, Cleveland, associated with higher HDL-associated concentrations of serum amyloid A1, A2, and A4; hemoglobin-b; Ohio; 6Department of haptoglobin-related protein; cholesterylester transfer protein; phospholipid transfer protein; and apo E. The trend Medicine, Vanderbilt for participants recently initiating hemodialysis for lower cholesterol efflux capacity compared with individuals University, Nashville, Tennessee; and with advanced CKD did not reach statistical significance. 7 Division of Nephrology and Conclusions Compared with advanced CKD, hemodialysis initiation within the previous year is associated with Hypertension, higher concentrations of eight HDL proteins related to inflammation and lipid metabolism. Identified associations University of Utah differ from those recently observed for nondialysis-requiring CKD. Hemodialysis initiation may further School of Medicine, Salt Lake City, Utah impair cholesterol efflux capacity. Further work is needed to clarify the clinical significance of the identified proteins with respect to cardiovascular risk. Correspondence: Clin J Am Soc Nephrol 13: 1225–1233, 2018. doi: https://doi.org/10.2215/CJN.11321017 Dr. Ke Wang, Kidney Research Institute, Harborview Medical Center, 325 9th Introduction proatherosclerotic processes, such as LDL oxidation, Avenue, Box 359606, Cardiovascular disease is the leading cause of death and macrophage activation, and platelet adhesion (2,6). Seattle, WA 98104. disability among patients on chronic dialysis, account- Among patients on chronic dialysis, absolute HDL Email: kewang@ uw.edu ing for approximately one half of all deaths (1). CKD is cholesterol concentrations are inconsistently associ- associated with a unique pattern of dyslipidemia that may ated with cardiovascular risk, suggesting that func- contribute to cardiovascular risk. Specific lipid abnormal- tional alterations of HDL particles may be clinically ities observed in patients with CKD include an increase in important (7). In this regard, several studies have circulating triglycerides, a reduction in total HDL choles- shown lower cholesterol efflux capacity and a greater terol, and a disposition towards dense atherogenic LDL abundance of inflammatory proteins in HDL particles particles (2,3). Hepatic hydroxymethyl glutaryl–CoA re- obtained from patients on chronic hemodialysis com- ductase inhibitors, which specifically target LDL choles- pared with healthy individuals (8–12). However, these terol, do not reduce cardiovascular outcomes in clinical findings do not distinguish the potential effects of trials of patients on chronic dialysis (4,5). longstanding kidney failure from those of the hemo- HDL particles are circulating noncovalently bound dialysis procedure itself, which stimulates proinflam- assemblies of lipids and proteins that mediate reverse matory and prothrombotic pathways. A recent study of cholesterol transport by retrieving excess cholesterol HDL composition among patients not on dialysis from peripheral tissues. HDL particles exhibit anti- across a wide range of kidney function showed asso- oxidative and anti-inflammatory functions and inhibit ciations of lower eGFR with higher HDL-associated www.cjasn.org Vol 13 August, 2018 Copyright © 2018 by the American Society of Nephrology 1225 1226 Clinical Journal of the American Society of Nephrology concentrations of retinol binding protein 4 (RBP4) and APOC3 chromatography-tandem mass spectrometry on a Q-Exactive and lower HDL-associated concentrations of APOL1 and mass spectrometer (Thermo). The same amount of HDL vitronectin (13). protein (10 mg) was analyzed for each sample. We sought to estimate the effect of the hemodialysis procedure on the HDL proteome. To accomplish this goal, Data Reduction we measured 38 HDL-associated proteins in 143 patients The peak area for each endogenous peptide was nor- who recently initiated hemodialysis and 110 patients who malized to the peak area of an internal standard peptide had advanced CKD and were awaiting dialysis initiation in from the stable isotope–labeled internal standard protein to the Hemodialysis Fistula Maturation (HFM) Study. We generate a peak area ratio for each peptide in each sample. hypothesized that dialysis initiation would be associated Peak area ratios for each protein were averaged, and protein with structural transformation