Prognostic Value of TIMM50 Expression in Colorectal Cancer

Total Page:16

File Type:pdf, Size:1020Kb

Prognostic Value of TIMM50 Expression in Colorectal Cancer Clinical research Prognostic value of TIMM50 expression in colorectal cancer Bo Sun1, Jun Wang2, Yan-Feng Zhu3, Zhen-Yang Li2, Jian-Bin Xiang2, Zong-You Chen2, Zhi-Gang He4, Xiao-Dong Gu2 1Department of Gastric Surgery, Fudan University Shanghai Cancer Center, Shanghai, Corresponding authors: China 200032 Zhi-Gang He 2Department of General Surgery, Huashan Hospital, Fudan University, Shanghai, Department of General China 200040 Surgery 3Department of Nursing, Huashan Hospital, Fudan University, Shanghai, China 200040 Shanghai Songjiang District 4Department of General Surgery, Shanghai Songjiang District Central Hospital, Central Hospital Shanghai, China 201600 746 Zhongshan Middle Road Shanghai, China 201600 Submitted: 8 April 2019 Phone: +86-21-67720001 Accepted: 12 September 2019 E-mail: [email protected] Arch Med Sci Xiao-Dong Gu DOI: https://doi.org/10.5114/aoms.2020.94487 Department of General Surgery Copyright © 2020 Termedia & Banach Huashan Hospital Fudan University 12 Wulumuqi Middle Road Abstract Shanghai, China 200040 Phone: +86-21-52887333 Translocase of the inner mitochondrial membrane 50 (TIMM50) Introduction: E-mail: [email protected] is universally considered to play a key role in several malignancies. Howev- er, its role in predicting colorectal cancer (CRC) patient prognosis remains unclear. Material and methods: A total of 192 CRC patients (123 men and 69 women) who underwent radical resection participated in this study. The patients were followed up every three months after surgery for five years. TIMM50 expression in tumour tissues was measured by quantitative real-time PCR, Western blotting and immunohistochemistry. TIMM50 expression was stud- ied to assess correlations with clinicopathological factors and survival time. Results: TIMM50 expression increased significantly in CRC tumour tis- sues. Moreover, high TIMM50 expression was related to pathologic stage (p = 0.043), N stage (p = 0.048) and distant metastasis (p = 0.015), but TIMM50 expression was not related to other clinical factors. A Kaplan-Meier survival analysis indicated that patients with low TIMM50 expression had a longer overall survival than those with high TIMM50 expression (p = 0.002). Fur- thermore, distant metastasis and high TIMM50 expression were confirmed as independent prognostic factors for the overall survival of CRC patients in a multivariate analysis (p = 0.003). Conclusions: TIMM50 may be a key factor for monitoring CRC and a new prog- nosis indicator for CRC patients. Key words: colorectal cancer, translocase of the inner mitochondrial membrane 50, prognosis, survival. Introduction Colorectal cancer (CRC) is known as the most common gastrointes- tinal malignancy and one of the leading causes of cancer death world- wide [1, 2]. The survival of CRC patients has been improved by radical re- section combined with adjuvant chemoradiotherapy [3], but recurrence or distant metastasis of CRC occurs in most patients and is the primary cause of treatment failure [4]. Therefore, a suitable indicator of the prog- nosis of CRC patients is pivotal to treatment in the clinic. Bo Sun, Jun Wang, Yan-Feng Zhu, Zhen-Yang Li, Jian-Bin Xiang, Zong-You Chen, Zhi-Gang He, Xiao-Dong Gu Translocase of the inner mitochondrial mem- Immunohistochemistry analysis of TIMM50 brane 50 (TIMM50) is an essential component Immunohistochemistry (IHC) was performed of the TIM23 complex, which mediates the trans- strictly in accordance with the manufacturer’s location of transit peptide-containing proteins instructions. In brief, tissue sections were cut to across the mitochondrial inner membrane [5, 6]. 