A systems-approach to understand
the regulation of plant growth and
biomass production in bioenergy
crops
Camila [email protected]
Brazilian Bioethanol Science and Technology Laboratory (CTBE)
Workshop on Interdisciplinary Plant Science- 16/12/2013
Brazilian Centre of Research in Energy and Materials (CNPEM)
CTBE is part of Ministry of Science and Technology with other three National Labs
Facilities
Plant Yield
Microbiology
Enzymology
Molecular Genetics
Biomass
Structure
Bioinformatics
Agriculture
Basic
Science
Virtual Bio-
refinery
Industrial
Sustainability
PLANT GROWTH/YIELD
(Molecular Plant Physiology)
Metabolite Profile Platform
(“Facility”)
Biomarkers identification
for sugarcane breeding
Growth regulation
(TOR)
PLANT GROWTH/YIELD
(Molecular Plant Physiology)
Metabolite Profile Platform
(“Facility”)
COOPERATIONS
Metabolic inventory for Setaria and Sugarcane
Stress series
Developmental series
Genotypes
Long term: feed with collaborators data
Cooperation with Diego Rìaño
PLANT GROWTH/YIELD
(Molecular Plant Physiology)
Metabolite Profile Platform
(“Facility”)
Biomarker identification
for sugarcane breeding
“Metabolic marker as selection tool for sugarcane breeding”
Prof. Lothar Willmitzer (MPIMP, Germany)Anete P. De Souza (Unicamp)
Augusto Garcia (ESALQ-USP)
Luciana R Pinto (IAC Cana)
Mauro Xavier (IAC Cana)
Silvana Creste (IAC Cana)
“Genetic variation and regulation of growth/biomass”
Natural/Genetic Variation x Metabolism
Genetic factors underlying metabolite variation reveals:
Dominant or Addictive modes of inheritance
Chemically correlated metabolites displayed the similar mode of inheritance
Relationships between metabolites, agronomical traits and biological significance
Combination of metabolites correlated with complex traits such as biomass
Predictive power for plant performance
Keurentjes JJB, et al. (2006). Nat Genet 38(7):842-849.
Lisec J, et al. (2008) Plant J. 53(6):960-972.
Lisec J, et al. (2012) Plant J. 68(2):326-336.
METABOLITE MARKERS
Sugarcane Breeding Population
♀IACSP-3018 X ♂ IACSP-3046
Marker Assistant Selection
Genetic Mapping
Yield
Brix
Sugar yield
SSR-EST
QTL
Phenotyping
mQTL
Metabolic Marker
Metabolite Profile
Analysis
Data Analysis
mQTL PredictionGene Function
Elite clone
Susceptible to disease
High levels of sucrose
High tillering rate
Tolerant to disease
Suitable for mechanic harvest
Growth regulation
(TOR)
“Regulation of Plant Growth by the Target of Rapamycin Pathway”
“A systems-approach to understand the regulation of plant growth
and biomass production in bioenergy crops”
PLANT GROWTH/YIELD
(Molecular Plant Physiology)
Metabolite Profile Platform
(“Facility”)
Lothar Willmitzer (MPIMP, Germany)
Silvana Creste (IAC Cana)
Tiago Sobreira (LNBio)
Diego Riaño-Pachón (CTBE)
Carlos Hotta (IQ/USP)
Patrick Giavalisco (MPIMP, Germany)
Henriette Schlupmann (Utrecht University, Holland)
Michel Vincentz (UNICAMP)
Christian Meyer (INRA Versailles, France)
What is TOR?
TOR
RAPAMYCIN
FKBP12
GROWTH
- Target of rapamycin
I. IntroductionI. Introduction
Target of rapamycin (TOR) functions
TOR TRANSLATION
AUTOPHAGY
RIBOSOME
BIOGENESIS
GROWTH REGULATION
TRANSCRIPTION
NUTRIENT
TRANSPORT
G0
ACTIN
ORGANIZATION
Rapamycin
Nutrients
Stress
Hypoxia
Low energy
Insulin METABOLISM
Insensitive to rapamycin (?)
WT Ind iRNA OX
Growth is positively correlated with TOR
Mahfouz et al (2006) Plant Cell 18(2):477-90
Deprost et al. (2007) EMBO 8(9):864-70
TOR in photosynthetic organisms
AtTOR interacts with AtRaptor and regulates S6K activity and stress response
Transcript profile
Protein Degradation
ROS
Lipid metabolismCell wall modification
Autophagy
Secondary metabolism
Major CHO metabolismHormone metabolismSignalling/TF
Metabolic profile
Amino acids
TCA intermediates
Phenylpropanoid
Glucosinolates
amiR-tor9
amiR-tor20
Control Estradiol
Phenotype
TOR in photosynthetic organisms
Carbon Storage
StarchLipids
Caldana et. al (2013). Plant J. 73(6):897-909
Ren et. al (2012). Plant Cell 24(12):4850-74
Our hypothesis
TOR GROWTHx
STARVATION
STRESS
?
Metabolism reprogramming
STORAGE AND SURVIVAL
TOR x BIOENERGY CROPS
Zhang Y et al. Mol. Plant 2013;mp.sst094
TOR in photosynthetic organisms
Interactions Partner
? Upstream Partners
Prof. Lothar Willmitzer (MPIMP, Germany)
Dr Patrick Giavalisco (MPIMP, Germany)
Partners
DrTiago Sobreira (LNBio)
Dr Diego Riaño-Pachón (CTBE)
Dr Marina Martins (CTBE)
Dr Sarita Rabelo (CTBE)
Molecular Plant Physiology Group
Juliana Aricetti
Larissa Cruz
Lucia Wolf
Guilherme de Abreu (IC)
Heitor Rosa (PhD student)
Viviane da Silva (Postdoc)
Fernanda dos Santos (Postdoc)
Dr Michel Vincentz (UNICAMP)
Dr Carlos Hotta (IQ/USP)
Dr Christian Meyer (INRA Versailles, France)
Dr Henriette Schlupmann (Utrecht Uni, Holland)
Prof Anete P. De Souza (Unicamp)
Prof Augusto Garcia (ESALQ-USP)
Dr Luciana R Pinto (IAC Cana)
Dr Mauro Xavier (IAC Cana)
DrSilvana Creste (IAC Cana)
Dr Alexandra Bottcher
xTHANK YOU
