Neža Čadež and Peter Raspor

CULTURE COLLECTIONS FOR FUTURE: CASE YEASTS FROM GENETIC TO METABOLIC DIVERSITY

Culture collections – link to microbial diversity

1 % of all described species (Mršić, 1997)

0.004 % area of Earth 0.014% land of Earth

The legal base for Culture collections

The objectives of the CBD are:1. Conservation of biological

diversity, 2. Sustainable use of its

components, 3. Fair and equitable sharing

of the benefits arising from commercial and other utilization of genetic resources.

„Biological resource centres are an essencial part of the infrastructure underpinning life sciences and biotechnology“.

OECD‘s standards for culture collectionsFrom culture collections to Biological Resource Centres:– With aim to provide high quality biological

materials and information.– To implement best practices for BRC as

recomended by Guidelines published in 2007 which specify:• Maintenance and calibration requirements for equipment

commonly used in BRCs• Minimum data sets (MDS) and recommended data sets (RDS)

for microbial accessions to BRCs • Quality control procedures recommended for micro-organisms

upon receipt • Recommended preservation methods and distribution forms

www.cbs.knaw.nl http://www.dsmz.de

Estimated costs to implement OECD standards

Estimated costs to comply with OECD standards

Current types of culture collectionsPublic repositories• Large, diverse

collections• Type strains of

most (all) species• Reference strains• Patent repository

„Boutique collections“• Narrower range of

species• Historic speciallity:

wine, brewing, ecology

• Broadening services to capture additional funding.

Organism Origin No.

Yeasts 2312Grape/must/wine 963Breweries 115Waste water 196Dairy products 99Type strains 157

Bacteria 221Acetic-acid bacteria 85Lactic-acid bacteria 88

Filamentous fungi 51

Preservation methods for microorganisms.

http://www.bf.uni-lj.si/zivilstvo/o-oddelku/katedre-in-druge-org-enote/za-biotehnologijo-mikrobiologijo-in-varnost-zivil/zim/

Slovenian Collection of Industrial Microorganisms (ZIM)

Acquiring new strains from establishment of ZIM in 1991

91 92 93 94 95 96 97 98 99 00 01 02 03 04 05 06 07 08 09 10 11 120

500

1000

1500

2000

2500

Current identification scheme

Research projects

Population dynamics of fermented foods.Ecological factors affecting yeast diversity.Yeasts as biocontrol agents. Diversity of yeasts and their impact on food quality.

Evaluation of microbial diversity in traditional cheeses from Serbia and Croatia

PSALAB No. 195

White-pickled cheese Mountain Bjelanica, Despotovac, Serbia

Diversity of yeasts and LAB

BGGO7 4

0.510.34

BGGO56

0.70.22

BGGO11 3

0.320.54

BGAL3 6

0.450.14

BGVL1 4

0.560.27

BGBU1 5

0.270.02

BGRE2 5

0.440.25

ZGPR1 4

0.460.43

ZGPR2 3

0.410.40

ZGPR3 4

0.400.46

Cheese samplesSL H’L DL

ZGBP4 5

0.470.39

ZGBP5 3

0.290.58

ZGBP6 4

0.430.27

ZGZA8 2

0.221.17

ZGZA9 3

0.360.46

BGLE1 4

0.430.16

Lb. plantarum

Lb. casei

Lb. sucicola

Lb. rhamnosus

Lb. helveticus

Lc. lactis

Lc. garviae

Ln. mesenteroides

Ln. pseudomes.

Ec. durans

Ec. faecalis

Ec. faecium

Str. bovis

Str. thermophilus

BGAL2 3

0.4 0.91

ZGZA7 3

0.370.49

Golić et al., IJFM, accepted

Taxonomic studies - polyphasic approach to taxonomy

www.

cbs.k

naw.

nl

ww

w.c

bs.k

naw

.nl

Revised taxonomy of Hanseniaspora and Kloeckera

Hot-spot of unexplored yeast species diversity – Slovenian olive oil

Yet to be described: Kuraschia sp. nov. and Saturnispora sp. nov. all from Slovenian olive oil