3-μm thickness and placed on slides. The slides In humans, two isoforms of TIMM50 have been were incubated for 1 h at 72°C, immersed in xy- reported: a short TIMM50S (353 amino acids) lene twice and rehydrated with graded ethanol. isoform and a long TIMM50L (456 amino acids) The slides were washed with PBS 5 times. The sec- isoform. TIMM50S exists in mitochondria as part tions were immersed in sodium citrate buffer (pH of the TIM23 complex, whereas TIMM50L targets 6.0) for 30 min at 95°C to enhance antigen re- the nucleus due to the presence of an internal nu- trieval. The sections were placed in 3% hydrogen clear localization signal [7–9]. TIMM50 has been peroxide for 10 min at room temperature to block studied in tumour progression. Gao et al. [10] re- endogenous peroxidase activity. Then, the slices vealed that loss of TIMM50 suppressed cancer cell were incubated for 24 h with a specific primary proliferation and induced cancer cell apoptosis in antibody for TIMM50 (1 : 100 dilution; Santa Cruz breast cancer. Zhang et al. [11] also found that Biotechnology Inc., Santa Cruz, USA). After wash- overexpression of TIMM50 promoted tumour pro- ing with PBST buffer, the slices were incubated gression by phosphorylating ERK/P90RSK in non- with a goat anti-mouse biotinylated antibody for small cell lung cancer cells, and they predicted 1 h. Colour development was carried out using TIMM50 to be a prognostic marker in non-small 3,3ʹ-diaminobenzidine (DAB), and counterstaining cell lung cancer patients. Nevertheless, whether was performed using haematoxylin. After stain- TIMM50 is a biomarker for predicting the progno- ing, the sections were dehydrated with increasing sis of CRC patients remains unknown. concentrations of ethanol and xylene. To investigate the prognostic role of TIMM50 The staining results were evaluated by two ex- expression and assess the potential connection perienced pathologists in a double-blind manner. between TIMM50 expression and clinicopatholo- A semi-quantitative method was applied to judge gical characteristics in CRC, we performed immu- the percentage of positive cells under the mi- nohistochemistry on 192 CRC patient samples; we croscope and the staining intensity. The number found that TIMM50 may be a sensitive biomarker of positive cells was observed in 5 high power for the prognosis of CRC patients. fields (×200) for each slice, and the percentage of positive cells was counted. Positive colour in- Material and methods tensity was scored as 0 (normal staining), 1 (weak Patients and tissue samples staining), 2 (intermediate staining), and 3 (strong staining). The percentage of positive cells was Colorectal cancer patients (123 men and 69 scored as 1 (< 25%), 2 (26–50%), 3 (51–75%) and women) who had undergone radical resection 4 (> 75%) [3]. The two scores were multiplied to from May 2013 to April 2018 participated in this obtain the final score. TIMM50 expression was de- study. None of the patients received chemoradio- fined as low for a score < 6 and high for a score > 6. therapy prior to surgery. The patients with colon cancers underwent the same surgical procedure Quantitative real-time PCR for complete mesocolic excision. The patients with rectal cancers underwent the same surgical proce- Total RNA was extracted from tumour tissues and dure for total mesorectal excision. This study was adjacent tissues with Trizol homogenization buffer approved by the Ethics Committee of Huashan (Takara Bio. Inc., Takara, Japan); then, according Hospital. Written consent was provided by all par- to the PrimeScript RT reagent kit protocol (Takara ticipants in this study. Tumour and normal tissues Bio. Inc.), RNA was reverse transcribed into cDNA. were procured from patients involved in this study. The cDNA was amplified by quantitative real-time The tissues were snap-frozen after resection and PCR using specific primers for TIMM50 (forward: stored in liquid nitrogen. The patients were fol- 5ʹ-TTCCTGATGAGTTCGACAATG-3ʹ; reverse: 