Reticulate Evolution In The Saccharomyces Genus

1. RETICULATE EVOLUTION IN THE SACCHAROMYCES
GENUS
David Peris, Marie Curie Postdoctoral Fellow
Department of Food Biotechnology
SBYBI Group
3rd October 2018
ISSY34
Yeast Odyssey: from nature to industry
Evolutionary genomics session
@djperis

2. New genomes for understanding evolution and domestication
Liti et al 2009
Almeida et al 2015
Borneman et al 2016
Gallone et al 2016
Gonçalves et al 2016
Gayevskiy et al 2016
Yue et al 2017
Peter et al 2018
Legras et al 2018
Duan et al 2018

3. Bioprospecting projects are unravelling new Wild Saccharomyces
Bergström et al 2014
Leducq et al 2016
Yue et al 2017
Almeida et al 2014
Peris & Quinn et al 2016
Bing et al 2016
Peris et al in preparation

4. Evidence of COX3 introgressions
Biogeographic Realms
Afrotropic
Australasia
Indo-Malay
Palearctic
Nearctic
Neotropical
Oceania
Unknown
COX3
1
10

5. Four main mitochondrial haplogroups

6. Mitochondrial introgressions mainly close to selfish elements

7. Evidence of introgressions in the 2µm plasmid
REP1 (2µm plasmid)

8. Saccharomyces species tree

9. Evidence of gene flow at nuclear level
DBVPG6044
YPS128
yHAB335
UOPS03-461.4
Y12
SK1
DBVPG6765
UFRJ50816
yHDPN32
YPS138
yHDPN24
UWOPS91-917.1
CBS432
yHDPN23
N44
IFO1815
yHAB336
IFO1802
ZP591
IFO1803
yHKS300
CBS10644
ZP960
CBS7001
yHCT77
yHAB482
yHAB60
yHAB447
yHAB521
ZP964
yHRVM108
CDFM21L.1
FM1318
yHCT69
yHCT99
yHAB94
Patagonia B/Holarctic
Patagonia A
Australasia
Holarctic NA/EU
South America A
South America B
Oceania
Asia A
Asia B
Asia A
EU
Asia B
Asia A
S. cerevisiae
America A/EU
Far East
America B
America C
DBVPG6765

10. Internal branches are less supported...

11. ..............................................................due to ILS

12. Mitochondrial/2µm gene flow is more frequent between species than nuclear
Nuclear Mitochondrial/2µm
Gene flow
Nuclear
Mitochondrial
2µm plasmid
ILS

13. Acknowledgments
Amparo Querol
Querol Lab Members
Eladio Barrio
Barrio Lab Members
Carmela Belloch
José Guillamón
Guillamón Lab Members
Sergi Puig
Sergi Lab Members
Diego Libkind (IPATEC)
Juan I. Eizaguirre
Jose Paulo Sampaio (U. Nova de Lisboa)
Paula Gonçalves (U. Nova de Lisboa)
Christian Landry (U. Laval)
Justin Fay (Washington U.)
Katie Hyma
Fengyan Bai (Chinese Ac. of Sc.)
Qi Ming Wang
Ursula Bond (Trinity College)
Chris T. Hittinger’s lab
Quinn Langdon
Jacek Kominek
Christina Kuang
Hittinger Lab Members
Audrey Gasch
Maria Sardi
UW & GLBRC Collaboration
SBYBI