Skupina I M O R T U V Kariotip

22 0 016 0 012 7 010 7 010 4 09 9 0

85 080 07 8 0

72 0

63 0

47 0

35 030 026 0

2 06 0

11 00

9 90

8 50

7 80

7 30

6 30

4 70

3 602 902 70

2 0 0 012 0 0

10 4 0

87 0

2 90

36 0

48 0

64 0

7 5 0

79 0

2 2 0 01 4 0 011 0 0

9 9 0

8 1 07 9 07 6 0

6 9 0

6 0 0

4 4 0

3 4 02 8 024 0

2 0 30

11 0 01 0 009 3 09 10

8 0 07 7 07 60

6 9 0

5 8 0

4 2 0

3 1 02 7 02 3 0

20 7 0

1 3 40

1 00 0

8 107 60

7 10

6 406 00

4 60

3 402 702 60

2 13 015 3 0

1 09 0

97 094 0

79 0

7 4070 0

5 7 0

4 3 0

3 1 02 5 02 3 0

Število kariotipov

3 23 4 41 17 6 5

Skupina A B C D F G P H Kariotip

20 7 014 8 01 09 0

93 0

80 078 075 0

69 0

60 0

43 0

34 0

27 02 50

2 20 01 57 01 23 0

1 05 09 50

8 508 007 80

7 10

6 30

4 70

3 702 90

2 70

2 1 9 0

11 0 0

9 6 0

8 1 07 8 07 6 0

7 0 0

6 1 0

4 4 0

3 5 02 8 02 60

2 2 0 0

1 21 0

1 06 09 9 0

8 4 07 9 07 70

7 2 0

6 3 0

4 7 0

3 4 03 0 0

2 5 0

2 10 0

11 20

1 02 09 9 0

8 808 408 00

7 4 0

6 50

4 90

3 90

3 1028 0

2 2 0 015 2 111 2 0

9 7 0

80 0

7 9 07 5 0

6 9 0

5 8 0

4 4 03 0 02 6 0

2 2 0 0

1 2 3 0

1 0 3 0

8 8 08 5 07 9 0

7 3 0

6 3 0

4 8 0

3 6 0

2 9 0

2 07 01 44 011 2 0

9 80

8 307 907 40

2 70

3 40

4 60

61 0

71 0

Število kariotipov

127 34 44 58 9 18 8 17

Future plans: from genetic to metabolic diversity

AcknowledgementAram-Gustav AMALIETTI, Mateja AMBROŽIČ, Teja ARNŠEK (RADEŠČEK), Rosvita ARZENŠEK, Martina AVBELJ (EKERT), Martin BATIČ, Saša BAVEC, Nataša BERGINC, Dušan BERGLEZ, Borut BERNIK, Etijen BIZAJ, Mojca BIZJAK (LAMPE), Marko BLAŽIČ, Iztok BORAK, Vid BORKO, Matjaž BOŠTAR, Sebastjan BREZOVEC, Lučka BRULC, Vesna BUBIĆ, Tatjana BUZETI, Tanja CIGUT, Neža ČADEŽ, Franc ČUŠ, Branka ĐUKIĆ, Alenka FABJANČIČ, Štefan FUJS, Rok GABER, Dušan GORANOVIČ, Aleksandra GORNIK, Romana HABOT, Špela HOEFFERLE, Marinka HORVAT, Stanislava HUDE, Tina IVANČIČ (SEMENIČ), Matilda IVOVIĆ (URUKALO), Polona JAMNIK, Bruna JEJČIČ, Vid JELEN, Špelca JENKO-BRINOVEC, Sergej JERMAN, Simon JESIH, Katja JUG, Tina JURIČ, Borut JUTERŠEK, Barbara KASTELEC, Milena KASTELIC (STANIŠA), Katja KASTELIC (VODOPIVEC), Bojana KESER, Anja KINČIČ, Stanislava KIRINČIČ, Matjaž KIRN, Vida KOCBEK, Nataša KOČAR, Rok KOLIČ, Boris KOVAČ, Nataša KRAČUN, Marija KRIŠTOF (PEČJAK), Mila KRSTIĆ, Darja KRZNAR, Tadeja KUPLENK, Špela LEBAN, Darja LENARČIČ, Ana LENASSI ZUPAN, Urška LEŠNIK, Primož LIKAR, Tina