of the HDL proteome to a peak area ratios were normalized to protein peak area ratios fl more in ammatory phenotype, which in turn, would lead for calibrator samples included in each digestion batch. to impaired HDL function. Because the same amount of HDL protein was used for each sample, changes in relative protein concentrations represent changes in the amount of protein per 10 mgtotalHDL Materials and Methods protein. We quantified 38 proteins that are abundant in the Study Population HDL proteome and have been previously assayed using the We analyzed plasma samples collected from the HFM same protocol (13,15–17). Study, a prospective cohort study of arteriovenous fistula (AVF) maturation that enrolled 602 participants undergoing planned creation of an upper extremity AVF at seven study Cholesterol Efflux Capacity fl sites across the United States (14). The institutional review Serum HDL cholesterol ef ux capacity was assessed in 3 boards of each of these institutions and the Data Coordinat- J774 macrophages labeled with H-cholesterol and stimulated fl ing Center approved the study. Each participant provided with a cAMP analog (18). Ef ux by the ATP binding cas- informed consent before study enrollment. The HFM Study sette transporter A1 (ABCA1) pathway was measured with participants were either receiving maintenance dialysis or BHK cells expressing mifepristone-inducible human ABCA1 3 fl expected to start dialysis within 3 months of planned AVF that were radiolabeled with H-cholesterol (19). Ef ux of 3 surgery. Exclusion criteria were age ,18 years old, age $80 H-cholesterol was measured after 4 hours of incubation in years old if not receiving maintenance dialysis, or a life medium with or without serum depleted of apoB (2.8% vol/ fl expectancy of ,9 months. For purposes of this ancillary study, vol). The serum HDL cholesterol ef ux capacity is calculated 3 we excluded 349 participants from our analysis (288 without as the amount of H-cholesterol in the media normalized to 3 adequate plasma sample for HDL proteome assays, 59 HFM the total amount of H-cholesterol in the media and the cells. Study participants who had received maintenance dialysis for .1 year, and two participants who were receiving peritoneal Ascertainment of Other Study Data dialysis), leaving a final analytic sample of 253 participants. At the baseline study visit, the HFM Study personnel used We assessed cholesterol efflux capacity in a subset of 80 study patient interviews and medical records to obtain patient de- participants; we matched 40 participants who initiated he- mographics; medical histories; ESRD history, including modal- modialysis to 40 participants with advanced CKD according ity and number of years undergoing dialysis; social habits; and to age within one year, race, and sex. home medication use. Demographics included age, sex, self- reported race and ethnicity, and smoking status. Comorbid HDL Isolation and Quantification of HDL-Associated conditions included a prevalent history of cardiovascular Proteins disease (angina, myocardial infarction, coronary artery bypass, Blood samples were collected at a baseline preoperative or percutaneous
Recommended publications
  • Upregulation of Peroxisome Proliferator-Activated Receptor-Α And
    Upregulation of peroxisome proliferator-activated receptor-α and the lipid metabolism pathway promotes carcinogenesis of ampullary cancer Chih-Yang Wang, Ying-Jui Chao, Yi-Ling Chen, Tzu-Wen Wang, Nam Nhut Phan, Hui-Ping Hsu, Yan-Shen Shan, Ming-Derg Lai 1 Supplementary Table 1. Demographics and clinical outcomes of five patients with ampullary cancer Time of Tumor Time to Age Differentia survival/ Sex Staging size Morphology Recurrence recurrence Condition (years) tion expired (cm) (months) (months) T2N0, 51 F 211 Polypoid Unknown No -- Survived 193 stage Ib T2N0, 2.41.5 58 F Mixed Good Yes 14 Expired 17 stage Ib 0.6 T3N0, 4.53.5 68 M Polypoid Good No -- Survived 162 stage IIA 1.2 T3N0, 66 M 110.8 Ulcerative Good Yes 64 Expired 227 stage IIA T3N0, 60 M 21.81 Mixed Moderate Yes 5.6 Expired 16.7 stage IIA 2 Supplementary Table 2. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis of an ampullary cancer microarray using the Database for Annotation, Visualization and Integrated Discovery (DAVID). This table contains only pathways with p values that ranged 0.0001~0.05. KEGG Pathway p value Genes Pentose and 1.50E-04 UGT1A6, CRYL1, UGT1A8, AKR1B1, UGT2B11, UGT2A3, glucuronate UGT2B10, UGT2B7, XYLB interconversions Drug metabolism 1.63E-04 CYP3A4, XDH, UGT1A6, CYP3A5, CES2, CYP3A7, UGT1A8, NAT2, UGT2B11, DPYD, UGT2A3, UGT2B10, UGT2B7 Maturity-onset 2.43E-04 HNF1A, HNF4A, SLC2A2, PKLR, NEUROD1, HNF4G, diabetes of the PDX1, NR5A2, NKX2-2 young Starch and sucrose 6.03E-04 GBA3, UGT1A6, G6PC, UGT1A8, ENPP3, MGAM, SI, metabolism
