Strengths in omics as a tool for the early detection of an environmental stressor
This presentation is the property of its rightful owner.
Sponsored Links
1 / 9

Strengths in OMICS as a tool for the early detection of an environmental stressor PowerPoint PPT Presentation


  • 41 Views
  • Uploaded on
  • Presentation posted in: General

Strengths in OMICS as a tool for the early detection of an environmental stressor. Microbial Response Session 2009 EPA Fellowship Conference Sept. 22, 2009. genomics. proteomics. metabolomics. Traditional methods. Experimental identification of metabolites

Download Presentation

Strengths in OMICS as a tool for the early detection of an environmental stressor

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.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -

Presentation Transcript


Strengths in omics as a tool for the early detection of an environmental stressor

Strengths in OMICS as a tool for the early detection of an environmental stressor

Microbial Response Session

2009 EPA Fellowship Conference

Sept. 22, 2009

genomics

proteomics

metabolomics


Traditional methods

Traditional methods

  • Experimental identification of metabolites

  • Molecular genetic methods (knock –outs, cloning, sequencing…)

  • Biochemical characterization

Give information on individual metabolic/genomic/proteomic reactions…

…. But cannot adequately elucidate global cellular responses


Strengths in omics as a tool for the early detection of an environmental stressor

Seong-Jae Kim, Ohgew Kweon and Carl E Cerniglia, Cur. Opin. Microbiol., 2009, 12, 301 -309


Case study phenol response

Case Study-Phenol response

From: Pedro M. Santos, Dirk Benndorf and Isabel Sá-Correia, “Insights into Psedomonas putida KT2440 response to phenol-induced stress by quantitative proteomics”, Proteomics 2004, 4, 2640-2652

Santos et al.,Proteomics, 2004, 4, 2640


Advantages to this approach

Advantages to this approach

  • Identify specific metabolic processes based on changes in protein expression

  • A proteomic analysis of an organism is a readout of the “environmental state” within the organism.

  • This leads to understanding of physiological response and organism influence on the ecosystem

  • Why specific process are regulation- ideas about what pathways are being evoked by organism under a give stress

  • Physiology!!

Gonzalez-Fernandez et. al.(2008) ,Pure Appl. Chem., 80, 2609-2626

Goldberg, E. (1986). Environ. Monit. Assess. 7, 91 –103


P putida study of phenol induced stress

P. putida study of phenol-induced stress

1. Oxidative stress response

2. General Stress response

3. Energetic Metabolism

4. Fatty Acid Biosynthesis

5. Inhibition of Cell Division

6. Cell envelope Biosynthesis

7. Transcriptional Regulation

8. Transport of small molecules

Santos et al.,Proteomics, 2004, 4, 2640


Regulation

Regulation

Up-regulated proteins-

Oxidative stress response –

Fatty Acid Biosynthesis-

Inhibition of Cell Division –

4.Cell envelope Biosynthesis –

5. Transport of small molecules –

Down regulated proteins-

Cell motility

Nucleotide biosynthesis

Phenol exposure leads to increased reactive oxygen species.

Decreased motility )contrary to what was believed) may actually enhance phenol

resistance.

Recovery mechanism for oxidatively damaged membrane phospholipids

Prevent the multiplication of mutated DNA

Prevent multiplication of mutated cells

Adaption to phenol may involve cell envelope modification

Phenol efflux from the cell through increased production of transport proteins

Santos et al.,Proteomics, 2004, 4, 2640


Metabolomics

Metabolomics

  • Bioaccumulation - readout of organisms metabolic state.

  • Coupled with OMICS-paints picture of pathway

  • Understanding of organisms response to stress

Phale P. et al. OMICS, 2007, 11, 252


Conclusions

Conclusions

  • Omics based approaches give physiological conditions.

  • Through integration of genomic/proteomics/metabolomics a good picture of an organisms response to the environment can be obtained

  • Possible markers of an OMIC state can lead to a picture of the environment inside and outside an organism???


  • Login