Diversity and metabolic abilities of Antarctic bacteria - DGGE fingerprinting of bacteria
Entry ID: ASAC_2341_DGGE

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Summary
Abstract: Bacterial community structures in soils collected from eight sites around Casey Station, Antarctica, were investigated using denaturing gradient gel electrophoresis (DGGE) of amplified 16S rRNA gene fragments. Higher bacterial diversity was found in soils from protected or relatively low human-impacted sites in comparison to highly impacted sites. However, the highest diversity was detected in samples from Wilkes Tip, a former waste disposal site that has been undisturbed for the last 50 years. Comparison of community structure based on non-metric multidimensional scaling plots revealed that all sites, except the hydrocarbon-contaminated (oil spill) site, were clustered with a 45% similarity. A total of 23 partial 16S rRNA gene sequences were obtained from the excised DGGE bands, with the majority of the sequences closely related to those of the Cytophaga-Flexibacter-Bacteroides group. No significant correlation was established between environmental variables, including soil pH, electrical conductivity, carbon, nitrogen, water content and heavy metals, with bacterial diversity across the eight study sites.

Irene K. P. Tan - Project leader
C. W. Chong - sample collection, molecular and statistical analyses
G. Y. Annie Tan - provided some advice in molecular analysis
Richard C. S. Wong - provided advice in chemical analyses
Martin J. Riddle - assisted in manuscript writing and provided advice in metal analyses

Locations used in this experiment were:

- Casey Red Shed
- Oil Spill site
- Thala Valley
- Wilkes Tip
- Browning Peninsula
- Mitchell Peninsula
- ASPA 135
- ASPA 136

Related URL
Link: VIEW PROJECT HOME PAGE
Description: Public information for AAS project 2341


Link: VIEW RELATED INFORMATION
Description: Citation reference for this metadata record and dataset


Geographic Coverage
 N: -66.2827 S: -66.2827  E: 110.5225  W: 110.5225
 N: -66.2816 S: -66.2816  E: 110.5252  W: 110.5252
 N: -66.2802 S: -66.2802  E: 110.5372  W: 110.5372
 N: -66.2597 S: -66.2597  E: 110.5394  W: 110.5394
 N: -66.4722 S: -66.4722  E: 110.5497  W: 110.5497
 N: -66.3141 S: -66.3141  E: 110.5486  W: 110.5486
 N: -66.2819 S: -66.2819  E: 110.5388  W: 110.5388
 N: -66.2522 S: -66.2522  E: 110.5375  W: 110.5375

Temporal Coverage
Start Date: 2005-12-11
Stop Date: 2005-12-18


Location Keywords
CONTINENT > ANTARCTICA > Windmill Islands
GEOGRAPHIC REGION > POLAR


Science Keywords
BIOLOGICAL CLASSIFICATION >BACTERIA/ARCHAEA    [Definition]
LAND SURFACE >SOILS >MICROFAUNA    [Definition]


ISO Topic Category
BIOTA


Platform
FIELD INVESTIGATION    [Information]
FIELD SURVEYS    [Information]
LABORATORY    [Information]


Quality
The DGGE studies were to compare bacterial diversity between sites, based on band patterns. The 16S DNA fragments used were very short, about 500 bp only. The sequence of individual bands were not sufficient to identify the bacteria. Hence, there are no accession numbers.


Access Constraints
There are no data from this part of the project - see the quality field for further information.


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=ASAC_234... when using these data.


Keywords
Bacteria
denaturing gradient gel electrophoresis
DGGE


Data Set Progress
COMPLETE


Originating Center
Australian Antarctic Division


Data Center
Australian Antarctic Data Centre, Australia    [Information]
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


Personnel
IRENE KIT-PING TAN
Role: INVESTIGATOR
Role: TECHNICAL CONTACT
Phone: +60 3 7967 6792
Fax: +60 3 7967 4178
Email: itan at um.edu.my
Contact Address:
University of Malaya
FACULTY OF SCIENCE
Institute of Biological Sciences
City: Kuala Lumpur
Postal Code: 50603
Country: Malaysia


CHUN WIE CHONG
Role: TECHNICAL CONTACT
Email: cchhoonngg81 at yahoo.com
Contact Address:
International Medical University
No. 126, Jalan Jalil Perkasa 19, Bukit Jalil
City: Kuala Lumpur
Postal Code: 57000
Country: Malaysia


ANNIE GEOK YUAN TAN
Role: TECHNICAL CONTACT
Phone: 60379674634
Fax: 60379605935
Email: gytan at um.edu.my
Contact Address:
Institute of Biological Sciences
University of Malaya
City: Kuala Lumpur
Postal Code: 50603
Country: Malaysia


RICHARD CS WONG
Role: TECHNICAL CONTACT
Email: Richard at um.edu.my
Contact Address:
University of Malaya
FACULTY OF SCIENCE
Department of Chemistry
City: Kuala Lumpur
Postal Code: 50603
Country: Malaysia


MARTIN J. RIDDLE
Role: TECHNICAL CONTACT
Phone: +61 3 6232 3573
Fax: +61 3 6232 3351
Email: martin.riddle at aad.gov.au
Contact Address:
Australian Antarctic Division
203 Channel Highway
City: Kingston
Province or State: Tasmania
Postal Code: 7050
Country: Australia


DAVE J. 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
Chong C. W., Tan G. Y., Wong R. C. S. Riddle M. J., Tan I. K. P (2009), DGGE fingerprinting of bacteria in soils from eight ecologically different sites around Casey Station, Antarctica, Polar Biology, 32, 853-860, doi:DOI:10.1007/s00300-009-0585-6

Creation and Review Dates
DIF Creation Date: 2012-11-12
Last DIF Revision Date: 2012-12-20

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