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Proteorhodopsins in Southern Ocean Bacteria

Entry ID: AAS_3127

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Summary

Abstract: Metadata record for data from AAS Project 3127
See the link below for public details on this project.

Bacteria in marine environments have been found to be able to partially support growth by using light to generate energy in a non-photosynthetic process. This is possible due to a special protein called proteorhodopsin. It is hypothesised that formation of proteorhodopsin has evolved to cope ...

Related URL

Link: GET DATA

Description: Download point for the data

Geographic Coverage

(Click for Interactive Map)

Spatial coordinates

N: -54.0

S: -67.0

E: 160.0

W: 60.0

Temporal Coverage

Start Date: 2009-09-30

Stop Date: 2012-03-31

Location Keywords

OCEAN > SOUTHERN OCEAN

GEOGRAPHIC REGION > POLAR

Science Keywords

OCEANS > OCEAN CHEMISTRY > NUTRIENTS

BIOLOGICAL CLASSIFICATION > BACTERIA/ARCHAEA

ISO Topic Category

BIOTA

OCEANS

Platform

SHIPS

LABORATORY

Quality Values provided in temporal and spatial coverage are approximate only.

Taken from the 2009-2010 Progress Report:
Variations to work plan or objectives:

No field work to collect samples was able to be performed, all activities to date have been laboratory based.

1. PCR analysis of PR in 65 Antarctic bacterial strains (obtained from previous AAD-supported ... activity) by marine science student Jaume Bibloni. Results to date indicate extensive presence of PR genes in Antarctic lake bacteria including undescribed species. PR presence in sea-ice bacteria was more restricted. Obvious strain-dependency occurs in PR distribution. Sequence data obtained for most PR positive strains. Limitations in the analysis include the need to use highly degenerate primer oligonucleotides (due to high level of variability PR sequences at the nucleotide level). Work is ongoing to retest several strains giving equivocal results in the PCR asays.
2. Proteomics analysis has been initiated (Clare Rutherford Honours student) for analysis of response of Psychroflexus torquis to light and dark conditions grown at 2 C (grown in a modified marine medium). The proteomics involves shotgun analysis using a 2-dimensional HPLC separation of trypsinised protein extracts (recovered using the QProteome proteoin extraction kit and extraction with membrane protein surfactant C7BzO, Sigma-Aldrich) coupled to nano-flow LTQ-Orbitrap mass spectrometry. This work is done in collaboration with Dr Edwin Lowe, Central Sciences Laboratory. The goal of this experiment is to determine whether the presence of light induces PR translation (abundance) and it cognate carotenoid hydroxylase as well as other changes to the proteome. Based on recent experiments on other bacteria (E. coli and L. monocytogenes) as much as 50% of the proteome can be recovered using this approach (termed "MudPit" - multidimensional protein information technology). This will be first time such ana analysis has been performed on a marine bacterial species.
3. Growth experiments have been initiated by Clare Rutherford and Jaume Bibloni to determine conditions inducing growth rates and yields in the presence of light for the PR-bearing species P. torquis. The conditions being focussed on are nutritional. The experiments involve utilisation of 96-well trays and spectrophotometry using a plate reader. Initial results suggest that light induces growth when certain critical nutrients are low, potentially either iron and/or certain vitamins (cobalamin), suggesting that PR may aid in generating a proton gradient helping drive enhanced nutrient uptake.

Access Constraints These data are not yet publicly available.

Use Constraints This data set conforms to the PICCCBY Attribution License (http://creativecommons.org/licenses/by/3.0/).

Please follow instructions listed in the citation reference provided at http://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_3127 when using these data.

Ancillary Keywords

Bacteria

proteorhodopsin

PCR

Data Set Progress

IN WORK

Data Center

Australian Antarctic Data Centre, Australia

Data Center URL: http://data.aad.gov.au

Data Center Personnel
Name: DATA OFFICER AADC Phone: +61 3 6232 3244 Fax: +61 3 6232 3351 Email: metadata at aad.gov.au Contact Address: Australian Antarctic Division 203 Channel Highway City: Kingston Province or State: Tasmania Postal Code: 7050 Country: Australia

Distribution

Distribution Media: HTTP

Distribution Size: 2.8 MB

Distribution Format: Excel, PDF

Fees: Free

Personnel

JOHN BOWMAN

Role: INVESTIGATOR

Role: TECHNICAL CONTACT

Phone: +61 3 6226 6380

Fax: +61 3 6226 2642

Email: john.bowman at utas.edu.au

Contact Address:

School of Agricultural Science

University of Tasmania

Private Bag 54

City: Hobart

Province or State: Tasmania

Postal Code: 7001

Country: Australia

DAVE CONNELL

Role: DIF AUTHOR

Phone: +61 3 6232 3244

Fax: +61 3 6232 3351

Email: dave.connell at aad.gov.au

Contact Address:

Australian Antarctic Division

203 Channel Highway

City: Kingston

Province or State: Tasmania

Postal Code: 7050

Country: Australia

Publications/References

Bianca Porteus, Chawalit Kocharunchitt, Rolf E. Nilsson,Tom Ross and John P. Bowman (2011), Utility of gel-free, label-free shotgun proteomics approaches to investigate microorganisms, Appl Microbiol Biotechnol, 90, 407-416, doi:DOI 10.1007/s00253-011-3172-z

Creation and Review Dates

DIF Creation Date: 2010-04-15

Last DIF Revision Date: 2012-11-05

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