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Abstract Detail


Protein Targeting and Vesicular Trafficking

Carpita, Christopher S. [1], Lee, Sang-Jik [2], Mueller, Lukas [3], Rose, Jocelyn K.C [2].

Bioinformatic characterization of the plant “secretome”.

The primary route for protein secretion from eukaryotic cells is termed the classical, or endoplasmic reticulum (ER)/Golgi-dependent, secretory pathway. Briefly, secreted eukaryotic proteins utilize an N-terminal signal peptide (SP) to direct their co-translation into the ER lumen, after which they progress through the endomembrane system and are ultimately exported to the extracellular environment, or cell surface. Additionally, a subset of SP-containing proteins are retained in the ER or Golgi, or are redirected to other compartments, such as the vacuole. We are taking a bioinformatics-based approach to characterize the sub-proteomes of Arabidopsis and tomato that are targeted to the secretory pathway, as a foundation for a comparative study of plant ‘secretomes’ over a broader taxonomic range. The goals of the project are to assess the accuracy of existing SP prediction algorithms, analyze the evolutionary dynamics of secretion, and to determine the mechanisms by which the secretome is shaped. Specifically, we have initiated a study of all Arabidopsis proteins that are predicted to be secreted, clustered the resulting sequences into annotated gene families and analyzed the distribution and nature of the constituent SPs. The analyses suggest that in many families, the presence of the SP is evolutionarily dispersed, and so to clarify whether specific outliers in families are real or the product of false positive or false negative predictions, specific proteins are verified experimentally. These results will be used to improve prediction of secretion and will shed light on secretome evolution.


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1 - Cornell University, Plant Breeding and Genetics, Emerson Hall, Ithaca, NY, 14853, USA
2 - Cornell University, Dept of Plant Biology
3 - Cornell University, Dept of Plant Breeding and Genetics

Keywords:
bioinformatics
secretion
secretome.

Presentation Type: Plant Biology Abstract
Session: P
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM
Number: P22022
Abstract ID:1271


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