    [Show full text]
  • The Expression of the Human Apolipoprotein Genes and Their Regulation by Ppars
    CORE Metadata, citation and similar papers at core.ac.uk Provided by UEF Electronic Publications The expression of the human apolipoprotein genes and their regulation by PPARs Juuso Uski M.Sc. Thesis Biochemistry Department of Biosciences University of Kuopio June 2008 Abstract The expression of the human apolipoprotein genes and their regulation by PPARs. UNIVERSITY OF KUOPIO, the Faculty of Natural and Environmental Sciences, Curriculum of Biochemistry USKI Juuso Oskari Thesis for Master of Science degree Supervisors Prof. Carsten Carlberg, Ph.D. Merja Heinäniemi, Ph.D. June 2008 Keywords: nuclear receptors; peroxisome proliferator-activated receptor; PPAR response element; apolipoprotein; lipid metabolism; high density lipoprotein; low density lipoprotein. Lipids are any fat-soluble, naturally-occurring molecules and one of their main biological functions is energy storage. Lipoproteins carry hydrophobic lipids in the water and salt-based blood environment for processing and energy supply in liver and other organs. In this study, the genomic area around the apolipoprotein genes was scanned in silico for PPAR response elements (PPREs) using the in vitro data-based computer program. Several new putative REs were found in surroundings of multiple lipoprotein genes. The responsiveness of those apolipoprotein genes to the PPAR ligands GW501516, rosiglitazone and GW7647 in the HepG2, HEK293 and THP-1 cell lines were tested with real-time PCR. The APOA1, APOA2, APOB, APOD, APOE, APOF, APOL1, APOL3, APOL5 and APOL6 genes were found to be regulated by PPARs in direct or secondary manners. Those results provide new insights in the understanding of lipid metabolism and so many lifestyle diseases like atherosclerosis, type 2 diabetes, heart disease and stroke.
    [Show full text]
  • 1 CETP Inhibition Improves HDL Function but Leads to Fatty Liver and Insulin Resistance in CETP-Expressing Transgenic Mice on A
    Page 1 of 55 Diabetes CETP inhibition improves HDL function but leads to fatty liver and insulin resistance in CETP-expressing transgenic mice on a high-fat diet Lin Zhu1,2, Thao Luu2, Christopher H. Emfinger1,2, Bryan A Parks5, Jeanne Shi2,7, Elijah Trefts3, Fenghua Zeng4, Zsuzsanna Kuklenyik5, Raymond C. Harris4, David H. Wasserman3, Sergio Fazio6 and John M. Stafford1,2,3,* 1VA Tennessee Valley Healthcare System, 2Division of Diabetes, Endocrinology, & Metabolism, 3Department of Molecular Physiology and Biophysics, 4Devision of Nephrology and Hypertension, Vanderbilt University School of Medicine. 5Division of Laboratory Sciences, Centers for Disease Control and Prevention. 6The Center for Preventive Cardiology at the Knight Cardiovascular Institute, Oregon Health & Science University. 7Trinity College of Art and Science, Duke University. * Address correspondence and request for reprints to: John. M. Stafford, 7445D Medical Research Building IV, Nashville, TN 37232-0475, phone (615) 936-6113, fax (615) 936- 1667 Email: [email protected] Running Title: CETP inhibition and insulin resistance Word Count: 5439 Figures: 7 Tables: 1 1 Diabetes Publish Ahead of Print, published online September 13, 2018 Diabetes Page 2 of 55 Abstract In clinical trials inhibition of cholesteryl ester transfer protein (CETP) raises HDL cholesterol levels but doesn’t robustly improve cardiovascular outcomes. About 2/3 of trial participants were obese. Lower plasma CETP activity is associated with increased cardiovascular risk in human studies, and protective aspects of CETP have been observed in mice fed a high-fat diet (HFD) with regard to metabolic outcomes. To define if CETP inhibition has different effects depending on the presence of obesity, we performed short- term anacetrapib treatment in chow- and HFD-fed CETP-transgenic mice.
