a systems-approach to understand the regulation of plant growth and biomass … · 2013-12-17 · a...

A systems-approach to understand

the regulation of plant growth and

biomass production in bioenergy

crops

Camila Caldanacamila.caldana@bioetanol.org.br

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