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Molecular Medicine
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The Ubiquitin Laboratory investigates the small protein ubiquitin; its role in the destruction of other proteins (proteolysis) in the cell; and in the consequences of aberrant proteolysis due to defects in the ubiquitin system.
Dr Rohan Baker |
Complex processes such as cell growth, development, and gene expression, are controlled by proteins that are only required transiently and must be rapidly destroyed to control their activity. This is accomplished by attaching multiple ubiquitin proteins to the target, which "marks" it for destruction by a large proteolytic complex called the proteasome. Most of our research focuses on a family of enzymes called ubiquitin-specific proteases (USPs), that have the ability to cleave ubiquitin from such marked proteins, and thus slow or prevent their destruction. In this context, some USPs can be considered "proof-reading" components of the system, safeguarding a target from inappropriate ubiquitination (and thus destruction), and imposing a further level of regulation on the pathway.
We study USP enzymes using yeast as a model system, both because it is very amenable to genetic and biochemical studies, and also because the ubiquitin system is so highly conserved between yeast and humans, that insights we gain in yeast can be applied to our studies on mouse and human enzymes. Current work centres on Ubp15, one of a family of 16 USPs in yeast. Ubp15 binds directly to yeast multi-drug resistance (mdr) proteins, and Ubp15 can regulate drug sensitivity of cells, presumably by affecting function and/or degradation of mdr proteins. We are extending this work to the study of drug resistance in mouse and human cells.
We also use mice as a model organism to study human disease. We have previously identified a USP that functions as an oncogene in mice; that is, it causes cancer when overproduced. Others have linked the human version of this USP with certain types of lung cancer. We and our collaborators have shown that this USP interacts with the Retinoblastoma protein, which functions to prevent cell growth by keeping transcription factors (proteins that control gene expression) in check. The human genome project has revealed at least 28 USPs in humans; one of these is a very close relative of this oncogenic USP in both mouse and human cells, and it is also predicted to interact with the Retinoblastoma protein. Our current efforts are aimed at determining the functional significance of these interactions; whether these USPs traffic to the nucleus; and if the closely-related USP is also an oncogene. We are also studying novel USPs identified by the genome project.
Our results show that USPs can play important roles in regulating the ubiquitin pathway, and through this, processes such as cell growth. Aberrations in the function of these USPs may lead to cancer and disease.
Human
Genetics Group
Professor Simon Easteal
Research in the Human Genetics Group is aimed at understanding the nature of genetic variation as it relates to disease. We take a broad view, recognising the importance of the evolutionary forces that have shaped the structure of the human genome and the nature of human genetic diversity. Our investigations can be divided into two areas: Mechanisms of gene and genome evolution, and the nature of human genetic and genomic variation.
Gene and genome evolution
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In mammals genetic novelty arises through genetic and evolutionary processes, such as mutation, gene duplication, gene conversion, genetic drift and natural selection, occurring in large and structurally complex genomes. Information relating to genome and protein function, the processes by which functional novelty has arisen and patterns of species evolution are contained within DNA and protein sequences. Susan Tan |
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We use a comparative approach to the interpretation of this information, investigating differences in genomes, genes and the proteins they encode, among related species, particularly humans and other primates.
Human genetic and genomic variation
Medical genetics has largely been focussed on understanding single gene defects. Less attention has been given to genetic disorders that have a polygenic basis, such as mental illness, cardiovascular disease and diabetes. Although these are more important from a public health point of view, they are technically more difficult to investigate. This situation is changing largely through the technological advances of the human genome project. Associated with this change is an increased recognition of the importance of the normal range of human genetic variation, and its importance in relation to disease prevention. Understanding the relationship between molecular genotypes and disease phenotypes becomes more dependent on population-based rather than family-based investigations. Our research is directed at understanding the basis of a number of genetic disorders, and of the patterns of normal genetic variation in human populations.
One particular focus is the genetic basis of personality variation, which is associated with a predisposition to common forms of mental illness involving depression and anxiety. This work is done in collaboration with the NH&MRC Centre for Mental Health Research.
Medical
Genome Centre
Professor Chris Goodnow
Many of the health problems we face today - cancer, autoimmune diseases, allergy, cardiovascular disease, osteoporosis, - stem from a discordance between genetics and environment. Our genetic code was selected to survive for a shorter period of time in a very different world, and it is inevitably out of step with the lifestyles we lead today. In some cases we know what to do to fix this imbalance, like putting on a hat and sunscreen to offset genetic susceptibility to the sun. For many cancers and numerous other diseases such as rheumatoid arthritis, diabetes, osteoporosis or obesity, the solutions are not so straightforward.