    [Show full text]
  • Apolipoprotein A4 Gene (APOA4) (Chromosome 11/Haplotypes/Intron Loss/Coronary Artery Disease/Apoal-APOC3 Deficiency) Sotirios K
    Proc. Natl. Acad. Sci. USA Vol. 83, pp. 8457-8461, November 1986 Biochemistry Structure, evolution, and polymorphisms of the human apolipoprotein A4 gene (APOA4) (chromosome 11/haplotypes/intron loss/coronary artery disease/APOAl-APOC3 deficiency) SOTIRios K. KARATHANASIS*t, PETER OETTGEN*t, ISSAM A. HADDAD*t, AND STYLIANOS E. ANTONARAKISt *Laboratory of Molecular and Cellular Cardiology, Department of Cardiology, Children's Hospital and tDepartment of Pediatrics, Harvard Medical School, Boston, MA 02115; and tDepartment of Pediatrics, Genetics Unit, The Johns Hopkins University, School of Medicine, Baltimore, MD 21205 Communicated by Donald S. Fredrickson, July 11, 1986 ABSTRACT The genes coding for three proteins of the APOC3 deficiency and premature coronary artery disease plasma lipid transport system-apolipoproteins Al (APOAI), (13-15), hypertriglyceridemia (16), and hypoalphalipopro- C3 (APOC3), and A4 (APOA4)-are closely linked and teinemia (17). tandemly organized on the long arm ofhuman chromosome 11. In this report the nucleotide sequence of the human In this study the human APOA4 gene has been isolated and APOA4 gene has been determined. The results suggest that characterized. In contrast to APOAl and APOC3 genes, which the APOAI, APOC3, and APOA4 genes were derived from a contain three introns, the APOA4 gene contains only two. An common evolutionary ancestor and indicate that during intron interrupting the 5' noncoding region of the APOA1 and evolution the APOA4 gene lost one of its ancestral introns. APOC3 mRNAs is absent from the corresponding position of Screening of the APOA4 gene region for polymorphisms the APOA4 mRNA. However, similar to APOAI and APOC3 showed that two different Xba I restriction endonuclease genes, the introns of the APOA4 gene separate nucleotide sites are polymorphic in Mediterranean and Northern Euro- sequences coding for the signal peptide and the amphipathic pean populations.
