Quality Silencing

Presentation Transcript

Quality Silencing Bob Anderssen CSIRO Mathematical and Information Sciences Peter Waterhouse CSIRO Plant Industry Thanks to different CMIS and CPI partners.

Contents What is Gene Silencing? The Natural Mechanism: Virus Control and Developmental Control (An "Rise" Complex System Science Phenomenon) Scientific Exploitation: Knockouts and Knockdowns The Basic Ordinary Differential Equation Model Easy to record complex models and settle (Maple) Mathematical Experimentation using Plant Breeding Data Opportunities New mutants utilizing knockouts. Planning knockout methodologies (Combinatorial Optimization – CMIS) Designing new plant engineering. In what manner can Complex System Science help?

dsRNA intervened quality hushing Dicers Argonautes Bind mRNA Cleavage

Opportunities for CSS AG04 24nt dsRNA formats DCL3 DCL2 DCL4 DCL1 22nt 21nt siRNA miRNA siRNA AG0 AG01 mRNA cleavage Virus RNA cleavage mRNA cleavage Developmental direction Viral guard

Viral Control (left hand side)

AAAAAAA 1 2 AAAAAAA-RNAi component – Mimicking Viral Control mRNA dsRNA

c AAAAAAA M 2 1 3 AAAAAAA-RNAi system c D mRNA dsRNA c S AAAAAAA-siRNA

AAAAAAA 4 AAAAAAA-RNAi instrument mRNA dsRNA AAAAAAA-siRNA

AAAAAAA-5 RNAi component mRNA dsRNA AAAAAAA-siRNA

The Basic Ordinary Differential Equation Model

Maple: Mathematical Experimentation – Steady State Ranking

The Opportunity Gene Knockout: Introduce dsRNA as clasp RNA (hpRNA) to quiet some particular quality. Trap the plant into closing down or re-directing particular atomic pathways to modify natural exercises. e.g. - blossoming time - leaf shape - yield record - oil quality

Col Dcl2 Dcl4 Dcl2,Dcl4 Dcl2,Dcl3Dcl4

Synthetic miRNAs CUC1/2 syn miRNA Wt CUC1/2 syn miRNA

How can CSS help? Outlining Knock/Knockdown Strategies (combinatorial advancement – CMIS) Assist with the Biological and Mathematical Challenges as they Unfold.

AG0 AG01 Gene Silencing Pathways in Plants Heterochromatin arrangement AG04 24nt dsRNA formats RDR6 DCL3 DCL2 DCL4 DCL1 22nt 21nt miRNA siRNA ta-siRNA mRNA cleavage Virus RNA cleavage mRNA cleavage Control of formative planning Developmental direction Viral resistance

Ciliates Insects 975 1967 Mammals 1550 Fungi Green Algae 1625 + Rice 55 + Maize 955 <5 15 60 Monocots + Wheat 70 10 200 Barley + 270 Non-plant dicer Poplar dcl1 90 10 Dicots dcl2a Arabidopsis dcl2b 165 dcl3a 25 dcl3b dcl4 Evolutionary tree of dicer qualities in plants Giardia 2,300 Large scale quality duplication Time in million years (My)

Gene Silencing Pathways in Arabidopsis (Choose a fitting Biological Model System) 2 3 1 4 1

Thank you for your consideration! What is Gene Silencing? The Natural Mechanism: Virus Control and Developmental Control (An "Rise" Complex System Science Phenomenon) Scientific Exploitation: Knockouts and Knockdowns The Basic Ordinary Differential Equation Model Easy to record complex models and settle (Maple) Mathematical Experimentation using Plant Breeding Data Opportunities New mutants utilizing knockouts. Planning knockout systems (Combinatorial Optimization – CMIS) Designing new plant engineering. By what method can Complex System Science help?