Rapid advances in gene technology are bringing us to the point of visualizing the imbalance between our genetic code and lifestyle/environment. A worldwide effort has already given us a map and a "dictionary" of many of our genes - collectively referred to as our genome. The epic challenge for the next decade is to decipher what these gene words mean. How are they combined into the genetic language that guides the cells in our body and determines how well we cope with different environmental stresses? Which gene products are good targets for new drugs to prevent or cure common diseases? Differences in the spelling of those gene words underlie differences in susceptibility to modern diseases, and in response to particular therapies, and it is likely that technology will soon allow a list of spelling differences to be rapidly compiled from each person's unique genetic dictionary.
The Medical Genome Centre was officially opened in 1997 to promote research into the function of genes that underpin human health. To decipher the functional meaning of genes and their contextual interactions, laboratory mice represent a crucial Rosetta stone. Almost all of the genes in mice match a human counterpart with only small changes in their spelling. While surprising given the large differences in external appearance, the mouse and human genetic languages are in fact no more different than Chaucer's english and modern english. This underlying similarity makes it possible to define the function of human health genes in the mouse in a way that is impossible in humans.
The strategy being followed is genome-wide mutagenesis in the mouse at an unparalleled scale. In the last year, the Medical Genome Centre has successfully analysed a large panel of new mutant strains. These strains were derived from the first of a series of libraries of laboratory mice in which single letters in the spelling of many of the genes in the mouse genetic dictionary have been changed by random chemical mutagenesis. The ENU1 library comprised 185 pedigrees of ENU mutagenised C57BL/6 mice, bred 3 generations to yield at least 25 potentially recessive homozyogous offspring in each pedigree. Collectively, we estimate that this library scans 15,000 loss of function mutations. By visual inspection and high-throughput screening of blood, this library has yielded many new mutant mouse models to discover and understand genes controlling obesity and diabetes, cardiovascular disease, kidney disease, limb and spine abnormalities, eye function, melanocyte function, coordination, seizures, dermatitis, colitis, and disorders of lymphocyte development such as autoimmunity, immunodeficiency, and leukemia/lymphoma. Collaborative screening projects are underway with several other groups: with the Garvan Institute in Sydney using the library to discover genes affecting bone density and breast cancer; with the Walter and Eliza Hall Institute to discover genes controlling platelet and neutrophil function; with the University of California San Francisco to illuminate genes controlling lymphocyte migration; and with the Novartis Institute of Functional Genomics in San Diego to illuminate genes controlling brain functions.
State-of-the-art facilities for transgenic mouse production, sperm freezing, and database tracking of genetic and phenotypic data have been developed to support this resource and provide a service to researchers. The chromosomal location of the defective in each of the mutant strains has been or is currently being determined, employing an efficient strategy for gene mapping many mutant strains in parallel. Emerging information on the mouse and human genome will be used to identify the defective gene in each strain through resequencing of mRNA. In parallel, we have defined the precise cellular abnomalities brought about by each mutation by cell and biochemical analysis. The feasibility of proceeding quickly from mutant to gene and cellular process has been established using a strain that develops T cell leukemia (see ACRF Genetics Lab report).
Australian
Cancer Research Foundation Genetics Laboratory
A one million dollar grant from the Australian Cancer Research Foundation in 1997 made possible the establishment of the ACRF Genetics Laboratory in the Medical Genome Centre. The laboratory's focus is on developing genome-wide mutagenesis resources for studying candidate human cancer genes and novel laboratory mouse models to accelerate cancer research at both the basic and clinical ends of the spectrum.
Four new mouse strains to illuminate cancer genes have been obtained from the ENU1 forward genetics library. One of these strains carries a single dominant gene defect that results in acute T cell lymphoblastic leukemia. Mr Peter Papathanasiou has mapped and identified the mutation in this strain, which creates a single change in a protein that appears to be frequently defective in human T cell lymphoblastic leukemia. The protein normally regulates expression of many other genes. Ms Adele Loy has mapped the mutation in another cancer-prone strain, which carries a gene defect that results in leukemia, lymphoma, osteosarcoma, chondrosarcoma and teratocarcinoma. At least ten new mouse strains that have recessive gene defects in lymphocyte development and growth regulation have also been obtained, and it is likely that these represent important leads on new targets for cancer vaccination and anti-lymphoma drugs.
