GENOME SEQUENCING AND FUNCTIONAL GENOMICS NATIONAL PROGRAM IN LATVIA

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GENOME SEQUENCING AND FUNCTIONAL GENOMICS
NATIONAL PROGRAM IN LATVIA AND ERA-NET
PATHOGENOMICS
Viesturs Baumanis, Latvian Council of Science
Berlin, October 13 th, 2004
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National Research Program in Latvia
(2002-2005) Nr.02.0011 (2002-2005) Molecular and
epidemiological study of multiresistant and
genetic variability of infections (Program
covers bacterial and viral infections also,
however bacterial ones will be described below)
Number of staff involved -
55 persons among them PhD
34 Institutions
- 8
Papers published per year - 116
among them in SCI journals - 19
(including abstracts) Besides this National
Research Program about 10 separate
bacteriological projects have been financed and
are in progress
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Incidence per 100.000 population for bacterial
infections in Latvia and tendencies of their
dynamics in 1999-2004
(population in Latvia 2.5 miljons)

Incidence Average dynamics in 1999-2004


() Salmonellosis
12.11
- 43 Shigellosis
11.47
- 44 Other
bacterial intestinal infections 7.03
-23
Unidentified enteritis
66.32 5
Tuberculosis
35.06
-14 Leptospirosis
0.43
-23 Jersiniosis
0.65
-66 Diphtheria
0.13
-92 Wooping cough
1.16
-64 Scarlet
fever
21.56 -1
Meningitis
0.7
7 Syphilis
15.39
-34 Gonorrhoea
11.30
-28 Chlamidiosis
13.28
-9 Lyme borreliosis
10.22
67 HIV

9.31 -27
Nosocomial infections
0.1-0.52 -20
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Riga Stradins University (Medical Academy of
Latvia)
Rector -
J.Vetra Students
1500 Professors
50 PhD
169 Departments
- 40
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Stradins Clinical Hospital Bacteriological
laboratory Chief- A.Balode Molecular studies
E.Miklashevics Clinical infectology U.Dumpis,
I.Vingre, A.Zilevica, E.Daugulis, P.Oshs,
A.Martinsons, R.Lacis, M.Cirulis, M.Jansone,
I.Logina , L.Sosare, J.Pokrotnieks Methicillin
resistance in staphylococci - classical methods
and PCR
amplification of mecA
gene Nosocomial infections in surgical clinic -
(Klebsiella, P. aeruginosa) Nosocomial infections
in nephrology - (Klebsiella, P.
aeruginosa) Nosocomial infections in
cardiosurgery Infections in obstetrics and
gynecology - (Str. agalactiae) Cytokins in
meningitis Ulceral disease
- (H.pylori)
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Medical Faculty, University of Latvia
Department of Microbiology - Head
A.Zilevica Research - Multi drug resistant
staphilococci Urogenital,
veneral infections, dermatomycosis ( V.Miltins)
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Nosocomial infections - Staphylococcus spp.
Prevalence of methicillin-resistant staphylococci
in Hospital of Traumatology and Orthopedics,
Latvia, 1998-2002 (by A.Zilevica).
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Clinical hospital Nr.7 - Gailezers The
largest hospital in the Baltic countries
Director - E.Platkajs Urological infections -
P.Ivdre
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Infectology Center of Latvia Treatment of all
contagious infectious diseases except
tuberculosis
Director - B.Rosentale Bacteriological
laboratory - R.Paberza Department of infectious
diseases of Riga Stradins University Head -
L. Viksna Research viral diseases,
gram-negative infections
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State Center of Tuberculosis and Lung
Disease(SCTLD) All M.tuberculosis isolates
from Latvia are being collected and analysed by
classical bacteriological methods here. Bactec
cultivation. Wide international collaboration
CDC, WHO
Director of SCTLD
- J.Leimans Chief of Central
Bacteriological Laboratory - G.Skenders
Tuberculosis in Latvia
2000 2001 2002
2003 New cases 1715
1729 1540 1481 MDR
648 587 539
HIV TB 1 12
25 50
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Multi-drug resistant (MDR) TB in Latvia,
1998-2002
Multi-drug resistant M.tuberculosis - resistant
at least to rifampin and isoniazid
(State Tuberculosis and Lung Disease Center data)
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Biomedical Research and Study Centre University
of Latvia Molecular studies of pathogens,
molecular genetics, recombinant biotechnology,
protein engineering, human genome, sequencing,
electron microscopy, mass spectroscopy
Department of Molecular Microbiology - Head
V.Baumanis 1. Molecular epidemiology of
tuberculosis analysis of molecular mechanisms of
drug resistance in mycobacteria and
staphylococci-
I.Jansone, T.Tracevska 2. Molecular epidemiology
and functional genomics of the tick born
diseases a) Lyme
borreliosis b) Tick-born
encephalytis c)
Erlichiosis-
R.Ranka, A.Bormane (6th Framework project
EDEN-TBD) Department of Protein Engineering -
Head P.Pumpens 1. Virus-like particles as
carriers of antigen determinants (mainly
virological) 2. Cloning of Treponema pallidum
proteins
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Spoligopattern of 109 MDR M. tuberculosis isolates
Dendrogram
Other genotypes (non-Beijing group)
Beijing genotype - 58 Higher of double
mutations in the rpoB and K43R typical in the
rpsL
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Training activities
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Biological Faculty University of Latvia
Department of Microbiology - Head
I.Muiznieks Institute of Microbiology and
biotechnology-
Director - U.Viesturs
04Functional stability of microbial cultures
I.Muiznieks, University of Latvia,
Biological
Faculty 04Studies no genotoxicity by
microorganisms J.Raipulis, Institute of
microbiology and
biotechnology University of Latvia 04Bacterial
safety of foodstuffs E.Liepins, Latvian
University of Agriculture