LUKAN, Nina MAVC, Petra , MEDVED, Damjana MIKLIČ MILEK, Tea MORČIČ, Davor OBRADOVIĆ, Klemen OKETIČ, Matej OSET, Andrej OSTERC, Gašper OZIMEK, Maja PAŠ, Katarina PEGAN, Barbara PIŠKUR, Primož PLAHUTA, Sašo PLEVČAK, Aleš PODGORNIK, Janja PODJAVORŠEK, Julijana POLANC, Katja POVHE JEMEC, Sebastjan PRAH, Maja PRINČIČ, Sonja PRPAR, Tomaž RAKUŠA, Jana RAMUŠ, Marjeta RECEK, Nuša RESMAN, Vesna REŽIĆ-DEREANI, Erik RUPNIK, Mihael SIMČIČ, Gordan SLADIČ, Franci SMREKAR, Saša STOJKOVIĆ, Matej STRAŽIŠČAR, Mojca ŠANTAVEC, Dejan ŠARLAH, Kristina ŠAVLI, Maja ŠIKIĆ POGAČAR, Urban ŠILC, Aleš ŠPES, Matija ŠTRLEKAR, Matevž ŠUŠTARIČ, Mirjan ŠVAGELJ, Tilen TRAVNIK, Janja TRČEK, Aljoša TRMČIĆ, Igor TROŠT, Aleksandra USENIK, Ana VELIKONJA, Barbara VOELKNER (KUREŽ), Lilijana VOUK-GRBAC, Tatjana VRŠČAJ VODOŠEK, Tatjana ZAGORC, Tina ZAVAŠNIK-BERGANT, Janez ZAVIRŠEK, Tina ZORMAN, Jure ZUPAN, Igor ŽIVEC, Tadeja ŽOHAR, Andreja ŽUPEC, who finished their diploma theses;Borut BERNIK, Matjaž BOŠTAR , Sergej JERMAN , Nataša KOČAR , Tatjana KOŠMERL , Boris KOVAČ , Primož PLAHUTA , Aleš PODGORNIK , Artur RACMAN , Jana RAMUŠ , Vesna REŽIĆ-DEREANI , Andreja RIJAVEC BREGAR , Sonja SMOLE MOŽINA , Janja TRČEK , Tatjana ZAGORC who finished their master theses;Martin BATIČ, Saša BAVEC, Olga BURICA, Neža ČADEŽ, Irena ČARMAN, Franc ČUŠ, Štefan FUJS, Andrej HOLOBAR, Polona JAMNIK, Špelca JENKO-BRINOVEC, Janja KLINČAR, Miomir KNEŽEVIĆ, Boris KOVAČ, Enej KUŠČER, Ana LENASSI Urška LEŠNIK, Vasilka MAGDEVSKA, Jan MAVRI, Damjana MIKLIČ Andrej OSTERC,Maja PAŠ, Hrvoje PETKOVIĆ, Primož PLAHUTA, Borut POLJŠAK, Katja POVHE Marjeta RECEK, Mihaela SKRT, Sonja SMOLE Franc SMREKAR, Aleš ŠTRANCAR, Janja TRČEK, Vasilij VALENČIČ, Tatjana ZAGORC and Jure ZUPAN who finished their doctoral theses.

Acknowledgementprof. dr. Peter Raspor, Head of chairprof. dr. Sonja Smole Možina, Vice-Headdoc. dr. Neža Čadeždoc. dr. Polona Jamnik doc. dr. Barbara Jeršekassist. dr. Maja Pašdr. Anja Klančnik, Researcherdr. Marija Kurinčič, Researcherdr. Jure Zupan, ResearcherMateja Ambrožič, ResearcherLidija Baša, ResearcherKatarina Kovač, ResearcherSaša Piskernik, ResearcherMartina Avbelj, Ph D CandidateMarko Blažič, Ph D Candidate Janko Kosel, Ph D CandidateAna Kramar, Ph D CandidateLuka Kranjc, Ph D CandidateTeja Zakrajšek, Ph D CandidateMatej Šergan, Technical AssistantDragica Marković, Secretary

THANK YOU FOR YOUR ATTENTION!HVALA LEPA ZA VAŠO POZORNOST!