Gene-Trac® Environmental Molecular Testing

SIREM technician programing robot used to assemble Gene-Trac® qPCR reactions

Heat maps and other graphical outputs provide easy to interpret microbial community profiles in Gene-Trac® NGS reports

Gene-Trac® testing is used to quantify key microorganisms and to determine microbial community composition for the assessment of bioremediation potential and to monitor enhanced bioremediation performance by quantifying and characterizing microorganisms in groundwater and soil/sediment from contaminated sites.

Use Gene-Trac® Testing to:

  • Determine if suitable microorganisms are present for MNA remedies.
  • Predict the effectiveness of biostimulation before the addition of electron donor.
  • Determine the need for bioaugmentation.
  • Determine the impact of site amendments including, electron donors/acceptors.
  • Predict if intermediates such as cDCE or vinyl chloride are likely to accumulate.
  • Characterize microbial community spatial and temporal variability.
  • Validate the performance of enhanced bioremediation projects.
  • Make informed decisions to manage bioremediation and other microbial systems.

Quantify Environmental Microorganisms and Microbial Communities

SiREM offers a growing number of targets for Gene-Trac® testing that includes: Dehalococcoides (Dhc), Dehalobacter (Dhb) and Dehalogenimonas (Dhg), Desulfitobacterium (Dsb) and key functional genes such as vinyl chloride reductase (vcrA, bvcA), trichloroethene reductase (tceA), chloroform, 1,1,1-TCA and 1,1-DCA reductase (cfrA/dcrA). These microorganisms and functional genes are critical to reductive dechlorination of many chlorinated compounds, including chlorinated ethenes, ethanes, methanes, and propanes. Geobacter and sulfate reducers play key roles in the metabolism of aromatic hydrocarbon compounds and the generation of iron sulfur compounds critical to natural attenuation remedies. The dxmB and ALDH genes are important in the aerobic degradation of 1,4-dioxane.

Gene-Trac® quantitative polymerase chain reaction (qPCR) testing is used to quantify key dechlorinating bacteria and functional genes. If a comprehensive analysis of microbial community is required Gene-Trac® NGS (next generation sequencing) provides detailed microbial community composition to better understand the current and potential functions of microbial communities.