    [Show full text]
  • Apoa4 Antibody Cat
    ApoA4 Antibody Cat. No.: 6269 Western blot analysis of ApoA4 in chicken small intestine tissue lysate with ApoA4 antibody at 1 μg/mL Specifications HOST SPECIES: Rabbit SPECIES REACTIVITY: Chicken, Human ApoA4 antibody was raised against a 20 amino acid synthetic peptide near the carboxy terminus of chicken ApoA4. IMMUNOGEN: The immunogen is located within the last 50 amino acids of ApoA4. TESTED APPLICATIONS: ELISA, WB ApoA4 antibody can be used for detection of ApoA4 by Western blot at 1 μg/mL. APPLICATIONS: Antibody validated: Western Blot in chicken samples. All other applications and species not yet tested. POSITIVE CONTROL: 1) Chicken Small Intestine Lysate Properties PURIFICATION: ApoA4 Antibody is affinity chromatography purified via peptide column. CLONALITY: Polyclonal ISOTYPE: IgG September 24, 2021 1 https://www.prosci-inc.com/apoa4-antibody-6269.html CONJUGATE: Unconjugated PHYSICAL STATE: Liquid BUFFER: ApoA4 Antibody is supplied in PBS containing 0.02% sodium azide. CONCENTRATION: 1 mg/mL ApoA4 antibody can be stored at 4˚C for three months and -20˚C, stable for up to one STORAGE CONDITIONS: year. As with all antibodies care should be taken to avoid repeated freeze thaw cycles. Antibodies should not be exposed to prolonged high temperatures. Additional Info OFFICIAL SYMBOL: APOA4 ALTERNATE NAMES: ApoA4 Antibody: Apolipoprotein A-IV, Apolipoprotein A4, Apo-AIV ACCESSION NO.: NP_990269 PROTEIN GI NO.: 71773110 GENE ID: 337 USER NOTE: Optimal dilutions for each application to be determined by the researcher. Background and References ApoA4 Antibody: Apolipoprotein A4 (also known as ApoA-IV) is a plasma protein that is O- linked glycoprotein after proteolytic processing.
    [Show full text]
  • Convergence of Genes Implicated in Alzheimer's Disease on the Cerebral
    Neurochemistry International 50 (2007) 12–38 www.elsevier.com/locate/neuint Review Convergence of genes implicated in Alzheimer’s disease on the cerebral cholesterol shuttle: APP, cholesterol, lipoproteins, and atherosclerosis C.J. Carter 176 Downs Road, Hastings, East Sussex TN34 2DZ, UK Received 5 April 2006; received in revised form 30 June 2006; accepted 11 July 2006 Available online 12 September 2006 Abstract Polymorphic genes associated with Alzheimer’s disease (see www.polygenicpathways.co.uk) delineate a clearly defined pathway related to cerebral and peripheral cholesterol and lipoprotein homoeostasis. They include all of the key components of a glia/neurone cholesterol shuttle including cholesterol binding lipoproteins APOA1, APOA4, APOC1, APOC2, APOC3, APOD, APOE and LPA, cholesterol transporters ABCA1, ABCA2, lipoprotein receptors LDLR, LRP1, LRP8 and VLDLR, and the cholesterol metabolising enzymes CYP46A1 and CH25H, whose oxysterol products activate the liver X receptor NR1H2 and are metabolised to esters by SOAT1. LIPA metabolises cholesterol esters, which are transported by the cholesteryl ester transport protein CETP. The transcription factor SREBF1 controls the expression of most enzymes of cholesterol synthesis. APP is involved in this shuttle as it metabolises cholesterol to 7-betahydroxycholesterol, a substrate of SOAT1 and HSD11B1, binds to APOE and is tethered to LRP1 via APPB1, APBB2 and APBB3 at the cytoplasmic domain and via LRPAP1 at the extracellular domain. APP cleavage products are also able to prevent cholesterol binding to APOE. BACE cleaves both APP and LRP1. Gamma-secretase (PSEN1, PSEN2, NCSTN) cleaves LRP1 and LRP8 as well as APP and their degradation products control transcription factor TFCP2, which regulates thymidylate synthase (TS) and GSK3B expression.
