Presentation kick-off Meeting - ERA-NET PathoGenoMics

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Feb 20, 2013 (4 years and 5 months ago)

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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

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


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


Riga Stradins University

(Medical Academy of Latvia)



Rector
-

J.Vetra



Students ~ 1500


Professors 50


PhD 169



Departments
-

40

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.Lācis, M.Cīrulis,

M.Jansone, I.Logina , L.Sosāre, 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
)

Medical Faculty, University of Latvia

Department of Microbiology
-

Head A.Zilevica




Research
-

Multi drug resistant
staphilococci


Urogenital, veneral infections, dermatomycosis ( V.Miltins)

Prevalence

of

methicillin
-
resistant

staphylococci

in

Hospital

of


Traumatology

and

Orthopedics,

Latvia,

1998
-
2002

(by

A
.
Zilevica)
.


Nosocomial infections
-

Staphylococcus
spp.

Clinical hospital Nr.7
-

“Gailezers”



The largest hospital in the Baltic countries

Director
-

E.Platkajs


Urological infections
-

P.Ivdre

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



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



Multi
-
drug resistant (MDR) TB in Latvia, 1998
-
2002


24,0%
28,0%
9.5%
9.3%
9,0%
10,9%
9,9%
27.9%
27.7%
27,3%
0,0%
5,0%
10,0%
15,0%
20,0%
25,0%
30,0%
1998
1999
2000
2001
2002
Primary MDR-TB
Acquired MDR-TB
Multi
-
drug resistant
M.tuberculosis

-

resistant at least to rifampin and isoniazid

(State Tuberculosis and Lung Disease Center data)

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

Spoligopattern o
f

109 MDR
M. tuberculosis
isolates

Beijing

genotype

-

58
%

Higher

%

of

double

mutations

in

the

rpoB

and

K
43
R

typical

in

the

rpsL


Other

genotypes

(non
-
Beijing

group)

Dendrogram


Training activities

Biological Faculty University of Latvia

04…Functional stability of microbial cultures


I.Muiznieks
, University of Latvia, Biological


Faculty

04…Studies no genotoxicity by microorganisms


J.Raipulis, Institute of microbiology and


biotechnology University of Latvia

04…Bacterial safety of foodstuffs


E.Liepins, Latvian University of Agriculture


Department of Microbiology
-

Head I.Muiznieks


Institute of Microbiology and biotechnology
-


Director
-

U.Viesturs