A separate discovery project has begun, aimed at illuminating genes regulating solid tumours of the skin and cervix. This project involves a consortium with Dr Douglas Hanahan at the University of California in San Francisco, who has developed a sensitized mouse strain for skin and cervical cancer research, and Dr Simon Foote at the Walter and Eliza Hall Institute. The project is mapping cancer inhibitory genes between two inbred mouse strains, C57BL/6 and FVB, and conducting genome-wide mutagenesis to illuminate dominant and recessive skin cancer inhibitory genes.
Genes and functions discovered by these efforts will be available to the research community to help in three key areas: 1. primary prevention, where illuminating patterns of inherited susceptibility will help to resolve environmental risk factors and target preventive measures; 2. early diagnosis, where alterations in gene spelling and expression pattern will help to distinguish cancer cells early and predict the best course for treatment; 3. therapy and prevention of secondary tumours, where the genes identified will provide new targets for drugs and new avenues for chemotherapeutic or immunological intervention.
Goodnow
Laboratory
Professor Chris Goodnow
Our research aims to understand how immune cells make a fundamental decision: either to fight or to disarm. The process of deciding which immune cells should fight and which should disarm is key to our ability to resist infection and parasitism. Mistakes in this process result in autoimmune diseases, allergy, lymphoma, and leukemia. Moreover, drugs and other ways to alter fight or disarm decisions are sorely needed to improve the success of organ transplantation and treatment of autoimmune diseases and metastatic cancer.
The immune system is made up of billions of immune cells called lymphocytes. By a remarkable gene shuffling process akin to a poker machine, each lymphocyte carries a unique receptor, enabling every lymphocyte to detect a different set of molecules termed antigens. Some lymphocytes have receptors for foreign antigens that are unique parts of the molecular makeup of different infectious organisms. When these rare lymphocytes bind a foreign antigen during an infection, they receive a signal to fight. The lymphocyte first multiplies to make many clones of itself, and then the cells elaborate destructive compounds that neutralize the infectious antigen.
By chance, other lymphocytes carry receptors for self antigens, ie. parts of our own normal tissues and body fluids. When a lymphocyte binds a self antigen it normally receives a signal to disarm. Instead of multiplying and producing destructive compounds, the lymphocyte either commits cell suicide by apoptosis or the cell disarms itself by becoming functionally tolerant, ie. less responsive to antigens and less able to multiply or produce destructive compounds.
For a long time it was not possible to see how self-reactive lymphocytes disarm themselves. Our laboratory has developed ways to visualize this process in genetically modified laboratory mice called transgenic mice. By studying cells in the transgenic mice, we have discovered that each immune cell must run through a complex series of fight or disarm checkpoints before it can be fully launched into an immune response. In some ways, the process resembles the sequence of fight/disarm decisions in a military missile launch, which serve a similar purpose of preventing friendly fire.
Members of the laboratory are deciphering different fight/disarm checkpoint processes, using a combination of biochemistry, cellular immunology, genetic analysis, and transgenesis. At each of these checkpoints, we are focussing much of our work on elucidating how it is that antigen receptors on lymphocytes can trigger several different cell fates ranging from cell proliferation to cell death. Two examples of our work are summarized below.
T cell tolerance and destruction of pancreatic islets.
The cellular and molecular processes regulating CD4 T cell responses to self antigens that are restricted to specific organs (organ-specific tolerance and autoimmunity) are being investigated through an NIH and JDRF-funded project involving a unique transgenic mouse model. The core of this model is a "TCR-transgenic" mouse where most CD4 T cells react with a model antigen, and where the model antigen is made by pancreatic islet b cells. The islet-reactive T cells are normally regulated so that they can cause inflammation of the pancreatic islets, but this inflammation does not progress to diabetes or autoantibody production. This regulation is broken by one or more genes from the NOD strain, an excellent animal model for spontaneous Type 1 diabetes in humans. A combination of non-MHC susceptibility genes from the NOD strain allows the T cells to reorganize the invading cells within the islets to promote antibody formation, islet destruction and diabetes. In the last year, Dr Sylvie Lesage has discovered that one of the main actions of the diabetes susceptibility genes is to dramatically reduce the efficiency of islet-reactive T cell deletion in the thymus and the the state of anergy in these cells in the periphery. In parallel, Dr Simon Prasad has shown that the diabetes-susceptible NOD genes also cause a profound imbalance in the production of different subsets of dendritic cells, which are key cells for regulating T cell tolerance and autoimmunity. The combination of these two cellular defects may explain susceptibility of particular individuals to Type 1 diabetes and other organs-specific autoimmune diseases. This experimental model provides a unique opportunity to define the molecular pathways regulating these diseases.