    [Show full text]
  • Apolipoprotein (Apo) A-IV Is a Protein Synthesized by the Small Intestine In
    UNIVERSITY OF CINCINNATI Date:___________________ I, _________________________________________________________, hereby submit this work as part of the requirements for the degree of: in: It is entitled: This work and its defense approved by: Chair: _______________________________ _______________________________ _______________________________ _______________________________ _______________________________ THE STRUCTURE AND FUNCTION OF APOLIPOPROTEIN A-IV By Kevin Joseph Pearson B.S., University of Pittsburgh, 1999 May 2005 A dissertation presented to the faculty of the University of Cincinnati in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Pathobiology and Molecular Medicine Committee Members W. Sean Davidson-Chair Patrick Tso Ronald J. Jandacek Min Liu Simon L. Newman Randall R. Sakai THESIS ABSTRACT Apolipoprotein (apo) A-IV is a protein synthesized by the small intestine in response to lipid absorption. It has been proposed to play a role in cholesterol efflux, lipoprotein metabolism and food intake. Unfortunately, little information on its structure/function relationship is known. Therefore, it was important to establish a recombinant expression system for apoA-IV so deletion mutagenesis could be performed to achieve the specific aims. The following aims address the hypothesis that specific regions of apoA-IV are involved in its ability to interact with lipid and inhibit food intake. Aim 1: Determine the region of apoA-IV that is responsible for its ability to bind lipid as well as to identify the generalities of its structure. Initially, it was found that removing the C-terminal 44 amino acids from human apoA-IV caused a significant increase in lipid binding ability as compared to WT. Eventually, a smaller region from amino acid 333-343 was established as the ‘inhibitory’ region of apoA-IV at the C- terminus.
    [Show full text]
  • MUSCLE'go'terms
    MUSCLE'GO'Terms AtgΔ/Δ;Fed AtgΔ/Δ;Fed Atg7flox/flox;Fed/AtgΔ/Δ;Fed Upregulated Downregulated Comparison Genes AtgΔ/Δ;Fed Upregulated Genes Genes AtgΔ/Δ;Fed Downregulated Genes p-value Bonferroni GO:0060537 muscle tissue development 3 TIPARP, FOXP1, CSRP3 -9 MEF2C, TNNT2, RXRG, MYOG, PAK1, RARB, CHRNA1, TPM1, TGFB2 3.03E-06 0.00445 GO:0014706 striated muscle tissue development 2 FOXP1, CSRP3 -9 MEF2C, TNNT2, RXRG, MYOG, PAK1, RARB, CHRNA1, TPM1, TGFB2 1.09E-05 0.015959 AtgΔ/Δ;Fasted AtgΔ/Δ;Fasted Atg7Δ/Δ;Fed/AtgΔ/Δ;Fasted Upregulated Downregulated Comparison Genes AtgΔ/Δ;Fasted Upregulated Genes Genes AtgΔ/Δ;Fasted Downregulated Genes p-value Bonferroni CXCL13, MBL2, ORM1, FGB, PLG, CFI, F2, KNG1, FGG, SAA2, FGA, CRP, HC, ARG1, C4BP, SERPINA3N, F9, C8A, AHSG, APOH, ORM2, SERPINA1A, SAA1, SAA4, F13B, SERPINC1, F5, SERPINA1B, C9, CXCL1, SERPINF2, GO:0009611 PROC, F12, KLKB1, SLC7A2, MBL1, SERPIND1, ORM3, SAA3, C8B, CD14, response to wounding 52 F7, MST1, C8G, C2, CXCL10, PPARA, F10, CXCL2, CHI3L3, C3, KLF6 -4 CCL21A, CCL8, PF4, EFEMP2 1.70E-20 3.73E-17 MBL1, MBL2, C9, C3, CRP, AHSG, SERPINA1B, SAA2, SAA1, SERPINA1A, GO:0002526 C2, CFI, HC, SAA3, SAA4, C8G, C8A, ORM1, C8B, SERPINA3N, C4BP, acute inflammatory response 26 SLC7A2, SERPINF2, F2, ORM2, ORM3 0 5.78E-17 2.43E-13 EGLN3, UOX, MOSC1, CYP2E1, HGD, HPD, CYP2D26, CYP2C68, CYP2C70, CYP3A25, PAH, TDO2, RDH7, CYP7B1, CYP2D10, AASS, CYP3A13, CYP2B10, CYP8B1, H6PD, CYP2C29, CYP1A2, CYP2C37, F5, CYP2C50, CYP17A1, CYP2A4, BC089597, CYP3A11, CYP2A12, CYP2F2, CDO1, HSD17B2, DPYD, ALDH8A1, CYP4A10,
    [Show full text]
  • Molecular Phyloecology Suggests a Trophic Shift Concurrent with the Evolution of the First Birds