5ʹ-AGCTC- lowed up every three months after surgery for CAAAACGAGCGTGTA-3ʹ) and GAPDH (forward: five years. During follow-up, regular evaluations 5’-CTGACTTCAACAGCGACACC-3ʹ; reverse: 5ʹ-TAG included medical history, physical examination, CCA A ATTCGTTGTCATACC-3ʹ). The reaction volume complete blood count, thoracic computed tomog- was 20 μl (including 10 μl of SYBR green mix, 0.5 μl raphy (CT), and abdominal ultrasound or CT. Dis- of each primer, 1 μl of cDNA, and 8 μl of ddH2O), and ease progression was determined by the treating samples were detected with an ABI 7500 Real-Time physician based on the available information, in- PCR system. GAPDH was used as an internal refer- cluding clinical assessments, radiologic examina- ence gene, and the relative TIMM50 expression was tion, and pathology reports. determined using the Livak method (2–ΔΔCt). 2 Arch Med Sci Prognostic value of TIMM50 expression in colorectal cancer Western blotting Results The tumour and adjacent tissue samples were Immunohistochemical staining lysed completely in extraction buffer. The super- characteristics natants were centrifuged and collected. The pro- The samples were from 192 patients from our tein concentrations were determined according hospital. The expression of TIMM50 was detected to the BCA protocol. Equal amounts of protein by immunohistochemical staining. TIMM50 ex- samples (30 μg) were separated by 10% SDS- pression was assessed and scored. The TIMM50 PAGE. Then, the proteins were transferred onto immunohistochemical staining characteristics for polyvinylidene fluoride (PVDF) membranes. colorectal cancers were as follows: staining inten- Next, the PVDF membranes were incubated with sity was 0 (Figure 1A), 1 (Figure 1B), 2 (Figure 1C) primary antibodies at 4°C overnight, including and 3 (Figure 1D). The percentage of positive TIMM50 and GAPDH (1 : 1000, Santa Cruz Biotech- cells was designated as 1 (1–25%) (Figure 1E), nology Inc., Santa Cruz,
Recommended publications
  • A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
    Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated.
    [Show full text]
  • RT² Profiler PCR Array (96-Well Format and 384-Well [4 X 96] Format)
    RT² Profiler PCR Array (96-Well Format and 384-Well [4 x 96] Format) Human Mitochondria Cat. no. 330231 PAHS-087ZA For pathway expression analysis Format For use with the following real-time cyclers RT² Profiler PCR Array, Applied Biosystems® models 5700, 7000, 7300, 7500, Format A 7700, 7900HT, ViiA™ 7 (96-well block); Bio-Rad® models iCycler®, iQ™5, MyiQ™, MyiQ2; Bio-Rad/MJ Research Chromo4™; Eppendorf® Mastercycler® ep realplex models 2, 2s, 4, 4s; Stratagene® models Mx3005P®, Mx3000P®; Takara TP-800 RT² Profiler PCR Array, Applied Biosystems models 7500 (Fast block), 7900HT (Fast Format C block), StepOnePlus™, ViiA 7 (Fast block) RT² Profiler PCR Array, Bio-Rad CFX96™; Bio-Rad/MJ Research models DNA Format D Engine Opticon®, DNA Engine Opticon 2; Stratagene Mx4000® RT² Profiler PCR Array, Applied Biosystems models 7900HT (384-well block), ViiA 7 Format E (384-well block); Bio-Rad CFX384™ RT² Profiler PCR Array, Roche® LightCycler® 480 (96-well block) Format F RT² Profiler PCR Array, Roche LightCycler 480 (384-well block) Format G RT² Profiler PCR Array, Fluidigm® BioMark™ Format H Sample & Assay Technologies Description The Human Mitochondria RT² Profiler PCR Array profiles the expression of 84 genes involved in the biogenesis and function of the cell's powerhouse organelle. The genes monitored by this array include regulators and mediators of mitochondrial molecular transport of not only the metabolites needed for the electron transport chain and oxidative phosphorylation, but also the ions required for maintaining the mitochondrial membrane polarization and potential important for ATP synthesis. Metabolism and energy production are not the only functions of mitochondria.