Memory receptor tail.
Our ability to resist infection stems from a cardinal property of the immune system, namely an ability to mobilise a much higher and faster antibody response when the antigens that make up a virus or bacteria are seen a second time. This phenomenon of immunological memory lasts for years after infection or immunisation, but its cellular and molecular basis is still poorly understood. In the last year, Mr Stephen Martin has defined a key role for the "BCR Tail sequence" in promoting memory-level antibody responses. It has been known for many years that B cells switch portions of the antibodies they produce from IgM to IgG as part of the memory process. Among the many changes that result from switching to IgG, one intriguing change is in the sequence and length of the antibody segment that serves as a receptor for antigen- the transmembrane and cytoplasmic tail. Through a sophisticated combination of transgenic mice and in vivo immunological analyses, Steve has shown that the memory-type IgG tail dramatically increases the number of progeny cells that are formed by proliferation of initially rare B cells that react to antigen. This finding explains the memory phenomenon by a localizing it to a precise sequence of amino acids and a specific process- augmenting the clonal burst. This finding has wide implications for vaccination, allergy and autoimmunity, where B cells bearing the memory tail are formed.
Staff - Division of Molecular Medicine
Professor and Head:
PG Board BSc (Hons), PhD (UNE)
School Technical Support Officer: (from June)
CE Woodhams, BAppSc (CCAE), GradDipInfSyst (Canb) (from June)
Divisional Administrator:
M Goodisson
Administrative Assistants:
G Noble, M Tankosic (until March)
Visiting Fellows:
M L Bassett, MB ChB (Otago), MD (Qld), FRACP
WM Burch, MSc (Melb), PhD (Lond), MIE (Aust)
J Cavanaugh, BSc, MS (North Carolina State University, PhD
A Killian, MSc (Silesian University)PhD(Silesian Uni)
F Lomas, MB, BS (Hons) (Syd), FRACP, DDU, FRACR
JE Dahlstrom, MB BS(Hons) (Syd), PhD, FRCPA
DP Dhall, MB ChB (Manchester), PhD (Aberdeen), MIBiol, MRCS, LRCP,
FRACS
SG Nogrady, MB BS (Syd), FRACP
Developmental Physiology Group
Senior Fellow and Leader:
PJ McCullagh, MD BS (Melb), DPhil (Oxon), MRCP
School Visitors:
W Whitten, BVSc DSc (Syd), FAA
M Peek, MB, BS BSc (Med) (Hons) PhD, FRACOG, MRCOG
HA McKenzie, MSc PhD (Syd) FRACI
Technical Officers:
B Barancewicz, BRTC, AIST
K King, BAppSc, MedLabSci (Canberra) (until March)
Autoimmunity/Genetic Manipulation Laboratory
Fellow:
B Charlton, MB BS, PhD (UNSW)
Laboratory Technician:
J Kofler, DipApp AnimalSc (until June)
Transplantation Immunology Laboratory
Fellow:
CJ Simeonovic, BSc (Hons), PhD
Visiting Fellow:
JD Wilson, BSc (Hons), MB BCh, BAO (Hons), MD (Queens, Belfast), MRCP
(U.K.), FRACP
A Gibbs, BSc (Hons), OhD (London)
M Gibbs, BSc, GradDip, P.Phil (Oxon)
School Associate
J Armstrong
Senior Technical Officers:
D Mann, BSc (Hons)
MJ Townsend, Ass Dip App Path. (Bruce TAFE)
Laboratory Technicians:
K Debono,
P Hamilton (Part-time from June)
S Popp, BSc, AssDipApSciBiol (CIT)
JC Zarb
R McMurray, (Part-time) (until June)
Human Genetics Group
Professor and Leader:
