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Study

Study Name: Soil microbial community from bioreactor at Alameda Naval Air Station, CA, contaminated with Chloroethene

Projects

Biosamples

Organisms

Biosamples: 16 Seq. Projects: 16
STUDY NAME
GOLD Study ID Gs0045295
Study Name Soil microbial community from bioreactor at Alameda Naval Air Station, CA, contaminated with Chloroethene
Other Names Community genomics of an 8-year-old, highly-efficient, highly-stable, reductive- dechlorinating bioreactor.
NCBI Umbrella Bioproject Name
NCBI Umbrella Bioproject ID
Legacy ER Study ID 295
Legacy GOLD ID Gm00166
Added By Eoin Brodie on 2009-01-23
Last Modified By Michelle Isbandi on 2014-02-18
STUDY DESCRIPTION
PI Eoin Brodie
Description PCE (tetrachloroethylene) and TCE (trichloroethylene) are widespread contaminants of groundwater resources. One attractive approach for remediating these sites is to exploit in situ bioremediation using chloroethene-respiring members of the bacterial genus Dehalococcoides. Although this approach is promising, it is limited in that Dehalococcoides spp. are metabolically fastidious and rely upon supporting organisms to supply several growth-requiring nutrients, including the electron donor hydrogen and the vitamins cobalamin and biotin. The primary goal of our research is to identify Dehalococcoides-growth-supporting organisms and elucidate their ecological and functional roles. The ANAS culture runs in a semi-batch reactor in which a volume of biomass is removed every 14 days and replaced with fresh media. TCE and lactate is added at the beginning of every 14-day cycle. Lactate was depleted within one day, TCE was degraded within two days, and complete reductive dechlorination to ethene was achieved within four days. Samples ANAS 1 ? ANAS 3 were all taken from the same sample from ANAS. The sample was taken on 05/31/07, 27 hours after the addition of TCE and lactate when TCE, DCE, VC, and ethene were all present. The sample was split into 3 (hence ANAS1, 2 and 3), and DNA and RNA was extracted from each sample individually. ANAS 1 and ANAS 3 are analytical replicates of a snapshot of ANAS at a point when the community is very active. Samples ANAS 4 and ANAS 6 were taken from the reactor at the same time point in the cycle (27 hours after the addition of TCE and lactate) but in different consecutive cycles (10/26/07, 11/09/07, and 11/27/07) and will be considered biological replicates of each other and of ANAS 1 -3. They are also a snapshot of ANAS at the same point when the community is very active. Samples ANAS 7 and ANAS 15 were taken at various points in the time course of the 14-day cycle to better understand how the community changes during the cycle. Samples were taken at three distinct time-points in the cycle: 27 hours (designated T1), 54 hours (T2), and 13 days (T3) after the cycle was initiated by amendment with TCE and lactate. At T1, the dwindling presence of TCE and the production of reductive dechlorination daughter products (DCE, VC, and ethene) demonstrate that dechlorinating bacteria within the consortia were active, and the production of methane demonstrates the activity of methanogens. At T2, TCE and DCE were fully depleted, and VC was the only chloroethene remaining in the culture, while ethene and methane production were ongoing. At T3, approximately nine days had passed with no chloroethenes to support Dhc growth, but methane production continued. Samples ANAS 7 and ANAS 9 were taken from the reactor at the same time point in the cycle (27 hours after the addition of TCE and lactate) but in different cycles. Samples ANAS 10 ? ANAS 12 were taken from the reactor at the same time point in the cycle (54 hours after the addition of TCE and lactate) but in different cycles. Samples ANAS 13 and ANAS 15 were taken from the reactor at the same time point in the cycle (13 days after the addition of TCE and lactate) but in different cycles. We expect the Dehalococcoides in the community to be very active at T1 and T2 and less active at T3. We are unsure of what to expect from the rest of the community.
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GOLD CLASSIFICATION
Ecosystem Environmental
Ecosystem Category Terrestrial
Ecosystem Type Soil
Ecosystem Subtype Loam
Specific Ecosystem Contaminated
Metagenomic Study Yes
STUDY COMPOSITION
Number of Biosamples 16
Number of Organisms 0
Number of Seq Projects 16
Number of Analysis Projects 1
Number of Related Studies 0

 

 

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