    [Show full text]
  • Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
    Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase
    [Show full text]
  • Mitochondrial Carriers Regulating Insulin Secretion Profiled in Human Islets Upon Metabolic Stress
    Jiménez-Sánchez et al. Supplementary files Mitochondrial carriers regulating insulin secretion profiled in human islets upon metabolic stress Supplementary Table S1: Clinical Data of the human donors of pancreatic islets, type of analyses performed and tested conditions. Supplementary Table S2: Quantitative data related to the transcriptomic profiles of mitochondrial solute carriers and associated genes in human islets upon metabolic stress. NA: Not applicable, ND: not detected. Supplementary Table S3: Quantitative data related to the transcriptomic profiles of the electron transport chain machinery and related mitochondrial carriers in human islets upon metabolic stress.NA: Not applicable, ND: not detected. Supplementary Table S4: Quantitative data related to the transcriptomic profiles of the outer and inner mitochondrial membrane translocases TOM/TIM machinery in human islets upon metabolic stress.NA: Not applicable, ND: not detected. Supplementary Table S5: Quantitative data related to the transcriptomic profiles of mitochondrial iron transport genes in human islets under metabolic stress. NA: Not applicable, ND: not detected. Supplementary Table S6: Quantitative data related to the transcriptomic profiles of mitochondrial calcium transport genes in human islets upon metabolic stress. NA: Not applicable, ND: not detected. Supplementary Table S7: Primers used for quantitative RT-PCR analysis Supplementary Figure S1: Functional interaction network of human (a) mitochondrial calcium transport genes; (b) outer and inner mitochondrial membrane translocases TOM/TIM machinery; (c) electron transport chain machinery and related carriers; (d) mitochondrial iron transport genes. Nodes were connected using the STRING interaction knowledgebase with a confidence score >0.4. Supplementary Figure S2: Effects of high 25 mM glucose (G25) and 0.4 mM oleate (Olea) or palmitate (Palm) on the transcriptional regulation of the electron transport chain machinery.
    [Show full text]
  • Supplementary Materials
    Supplementary materials Supplementary Table S1: MGNC compound library Ingredien Molecule Caco- Mol ID MW AlogP OB (%) BBB DL FASA- HL t Name Name 2 shengdi MOL012254 campesterol 400.8 7.63 37.58 1.34 0.98 0.7 0.21 20.2 shengdi MOL000519 coniferin 314.4 3.16 31.11 0.42 -0.2 0.3 0.27 74.6 beta- shengdi MOL000359 414.8 8.08 36.91 1.32 0.99 0.8 0.23 20.2 sitosterol pachymic shengdi MOL000289 528.9 6.54 33.63 0.1 -0.6 0.8 0 9.27 acid Poricoic acid shengdi MOL000291 484.7 5.64 30.52 -0.08 -0.9 0.8 0 8.67 B Chrysanthem shengdi MOL004492 585 8.24 38.72 0.51 -1 0.6 0.3 17.5 axanthin 20- shengdi MOL011455 Hexadecano 418.6 1.91 32.7 -0.24 -0.4 0.7 0.29 104 ylingenol huanglian MOL001454 berberine 336.4 3.45 36.86 1.24 0.57 0.8 0.19 6.57 huanglian MOL013352 Obacunone 454.6 2.68 43.29 0.01 -0.4 0.8 0.31 -13 huanglian MOL002894 berberrubine 322.4 3.2 35.74 1.07 0.17 0.7 0.24 6.46 huanglian MOL002897 epiberberine 336.4 3.45 43.09 1.17 0.4 0.8 0.19 6.1 huanglian MOL002903 (R)-Canadine 339.4 3.4 55.37 1.04 0.57 0.8 0.2 6.41 huanglian MOL002904 Berlambine 351.4 2.49 36.68 0.97 0.17 0.8 0.28 7.33 Corchorosid huanglian MOL002907 404.6 1.34 105 -0.91 -1.3 0.8 0.29 6.68 e A_qt Magnogrand huanglian MOL000622 266.4 1.18 63.71 0.02 -0.2 0.2 0.3 3.17 iolide huanglian MOL000762 Palmidin A 510.5 4.52 35.36 -0.38 -1.5 0.7 0.39 33.2 huanglian MOL000785 palmatine 352.4 3.65 64.6 1.33 0.37 0.7 0.13 2.25 huanglian MOL000098 quercetin 302.3 1.5 46.43 0.05 -0.8 0.3 0.38 14.4 huanglian MOL001458 coptisine 320.3 3.25 30.67 1.21 0.32 0.9 0.26 9.33 huanglian MOL002668 Worenine