Available Gene-Trac® Tests Include

Contaminant Class Redox Gene-Trac® Test Target Relevance
Chlorinated Ethenes Anaerobic Dhc Dehalococcoides Reductively dechlorinates PCE, TCE, all DCE isomers, VC
Dhb Dehalobacter Partial dechlorination of PCE and TCE to cDCE
Dsm Desulfuromonas Partial dechlorination of PCE and TCE to cDCE
Dsb Desulfitobacterium Partial dechlorination of PCE and TCE to cDCE
Geo Geobacter Reductive dechlorination of PCE to cDCE, regenerates reduced iron species in biogeochemical degradation
Dhg Dehalogenimonas Dechlorination of tDCE to VC and VC to ethene
Chloroethene FGA Vinyl chloride reductase (vcrA) Dechlorination of cDCE and VC to ethene
BAV1 Vinyl chloride reductase (bvcA) Dechlorination of PCE and TCE to cDCE and VC
Trichloroethene reductase (tceA) Aerobic dechlorination of cDCE
Aerobic Polaromonas Polaromonas Aerobic degradation of VC
etn Epoxyalkane: coenzyme M transferase (etnE) Aerobic degradation of VC
Chlorinated Ethanes Anaerobic Dhb Dehalobacter Dechlorination of 1,1,1-TCA/1,1-DCA to chloroethane; 1,2-DCA /1,1,2-TCA to VC/ethene; 1,1,2,2-TeCA to tDCE
Dhg Dehalogenimonas Dechlorination of 1,2- DCA to ethene; 1,1,2,2-TeCA to c/tDCE; 1,1,2-TCA to VC
Dhc Dehalococcoides Dechlorination of 1,2-DCA to ethene; dechlorination of VC produced from 1,1,2-TCA dechlorination
Dsb Desulfitobacterium Dechlorination of 1,1,2-TCA and 1,2-DCA
cfrA/dcrA Chloroform reductase (cfrA), Dichloroethane dehalogenase (dcrA) cfrA dechlorinates 1,1,1-TCA to 1,1-DCA; dcrA dechlorinates 1,1-DCA to chloroethane
Aerobic Co-metabolism sMMO Soluble Methane monooxygenase (sMMO) Co-metabolism of 1,1,1-TCA and 1,1- DCA
PMO Propane monooxygenase (PMO) Co-metabolism of chlorinated ethanes (e.g., 1,1,1-TCA) by propane utilizing bacteria
Chlorinated Methanes Anaerobic Dhb Dehalobacter Reductive dechlorination of chloroform to DCM; fermentation of DCM to acetate
cfrA/dcrA Chloroform reductase (cfrA), Dichloroethane dehalogenase (dcrA) cfrA converts chloroform to dichloromethane
Aerobic sMMO Soluble Methane monooxygenase (sMMO) Co-metabolism of chloroform and dichloromethane
Chlorinated Propanes Anaerobic Dhg Dehalogenimonas Converts TCP to allyl chloride; DCP to propene
Dhc Dehalococcoides Converts DCP to propene
Dhb Dehalobacter Converts DCP to propene
Dsb Desulfitobacterium Dechlorination of TCP and DCP
BTEX Anaerobic SRB Sulfate reducing bacteria via dissimilatory sulfate reductase (dsrA) SRB are symbiotic partners to ORM-2 in anaerobic benzene degradation
ORM-2 Deltaproteobacterium ORM-2 ORM-2 anaerobic benzene degrader under sulfate reducing or methanogenic conditions
Pepto-ben Benzene degrading Peptococcacae Anaerobic benzene degradation under nitrate reducing conditions
abcA Benzene Carboxylase (abcA) Functional gene involved in benzene ring cleavage
Fuel Oxygenates Aerobic MTBE/TBA Methylibium petroleiphilum PM1 MTBE/TBE degrading microorganism
tert-butyl alcohol hydroxylase (mdpJ) Active on TBA in aerobic MTBE degradation pathway
HIBA mutase (hcmA) Active on 2-HIBA in aerobic MTBE degradation pathway
Chlorinated Benzenes Anaerobic Dhc Dehalococcoides Partial dechlorination of hexachlorobenzene, pentachlorobenzene, tetrachlorobenzene
Dhb Dehalobacter Reductive dechlorination of dichlorobenzenes, monochlorobenzene
Chlorinated Phenols Anaerobic Dhc Dehalococcoides Converts 2,3-dichlorophenol, trichlorophenols and pentachlorophenol to less chlorinated phenols
Chlorinated Biphenyls Anaerobic Dhc Dehalococcoides Dechlorinates select Aroclor 1260 congeners
Dhb Dehalobacter Activity for select congeners including 2,3,4-trichorobiphenyl; 2,3,4,5-tetrachlorobiphenyl
Dhg Dehalogenimonas Dechlorinates select Aroclor 1260 congeners
1,4-Dioxane Aerobic metabolism 1,4-dioxane Dioxane monooxygenase (dxmb) Energy yielding 1,4-dioxane degradation
1,4-dioxane Aldehyde dehydrogenase (ALDH) Energy yielding 1,4-dioxane degradation
Aerobic Co-metabolism pMMO particulate Methane monooxygenase (pMMO) Co-oxidation of 1,4-dioxane in presence of methane
sMMO soluble Methane monooxygenase (sMMO) Co-oxidation of 1,4-dioxane
PMO Propane monooxygenase (PMO) Co-oxidation of 1,4-dioxane in presence of propane
Nitrate /Ammonium Anaerobic Anammox Brocadia, Kuenenia, Scalindua, Anammoxyglobus, Jettenia Major anammox genera (anaerobic co-removal of ammonium and nitrite)
Prokaryotic Groups Variable Universal Bacteria Quantifies Bacteria – measure of total biomass
Arch Archaea Quantifies Archaea biomass, in highly anaerobic systems proxy for methanogens
SRB Sulfate reducing bacteria via dissimilatory sulfate reductase (dsrA) Anaerobic hydrocarbon oxidation/biogeochemical reduction/microbially induced corrosion
NGS Bacteria/Archaea Provides comprehensive chracterization of microbial communities


SRB – sulfate reducing bacteria, PCE – tetrachloroethene, TCE – trichloroethene, c – cis, t – trans, DCE – dichloroethene, VC – vinyl chloride, 1,1,1-TCA – 1,1,1-trichloroethane, 1,1-DCA – 1,1-dichloroethane, 1,2-DCA – 1,2-dichloroethane, 1,1,2-TCA – 1,1,2-trichloroethane, TeCA – 1,1,2,2-tetrachloroethane, DCM – dichloromethane, DCP – dichloropropane, TCP – trichloropropane

Gene-Trac® Features

  • Comprehensive reports provide detailed testing and quality control parameters
  • Electronic data deliverables in various formats available
  • USA or Canada sample reception options available
  • Field filter protocols are available that reduce shipping costs
  • Unparalleled technical support for data interpretation and planning

Use our on line form or contact SiREM to place an order for sampling supplies or to learn more about how Gene-Trac® can enhance your site monitoring and remediation program

 For more information on Gene-Trac® Testing

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