Ecology of Organohalide-respiring Dehalococcoides Mccarty

Ecology of Organohalide-respiring Dehalococcoides Mccarty
Author: Burcu Şimşir
Publisher:
Total Pages: 205
Release: 2016
Genre: Anaerobic bacteria
ISBN:

Organohalides such as tetrachloroethene (PCE) and trichloroethene (TCE) are among the most prevalent toxic groundwater contaminants. Remediation of organohalide-contaminated sites has high priority, and efficient and cost-effective remedies are needed to prevent environment and human exposure through contaminated water. Bacterial organohalide-respiration plays a major role in organohalide detoxification. Dehalococcoides mccartyi (Dhc) are key mediators in bioremediation, since only Dhc strains have been documented in complete detoxification of chlorinated ethenes to benign ethene. Dhc depends on other microorganisms in the environment for essential growth requirements (e.g., hydrogen and vitamins). For successful implementation of the reductive dechlorination to remediate contaminated sites, microbial interactions controlling Dhc reductive dechlorination must be elucidated. The overall objective of this research was to address the key gaps in the scientific understanding of the controls over Dhc reductive dechlorination activity, including Dhc corrinoid-related interactions with other microorganisms. Detailed hydrogeological and microbial characterization of mixed chlorinated solvent contaminated Third Creek site (Knoxville, TN) attributed an important role to the creek sediment, where organohalide-respiring bacteria (e.g., Dhc and Dehalobacter) co-exist, for detoxification of contaminants. Different chlorinated solvent-amendments affected Dhc strain selection and non-dechlorinating microbial composition in enrichment cultures derived from Third Creek sediment. Corrinoid-auxotroph Dhc require corrinoid cofactor for the reductive dehalogenase enzyme systems. Microorganisms including Acetobacterium, Clostridium, Geobacter, and methanogens were identified as corrinoid-producers in the enrichment cultures. 5,6- dimethyl-benzimidazole cobamide (DMB-Cba) was the most abundant corrinoid in enrichment cultures to support Dhc reductive dechlorination. Different lower base-amendments affected Dhc reductive dechlorination rates and extents. Lower base-amendments to enrichment cultures caused a shift from production of DMB-Cba to production of corrinoids with the amended lower bases, some of which caused lower dechlorination rates. In addition, different Dhc strains became abundant with different lower base-amendment in cultures, demonstrating the role of corrinoid in Dhc strain selection. Lastly this research demonstrated that different geochemical conditions and corresponding microbial populations determined the composition and concentration of bioavailable corrinoid pools; thus directly controlling Dhc reductive dechlorination activity. The findings of this research are relevant to environmental remediation practitioners and provide valuable information for improving bioremediation strategies to achieve successful contaminated-site cleanup.

Organohalide-Respiring Bacteria

Organohalide-Respiring Bacteria
Author: Lorenz Adrian
Publisher: Springer
Total Pages: 620
Release: 2016-08-03
Genre: Science
ISBN: 3662498758

This book summarizes the current state of knowledge concerning bacteria that use halogenated organic compounds as respiratory electron acceptors. The discovery of organohalide-respiring bacteria has expanded the range of electron acceptors used for energy conservation, and serves as a prime example of how scientific discoveries are enabling innovative engineering solutions that have transformed remediation practice. Individual chapters provide in-depth background information on the discovery, isolation, phylogeny, biochemistry, genomic features, and ecology of individual organohalide-respiring genera, including Dehalococcoides, Dehalogenimonas, Dehalobacter, Desulfitobacterium and Sulfurospirillum, as well as organohalide-respiring members of the Deltaproteobacteria. The book introduces readers to the fascinating biology of organohalide-respiring bacteria, offering a valuable resource for students, engineers and practitioners alike.