    [Show full text]
  • Molecular Analyses of Malignant Pleural Mesothelioma
    Molecular Analyses of Malignant Pleural Mesothelioma Shir Kiong Lo National Heart and Lung Institute Imperial College Dovehouse Street London SW3 6LY A thesis submitted for MD (Res) Faculty of Medicine, Imperial College London 2016 1 Abstract Malignant pleural mesothelioma (MPM) is an aggressive cancer that is strongly associated with asbestos exposure. Majority of patients with MPM present with advanced disease and the treatment paradigm mainly involves palliative chemotherapy and best supportive care. The current chemotherapy options are limited and ineffective hence there is an urgent need to improve patient outcomes. This requires better understanding of the genetic alterations driving MPM to improve diagnostic, prognostic and therapeutic strategies. This research aims to gain further insights in the pathogenesis of MPM by exploring the tumour transcriptional and mutational profiles. We compared gene expression profiles of 25 MPM tumours and 5 non-malignant pleura. This revealed differentially expressed genes involved in cell migration, invasion, cell cycle and the immune system that contribute to the malignant phenotype of MPM. We then constructed MPM-associated co-expression networks using weighted gene correlation network analysis to identify clusters of highly correlated genes. These identified three distinct molecular subtypes of MPM associated with genes involved in WNT and TGF-ß signalling pathways. Our results also revealed genes involved in cell cycle control especially the mitotic phase correlated significantly with poor prognosis. Through exome analysis of seven paired tumour/blood and 29 tumour samples, we identified frequent mutations in BAP1 and NF2. Additionally, the mutational profile of MPM is enriched with genes encoding FAK, MAPK and WNT signalling pathways.
    [Show full text]
  • Human CLPB) Is a Potent Mitochondrial Protein Disaggregase That Is Inactivated By
    bioRxiv preprint doi: https://doi.org/10.1101/2020.01.17.911016; this version posted January 18, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Skd3 (human CLPB) is a potent mitochondrial protein disaggregase that is inactivated by 3-methylglutaconic aciduria-linked mutations Ryan R. Cupo1,2 and James Shorter1,2* 1Department of Biochemistry and Biophysics, 2Pharmacology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, U.S.A. *Correspondence: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.01.17.911016; this version posted January 18, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. ABSTRACT Cells have evolved specialized protein disaggregases to reverse toxic protein aggregation and restore protein functionality. In nonmetazoan eukaryotes, the AAA+ disaggregase Hsp78 resolubilizes and reactivates proteins in mitochondria. Curiously, metazoa lack Hsp78. Hence, whether metazoan mitochondria reactivate aggregated proteins is unknown. Here, we establish that a mitochondrial AAA+ protein, Skd3 (human CLPB), couples ATP hydrolysis to protein disaggregation and reactivation. The Skd3 ankyrin-repeat domain combines with conserved AAA+ elements to enable stand-alone disaggregase activity. A mitochondrial inner-membrane protease, PARL, removes an autoinhibitory peptide from Skd3 to greatly enhance disaggregase activity. Indeed, PARL-activated Skd3 dissolves α-synuclein fibrils connected to Parkinson’s disease. Human cells lacking Skd3 exhibit reduced solubility of various mitochondrial proteins, including anti-apoptotic Hax1.
