1 / 12

mRNA Transcript Expression in the Ear Shoot Apical Meristem and Correlation with Yield

mRNA Transcript Expression in the Ear Shoot Apical Meristem and Correlation with Yield. A Translational Genomics Experiment Utilizing Next-Generation Sequencing Technology And the B73 Genome Reference Sequence. GENETIC MATERIALS. Four homozygous lines: Ex-PVP Accessions

lynnea
Download Presentation

mRNA Transcript Expression in the Ear Shoot Apical Meristem and Correlation with Yield

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. mRNA Transcript Expression in the Ear Shoot Apical Meristemand Correlation with Yield A Translational Genomics Experiment Utilizing Next-Generation Sequencing Technology And the B73 Genome Reference Sequence

  2. GENETIC MATERIALS Four homozygous lines: Ex-PVP Accessions Very similar in rate of development (1) LH1 (2) PHG39 (3) LH123HT (4) PHG84 Six F1 Hybrids Six F2 Families Twelve Reciprocal BC1 Families: A*B/A; A*B/B Provides the entries for a generation means design for the partition of genotypic variation into additive, dominance, and inter-gametic epistatic genetic effects

  3. EXPERIMENTAL DESIGN Rep 1 Rep 2 • Generations blocked separately so as to • eliminate unequal interplot competition • effects due to differences in vigor and rate • of development. • Ear shoot sampling and ear trait pheno- • Typing blocked separately so as to provide • Normal ear development on intact plants. • Sequencing and bioinformatics done on • extracted mRNA by National Center for • Genome Resources. Rep 3

  4. TRAIT WEIGHTS ON FIRST PRINCIPAL COMPONENT OF GENOTYPIC VARIATION IN THE MATURE EAR First principal component accounts for 90% of the variation in ear traits Variation primarily Non-additive 0.50 0.40 0.30 0.20 0.10 Ear Weight Cob Length Cob Weight Grain Weight Grain Fill Kernels Per Row

  5. FREQUENCY DISTRIBUTION OF TRANSCRIPT EXPRESSION GENETIC EFFECTS AT FDR<=0.10 18,000 15,000 12,000 9,000 6,000 3,000 Residual Genetic Dominance Inter- Gametic Epistatic Genotypic Additive

  6. PERCENT OVER-REPRESENTATION OF GENES WITH TRANSCRIPT EXPRESSION SIGNIFICANTLY CORRELATED WITH KPR COMPONENT BY FUNCTIONAL CATEGORY 60 50 40 30 20 10 Heat Shock Stress Response Oxido- Reductase Transcription Factors All Others

  7. RANK CORRELATIONS OF GENE EXPRESSION WITH KERNELS PER ROW COMPONENT cAMP Responsive Element Binding CCAAT Enhancer Binding Protein 1.0 0.5 0 -0.5 -1.0 C/EBP CREB Ramosa1 Ramosa2 Ramosa3 Chr 2 Homeolog Ramosa3 Chr 7

  8. Ramosa 1 Ramosa2 Ramosa3 homeolog Knox 1 ELK Pyruvate dehydrogenase Transketolase Tubby N=394 Biosynthesis r>=0.82 C/EBP r=1 Kernels per row r=-1 r=-1 CREB r<=-0.82 Superoxide dismutase Detox proteins (several) Haem peroxidases (several) NADH plastoquinone Iron-sulfur protein AMP-dependent synthetase Adenine translocator AP2/EREPB Generation of Reactive Oxygen Species(ROS) DueTo Oxido-Reductase Activity During Mitochondrial Respiration N=451

  9. SUMMARY • Variation in genotypic expression of the • ramosa genes in the ear shoot spikelet- • pair meristem is highly correlated with • genotypic variation in kernels per row • in the mature ear. • Reactive oxygen species may serve as a • signal acting on a gene network • centered on C/EBP and CREB that • regulates initiation of axillary branches • in the spikelet-pair meristem.

  10. ACKNOWLEGEMENTS Andrew Farmer NCGR Paul Scott Iowa State Bill Beavis Iowa State Bob Schmidt UCSD Sarah Hake & Maize Infl. Group Adrienne Lauter Iowa State Greg May NCGR Kendall Lamkey Iowa State

  11. QUESTIONS & COMMENTS ?

More Related