Characterization of Transcriptional Regulatory Networks controlling ...

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2 Οκτ 2013 (πριν από 3 χρόνια και 6 μήνες)

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Characterization of Transcriptional Regulatory
Networks
controlling
plant cell adaptation to
environmental stresses

What is a

Transcriptional Regulatory
Network (TRN)?

It’s a map of gene expression programs.


These programs control plant development and plant adaptation to stresses.


These programs depend on the recognition of specific promoter sequences by
transcriptional regulatory proteins as well as epigenetic modifications of the
genetic material.

Transcriptional
Regulatory Networks

Nuclear protein
-
protein interactions
(selected TFs)

Nuclear Protein
-
DNA
interactions

(selected TFs)

Small RNAs

Genomic DNA
methylome

(cytosine
methylation pattern)

The
characterization
of
plant
TRNs r
equires the qualitative and
quantitative integration of inter
-
disciplinary biological approaches

Transcriptome

(RNA
-
sequencing)

Hisotne

modifications

Bioinformatics

Rt
=
6
t
1
+
3
t
2
+
6
t
3
+
4
t
4
+
1
t
5

t1

t2

t3

t4

t
5

t’1

t’2

t’
3

t’4

t’5

Environmental stress

Rt
’=
6t’1
+
3t’2
+
6t’3
+
4t’4
+
1t’5

A change between
Rt

and
Rt
’ might reflect:

1
-

a global change across all the different cell types of the
analyzed tissue/organ


t
1

t’
1
;
t
2


t’
2
;
t
3


t’
3
;
t
4


t’
4
;
t
5


t’
5

2
-
a change
of the
transcriptome

of a
singe cell type.


t
1
=
t’
1
;
t
2


t’
2
;
t
3

=
t’
3
;
t
4

=
t’
4
;
t
5

=
t’
5


The cellular complexity of plant roots is not suitable

to characterize TRNs.

David Ponder (SEM picture)

A Single cell model is required to
clearly characterize TRNs.

Root hair cells are epidermal root cells
characterized by their polar growth

Use
of an
aeroponic

system to treat roots and
investigate
the biology and TRNs of the
root hair
cell