    [Show full text]
  • Role and Regulation of the P53-Homolog P73 in the Transformation of Normal Human Fibroblasts
    Role and regulation of the p53-homolog p73 in the transformation of normal human fibroblasts Dissertation zur Erlangung des naturwissenschaftlichen Doktorgrades der Bayerischen Julius-Maximilians-Universität Würzburg vorgelegt von Lars Hofmann aus Aschaffenburg Würzburg 2007 Eingereicht am Mitglieder der Promotionskommission: Vorsitzender: Prof. Dr. Dr. Martin J. Müller Gutachter: Prof. Dr. Michael P. Schön Gutachter : Prof. Dr. Georg Krohne Tag des Promotionskolloquiums: Doktorurkunde ausgehändigt am Erklärung Hiermit erkläre ich, dass ich die vorliegende Arbeit selbständig angefertigt und keine anderen als die angegebenen Hilfsmittel und Quellen verwendet habe. Diese Arbeit wurde weder in gleicher noch in ähnlicher Form in einem anderen Prüfungsverfahren vorgelegt. Ich habe früher, außer den mit dem Zulassungsgesuch urkundlichen Graden, keine weiteren akademischen Grade erworben und zu erwerben gesucht. Würzburg, Lars Hofmann Content SUMMARY ................................................................................................................ IV ZUSAMMENFASSUNG ............................................................................................. V 1. INTRODUCTION ................................................................................................. 1 1.1. Molecular basics of cancer .......................................................................................... 1 1.2. Early research on tumorigenesis ................................................................................. 3 1.3. Developing
    [Show full text]
  • Skd3 (Human CLPB) Is a Potent Mitochondrial Protein Disaggregase That Is Inactivated By
    bioRxiv preprint first posted online Jan. 18, 2020; doi: http://dx.doi.org/10.1101/2020.01.17.911016. The copyright holder for this preprint (which was not peer-reviewed) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Skd3 (human CLPB) is a potent mitochondrial protein disaggregase that is inactivated by 3-methylglutaconic aciduria-linked mutations Ryan R. Cupo1,2 and James Shorter1,2* 1Department of Biochemistry and Biophysics, 2Pharmacology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, U.S.A. *Correspondence: [email protected] 1 bioRxiv preprint first posted online Jan. 18, 2020; doi: http://dx.doi.org/10.1101/2020.01.17.911016. The copyright holder for this preprint (which was not peer-reviewed) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. ABSTRACT Cells have evolved specialized protein disaggregases to reverse toxic protein aggregation and restore protein functionality. In nonmetazoan eukaryotes, the AAA+ disaggregase Hsp78 resolubilizes and reactivates proteins in mitochondria. Curiously, metazoa lack Hsp78. Hence, whether metazoan mitochondria reactivate aggregated proteins is unknown. Here, we establish that a mitochondrial AAA+ protein, Skd3 (human CLPB), couples ATP hydrolysis to protein disaggregation and reactivation. The Skd3 ankyrin-repeat domain combines with conserved AAA+ elements to enable stand-alone disaggregase activity. A mitochondrial inner-membrane protease, PARL, removes an autoinhibitory peptide from Skd3 to greatly enhance disaggregase activity. Indeed, PARL-activated Skd3 dissolves α-synuclein fibrils connected to Parkinson’s disease.
    [Show full text]
  • Iron‐Sulfur Cluster ISD11 Deficiency
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Repositório Científico do Instituto Nacional de Saúde Received: 5 February 2019 Revised: 23 April 2019 Accepted: 27 May 2019 DOI: 10.1002/jmd2.12058 CASE REPORT Iron-sulfur cluster ISD11 deficiency (LYRM4 gene) presenting as cardiorespiratory arrest and 3-methylglutaconic aciduria Margarida Paiva Coelho1 | Joana Correia1 | Aureliano Dias2 | Célia Nogueira2 | Anabela Bandeira1 | Esmeralda Martins1 | Laura Vilarinho2 1Reference Center for Metabolic Disorders, Centro Hospitalar Universitário do Porto, Abstract Porto, Portugal In the era of genomics, the number of genes linked to mitochondrial disease has been 2Newborn Screening, Metabolism and quickly growing, producing massive knowledge on mitochondrial biochemistry. Genetics Unit, Human Genetics Department, LYRM4 gene codifies for ISD11, a small protein (11 kDa) acting as an iron-sulfur clus- National Institute of Health Doutor Ricardo Jorge, Lisboa, Portugal ter, that has been recently confirmed as a disease-causing gene for mitochondrial disor- ders. We present a 4-year-old girl patient, born from non-consanguineous healthy Correspondence parents, with two episodes of cardiorespiratory arrest after respiratory viral illness with Margarida Paiva Coelho, Reference Center for Metabolic Disorders, Centro Materno progressive decreased activity and lethargy, at the age of 2 and 3 years. She was Infantil do Norte, Largo da Maternidade de asymptomatic between crisis with regular growth and normal development. During Júlio Dinis, 4050-651 Porto, Portugal. Email: mmargaridacoelho.dca@chporto. acute events of illness, she had hyperlactacidemia (maximum lactate 5.2 mmol/L) and min-saude.pt urinary excretion of ketone bodies and 3-methylglutaconic acid, which are normalized after recovery.