    ARTICLE https://doi.org/10.1038/s42003-021-02067-4 OPEN Molecular phyloecology suggests a trophic shift concurrent with the evolution of the first birds ✉ Yonghua Wu 1,2 Birds are characterized by evolutionary specializations of both locomotion (e.g., flapping flight) and digestive system (toothless, crop, and gizzard), while the potential selection pressures responsible for these evolutionary specializations remain unclear. Here we used a recently developed molecular phyloecological method to reconstruct the diets of the ancestral archosaur and of the common ancestor of living birds (CALB). Our results suggest a trophic shift from carnivory to herbivory (fruit, seed, and/or nut eater) at the archosaur-to- 1234567890():,; bird transition. The evolutionary shift of the CALB to herbivory may have essentially made them become a low-level consumer and, consequently, subject to relatively high predation risk from potential predators such as gliding non-avian maniraptorans, from which birds descended. Under the relatively high predation pressure, ancestral birds with gliding cap- ability may have then evolved not only flapping flight as a possible anti-predator strategy against gliding predatory non-avian maniraptorans but also the specialized digestive system as an evolutionary tradeoff of maximizing foraging efficiency and minimizing predation risk. Our results suggest that the powered flight and specialized digestive system of birds may have evolved as a result of their tropic shift-associated predation pressure. 1 School of Life Sciences, Northeast Normal University, Changchun, China. 2 Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, ✉ Northeast Normal University, Changchun, China. email: [email protected] COMMUNICATIONS BIOLOGY | (2021) 4:547 | https://doi.org/10.1038/s42003-021-02067-4 | www.nature.com/commsbio 1 ARTICLE COMMUNICATIONS BIOLOGY | https://doi.org/10.1038/s42003-021-02067-4 iet plays a fundamental role in the life of an animal.
    [Show full text]
  • HIV-1 and Amyloid Beta Remodel Proteome of Brain Endothelial Extracellular Vesicles
    International Journal of Molecular Sciences Article HIV-1 and Amyloid Beta Remodel Proteome of Brain Endothelial Extracellular Vesicles Ibolya E. András, Brice B. Sewell and Michal Toborek * Department of Biochemistry and Molecular Biology, University of Miami School of Medicine, Miami, FL 33136-1019, USA; [email protected] (I.E.A.); [email protected] (B.B.S.) * Correspondence: [email protected] Received: 11 March 2020; Accepted: 7 April 2020; Published: 15 April 2020 Abstract: Amyloid beta (Aβ) depositions are more abundant in HIV-infected brains. The blood–brain barrier, with its backbone created by endothelial cells, is assumed to be a core player in Aβ homeostasis and may contribute to Aβ accumulation in the brain. Exposure to HIV increases shedding of extracellular vesicles (EVs) from human brain endothelial cells and alters EV-Aβ levels. EVs carrying various cargo molecules, including a complex set of proteins, can profoundly affect the biology of surrounding neurovascular unit cells. In the current study, we sought to examine how exposure to HIV, alone or together with Aβ, affects the surface and total proteomic landscape of brain endothelial EVs. By using this unbiased approach, we gained an unprecedented, high-resolution insight into these changes. Our data suggest that HIV and Aβ profoundly remodel the proteome of brain endothelial EVs, altering the pathway networks and functional interactions among proteins. These events may contribute to the EV-mediated amyloid pathology in the HIV-infected brain and may be relevant to HIV-1-associated neurocognitive disorders. Keywords: HIV-1; amyloid beta; extracellular vesicles; blood–brain barrier 1. Introduction HIV-infected brains tend to have enhanced amyloid beta (Aβ) deposition [1–6], mostly in the perivascular space [3,7–9].
