Recombination DNA Technology (Nucleic Acid Hybridization )
Combining and improving phenotypic traits through the generation of synthetic two- and six-species yeast hybrids
1. Mechanisms of speciation and adaptation in
Trichaptum abietinum
David Peris Navarro
Postdoctoral Researcher
Department of Biosciences, UiO
20th February 2020
@DPerisN
2. David Peris, Postdoctoral Marie Curie Fellow
Biotechnology Department, SBYBI Group
20th February 2020
@DPerisN
Combining and improving phenotypic traits through the
generation of synthetic two- and six-species yeast
hybrids
3. Saccharomyces cerevisiae yeast model
Image provided by: http://faculty.ccbcmd.edu/courses/bio141/lecguide/unit4/fungi/u1fig35.html
Well characterize eukaryotic cell
4. Saccharomyces cerevisiae yeast model
Image provided by: http://faculty.ccbcmd.edu/courses/bio141/lecguide/unit4/fungi/u1fig35.html
Small genome
Well characterize eukaryotic cell
5. Saccharomyces cerevisiae yeast model
Image provided by: http://faculty.ccbcmd.edu/courses/bio141/lecguide/unit4/fungi/u1fig35.html
Easy to manipulate
Small genome
Well characterize eukaryotic cell
6. Saccharomyces cerevisiae yeast model
Image provided by: http://faculty.ccbcmd.edu/courses/bio141/lecguide/unit4/fungi/u1fig35.html
Easy to manipulate
Small genome
Similarities to other
eukaryotes
Well characterize eukaryotic cell
7. Ability of S. cerevisiae strains to consume different carbon sources
Carbon sources
Glucose
Fructose
Glu Glu
Maltose
Glu Glu Glu
Maltotriose
8. Domesticated S. cerevisiae strains
Carbon sources
Glucose
Fructose
Glu Glu
Maltose
Glu Glu Glu
Maltotriose
Ales
Traditional
beverages
Wine
Cider
Sake
Bakery
12. Re-domestication of S. cerevisiae
The most tolerant of wild S. cerevisiae
Engineered with xylose utilization genes
Aaerobically evolved
Y732n
CHASSIS
Xylose Hydrolysate toxins
Wohlbach et al. 2009 PNAS
Sato et al. 2013 AEM
McIlwain, Peris, et al. 2016 G3
13. Genomic diversity across the genus Saccharomyces
Peris et al in preparation
Libkind, Peris et al 2020 FEMSYR
S. cerevisiae
S. paradoxus
S. mikatae
S. jurei
S. kudriavzevii
S. arboricola
S. uvarum
S. eubayanus
Species
14. Phenotypic diversity across the genus Saccharomyces
Wimalasena et al 2014 Microb Cell Factories
Peris et al 2017 Biotech Biofuels
S. cerevisiae
S. paradoxus
S. mikatae
S. jurei
S. kudriavzevii
S. arboricola
S. uvarum
S. eubayanus
Species
AFEX Corn Stover Hydrolysate
15. Hybridization as a mechanism to improve chassis strains
S. cerevisiae
S. paradoxus
S. mikatae
S. jurei
S. kudriavzevii
S. arboricola
S. uvarum
S. eubayanus
Species
Langdon, Peris et al 2019 Nat Ecol & Evol
Pontes et al 2019 Front Gen
Peris et al 2018 Yeast
Almeida et al 2014
Erny et al 2012 AEM
Peris et al 2012 Yeast
Peris et al 2012 BMC Genomics
Peris et al 2012 PloS One
Saaz/Group I
Frohberg/Group II
Olive
Alpechin
Champagne
Cider
Wine
Belgium beers
Some ales
Txakoli
Tokaj
Amarone
19. iHyPr for generation of allotetraploids
MAT/MATa MAT/MATa
MAT/MAT MATa/MATa
X
Alexander, Peris et al 2014 Fung Gen and Biol
20. Peris et al 2019 BioRxiv
Langdon, Peris et al 2019 MBE
iHyPr to generate six species hybrids
21. Aims
Generate higher order species hybrids
Select hybrids with different combinations of mitochondrial genomes
22. iHyPr to cross rho+ and rho0 strains
MAT/MAT MATa/MATa
X
23. iHyPr to select the mitochondrial inheritance
X
MAT/MAT MATa/MATa
Baker, Peris et al 2019 Sci Advances
Li, Peris et al 2019 Sci Advances
24. Aims
Generate higher order species hybrids
Select hybrids with different combinations of mitochondrial genomes
Improve and retain parent phenotypic traits of interest through
adaptive laboratory evolution
25. Please, come to visit my poster C3-05
How iHyPr works
How genome size/ploidy correlates with fitness and cell volume
The genome characterization of six-species hybrids
The impact of mitochondrial inheritance in the genome and
phenotypes
The genome reduction and phenotypes improvement
The retention of industrial interesting traits
Future applications of iHyPr
26. Lainy Ramírez Aroca
Amparo Querol
David Lázaro
Laura Pérez-Través
Eladio Barrio
José Guillamón
Sergi Puig
William G Alexander
Mira G Basuino
Emily J Ubbelohde
Diego Libkind
Jose Paulo Sampaio
Paula Gonçalves
Christian Landry
Jean-Baptiste Leducq
Guillaume Charron
Justin Fay
Katie Hyma
Li Xueying
Fengyan Bai
Qi Ming Wang
Chris T. Hittinger’s lab
Quinn Langdon
EmilyClaire Baker
Rusell Wrobel
Ryan Moriarty
Kaitlin Fisher
UW & GLBRC CollaborationSBYBI@IATA-CSIC
Thank you