    [Show full text]
  • A Study of Alterations in DNA Epigenetic Modifications (5Mc and 5Hmc) and Gene Expression Influenced by Simulated Microgravity I
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Digital Repository @ Iowa State University Genome Informatics Facility Publications Genome Informatics Facility 1-28-2016 A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells Basudev Chowdhury Purdue University Arun S. Seetharam Iowa State University, [email protected] Zhiping Wang Indiana University School of Medicine Yunlong Liu Indiana University School of Medicine Amy C. Lossie Purdue University See next page for additional authors Follow this and additional works at: https://lib.dr.iastate.edu/genomeinformatics_pubs Part of the Bioinformatics Commons, Genetics Commons, and the Genomics Commons Recommended Citation Chowdhury, Basudev; Seetharam, Arun S.; Wang, Zhiping; Liu, Yunlong; Lossie, Amy C.; Thimmapuram, Jyothi; and Irudayaraj, Joseph, "A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells" (2016). Genome Informatics Facility Publications. 4. https://lib.dr.iastate.edu/genomeinformatics_pubs/4 This Article is brought to you for free and open access by the Genome Informatics Facility at Iowa State University Digital Repository. It has been accepted for inclusion in Genome Informatics Facility Publications by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells Abstract Cells alter their gene expression in response to exposure to various environmental changes. Epigenetic mechanisms such as DNA methylation are believed to regulate the alterations in gene expression patterns.
    [Show full text]
  • Chchd10, a Novel Bi-Organellar Regulator of Cellular Metabolism: Implications in Neurodegeneration
    Wayne State University Wayne State University Dissertations January 2018 Chchd10, A Novel Bi-Organellar Regulator Of Cellular Metabolism: Implications In Neurodegeneration Neeraja Purandare Wayne State University, [email protected] Follow this and additional works at: https://digitalcommons.wayne.edu/oa_dissertations Part of the Molecular Biology Commons Recommended Citation Purandare, Neeraja, "Chchd10, A Novel Bi-Organellar Regulator Of Cellular Metabolism: Implications In Neurodegeneration" (2018). Wayne State University Dissertations. 2125. https://digitalcommons.wayne.edu/oa_dissertations/2125 This Open Access Dissertation is brought to you for free and open access by DigitalCommons@WayneState. It has been accepted for inclusion in Wayne State University Dissertations by an authorized administrator of DigitalCommons@WayneState. CHCHD10, A NOVEL BI-ORGANELLAR REGULATOR OF CELLULAR METABOLISM: IMPLICATIONS IN NEURODEGENERATION by NEERAJA PURANDARE DISSERTATION Submitted to the Graduate School of Wayne State University, Detroit, Michigan in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY 2018 MAJOR: MOLECULAR BIOLOGY AND GENETICS Approved By: Advisor Date © COPYRIGHT BY NEERAJA PURANDARE 2018 All Rights Reserved ACKNOWLEDGEMENTS First, I would I like to express the deepest gratitude to my mentor Dr. Grossman for the advice and support and most importantly your patience. Your calm and collected approach during our discussions provided me much needed perspective towards prioritizing and planning my work and I hope to carry this composure in my future endeavors. Words cannot describe my gratefulness for the support of Dr. Siddhesh Aras. You epitomize the scientific mind. I hope that I have inculcated a small fraction of your scientific thought process and I will carry this forth not just in my career, but for everything else that I do.
    [Show full text]