    [Show full text]
  • The Mechanism Underlying the Synergetic Hypocholesterolemic Effect of Sesamin and Α-Tocopherol in Rats Fed a High-Cholesterol Diet
    J Pharmacol Sci 115, 408 – 416 (2011) Journal of Pharmacological Sciences © The Japanese Pharmacological Society Full Paper The Mechanism Underlying the Synergetic Hypocholesterolemic Effect of Sesamin and α-Tocopherol in Rats Fed a High-Cholesterol Diet Tomohiro Rogi1,*, Namino Tomimori1, Yoshiko Ono1, and Yoshinobu Kiso1 1Institute for Health Care Science, Suntory Wellness Limited, 1-1-1 Wakayamadai, Shimamoto-cho, Mishima-gun, Osaka 618-8503, Japan Received November 5, 2010; Accepted January 24, 2011 Abstract. Sesamin is a major lignan in sesame seed. We confirmed that ingestion of sesamin and α-tocopherol synergistically reduced the concentration of blood cholesterol in rats given a high-cholesterol diet. To elucidate the molecular mechanism behind this effect, we analyzed the gene-expression profiles in rat liver after co-ingestion of sesamin and α-tocopherol. Six-week-old male Sprague-Dawley rats were fed a 1% cholesterol diet (HC) or HC containing 0.2% sesamin, 1% α-tocopherol or sesamin + α-tocopherol for 10 days. Blood samples were collected on days 1, 3, 7, and 10 and livers were excised on day 10. The gene expressions of ATP-binding cassette, sub-family G (WHITE), members 5 (ABCG5) and 8 (ABCG8) were significantly increased, while the gene expression of apolipoprotein (Apo) A4 was significantly decreased. ABCG5 and ABCG8 form a functional heterodimer that acts as a cholesterol efflux transporter, which contributes to the excretion of cholesterol from the liver. ApoA4 controls the secretion of ApoB, which is a compo- nent of low-density-lipoprotein cholesterol. These studies indicate that the cholesterol-lowering mechanism underlying the effects of co-ingestion of sesamin and α-tocopherol might be attribut- able to increased biliary excretion of cholesterol and reduced ApoB secretion into the blood- stream.
    [Show full text]
  • In This Dissertation, I Describe My Genome-Wide Linkage Studies Of
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by ETD - Electronic Theses & Dissertations INTEGRATED ANALYSIS OF GENETIC AND PROTEOMIC DATA By David Michael Reif Dissertation Submitted to the Faculty of the Graduate School of Vanderbilt University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in Human Genetics December, 2006 Nashville, Tennessee Approved: Professor James E. Crowe Professor Douglas H. Fisher Professor Jonathan L. Haines Professor Jason H. Moore Professor Scott M. Williams Copyright © 2006 David Michael Reif All Rights Reserved This work is dedicated to my family—Mom, Dad, and Dan—for teaching me how to work hard and play nice with others. And to Alison, for making me happier than I have ever been—no matter what else is going on. iii ACKNOWLEDGMENTS My graduate training was supported by the Vanderbilt University Interdisciplinary Graduate Program (1st year), the NIH Human Genetics Training Grant (2nd-3rd years), and my mentor, Jason H. Moore (4th-5th years). I want to acknowledge the vast contributions and support of the scientists and staff at both Vanderbilt and Dartmouth Medical School. In the Vanderbilt Center for Human Genetics Research, I wish to thank Jackie Bartlett, Kylee Spencer, Tricia Thornton-Wells, Jacob McCauley, Scott Dudek, Jeff Canter, Marylyn Ritchie, Kim Taylor, Alicia Davis, Lynn Roberts, and Maria Comer. I thank Chun Li for his insights into teaching and his philosophy on statistics in science. At Dartmouth, I would like to thank Todd Holden and Nate Barney. Special thanks go to Bill White at Dartmouth for his friendship and extensive help with computational issues, as well as stimulating discussions on topics relating to science and beyond.
    [Show full text]