S Easteal, BSc (St Andrews), PhD (Griffith) (from July)
Senior Fellow:
S Easteal, BSc (St Andrews), PhD (Griffith) (until June)
Research Fellows:
G Chelvanayagam, BSc (UWA), PhD (UWA/EMBL) (until April)
Research Fellow:
G Huttley, BSc (Hons) (Macquarie); PhD (Univ California, Riverside,
USA) (from October)
Postdoctoral Fellows:
G Huttley, BSc (Hons) (Macquarie); PhD (Univ California, Riverside,
USA) (until October)
C Wise, BSc (Hons) (Monash); PhD (until October)
Visiting Fellows:
LS Jermiin, Cand. Scient. (Århus), PhD (LaTrobe)
N Saha, BSc (Calcutta), MBBS (Calcutta), MD (Punjab), PhD (Med) (Calcutta)
Senior Technical Officer:
X Tan, BSc, (Shandong University, Jinan), MSc (China Pharmaceutical
Univ, Nanjing)
Technical Officers:
B Whittle, BSc (Hons) (until October)
Y Zhang, MSc (Xinjing, China)
A Mettenmeyer, BSc (Hons) (until Febuary)
Molecular Genetics Group
Professor and Leader:
PG Board, B.Sc (Hons), PhD (UNE)
Research Fellows:
G Chelvanayagam, BSc (UWA), PhD (UWA/EMBL) (from April until July)
Visiting Fellows:
D Liu, PhD (Syd) (until December
M Webb, MB BS, FRACP (UWA), FRCPA
D Le Couteur, MB BS (Hons) (Syd), FRACP, PhD (UQLD)
A Clarke, BSc, PhD (Victoria Uni, NZ)
Senior Technical Officer:
MA Coggan, BSc (Hons)
Laboratory Technicians:
L Langton, Ass Dip Sci (Pathology) (CIT) (until October)
Y Karunasekara, MD (USSR) (from May)
Ubiquitin Laboratory
Fellow (RFT) and Leader
RT Baker, BSc (Hons) (UNSW), PhD
Post Doctoral Fellow:
G McGurk, BSc (Hons), PhD (Edinburgh)
C Angelats, Maitrise/DE, (University of the Méditerranée, Marseille,
France), PhD (Institut de Biologie du Développement de Marseille,
France) (from July)
Visiting Fellow:
Professor R John Mayer, Queens Medical School, University of Nottingham,
UK (July-Aug)
Technical Officer:
XW Wang, BSc (Fudan, Shanghai, China), MSc (Melb)
Professor and Leader:
CC Goodnow, BVSc (Hons) Syd, BScVet (Hons) Syd, PhD (Syd)
Facility Manager
A McKenzie,BSc (Hons) Monash
Coordinator/Animal Technician
K Sullivan, Assoc DipAppSci (Animal Science), Adv CertVetNursing
Animal Technicians
J Carter, City & Guilds 244 Marine Craft Fitter (BCA, UK)
S Chaudhry, Assoc DipAppSci (Animal Science)
L De Wit, Animal Care Certificate Course, (CIT) (until Nov)
S Ewing, Biological Research Techicians's Certificate, (CIT)
J Hardy, BSc (Biomed) (UTS)
M Jukes,DipAppSci (Animal Tech & Biology) to be completed June 2001
E Kucharska, BSc (Warsaw, Poland) MSc (Warsaw, Poland)
I Whiting, BSc
J Wilson, Assoc.DipAppSci (Animal Science) (CIT)
Material Support Technicians
J Borrett
R Blundell
D Hebda (from Oct)
W King (until July)
M Marien (until July)
J Webster
D Smith
Goodnow Laboratory
Professor and Leader:
CC Goodnow, BVSc (Hons) Syd, BScVet (Hons) Syd, PhD (Syd)
Research Fellow
K Nelms (PhD (Minnesota) (from April)
Database Developer
G Quinn, BSc, Grad Dip Computer Studies
Postdoctoral Fellows (externally funded):
J Blasioli, BSc (Hons) (Melb), PhD (Melb)
M Blery, PhD (Aix-Marseille)
A Fahrer, BSc (Hons) (Melb), PhD (Melb)
S Lesage, PhD (McGill)
Visiting Fellow
C De Vinuesa, LMS (MBBS) DRCOG, MSc, PhD (from Oct)
Laboratory Technicians:
S McCarthy, (BSc) (until Dec)
A Murtagh, Dipl Biol Science (CIT)
S Ward (from Dec)
B Whittle, BSc (Hons)
L Wilson, Dipl Biol Science (CIT)