Organohalide Respiration: New Findings in Metabolic Mechanisms and Bioremediation Applications

Organohalide Respiration: New Findings in Metabolic Mechanisms and Bioremediation Applications
Author: Shanquan Wang
Publisher: Frontiers Media SA
Total Pages: 190
Release: 2019-05-21
Genre:
ISBN: 2889458482

Microbial reductive dehalogenation mediated by organohalide-respiring bacteria plays a critical role in the natural halogen cycle, representing a promising solution for removal of organohalide pollutants. This Research Topic presents many of the more recent advances that have been made in this area. Authors from leading research groups contributed to this eBook, and provided mechanistic insights into organohalide respiration, as well as their bioremediation implications, at molecular, cellular, community and system levels.

Genomic Adaptation for Organohalide Respiration of Vinyl Chloride and Other Priority Pollutants by the Anaerobic Bacterium Dehalococcoides

Genomic Adaptation for Organohalide Respiration of Vinyl Chloride and Other Priority Pollutants by the Anaerobic Bacterium Dehalococcoides
Author: Paul Joseph McMurdie (II.)
Publisher: Stanford University
Total Pages: 174
Release: 2011
Genre:
ISBN:

Vinyl chloride (VC) is a widespread groundwater pollutant and Group 1 carcinogen. Microbial respiration of VC is both critical for complete remediation of chloroethenes in situ, and a unique physiology only observed by certain strains of Dehalococcoides. Two different genes independently encoding VC respiration in Dehalococcoides, vcrA and bvcA, were identified previously, each a member of the diverse family of reductive dehalogenase homologous genes, or rdhA. In this thesis I report that vcrA and bvcA are among a subset of putative 'foreign' rdhA with a low GC3 codon usage that favors the nucleotide T, even though tRNAs recognizing T-ending codons are categorically absent in Dehalococcoides genomes. Comparative genomics of the first two complete genome sequences of microorganisms able to respire VC, Dehalococcoides strains VS and BAV1, reveals that vcrA and bvcA are both located within recently integrated, but different, genomic islands (GIs). These islands have different predicted integration sites and different relative positions in the genome, suggesting that bvcA and vcrA were acquired independently and through different mechanisms. In particular, the vcrA-containing GI appears to have integrated at the single-copy tmRNA encoding gene, ssrA, along with many other homologous elements that site-specifically integrate/excise at ssrA -- some of which contain other rdhA. A detailed analysis of these 'ssrA-GIs' in Dehalococcoides identifies the precise position of insertion as well as a conserved module of syntenic integration-associated genes that includes the likely ssrA-specific integrase. Further analysis of (meta)genomic data, as well as targeted sequencing from 4 additional VC-respiring cultures, provided a total of 8 syntenic vcr-GIs from independently derived cultures. Evolutionary estimates for the age of divergence of these 8 vcrA sequences is not confidently distinguishable from the first industrial synthesis of chlorinated ethenes approximately 100 years ago. By contrast, the estimated age of divergence of Dehalococcoides strains far precedes industrial civilization. Overall, ssrA-GIs appear to be a major contributor to the second of two high plasticity regions, genetically dynamic regions that interrupt an otherwise stable, syntenic, and streamlined Dehalococcoides genome -- among the smallest of any free living microorganism. The apparent compartmentalization of Dehalococcoides genome dynamics within specialized regions may enhance opportunistic adaptation to (new) organohalide respiratory niches while protecting a core genome that is highly adapted to life in the anoxic subsurface, exemplified here by the recent site-specific acquisition of VC reductase genes.

Bioaugmentation for Groundwater Remediation

Bioaugmentation for Groundwater Remediation
Author: Hans F. Stroo
Publisher: Springer Science & Business Media
Total Pages: 421
Release: 2012-10-04
Genre: Technology & Engineering
ISBN: 1461441145

​This volume provides a review of the past 10 to 15 years of intensive research, development and demonstrations that have been on the forefront of developing bioaugmentation into a viable remedial technology. This volume provides both a primer on the basic microbial processes involved in bioaugmentation, as well as a thorough summary of the methodology for implementing the technology. This reference volume will serve as a valuable resource for environmental remediation professionals who seek to understand, evaluate, and implement bioaugmentation.

Bioaugmentation for Groundwater Remediation

Bioaugmentation for Groundwater Remediation
Author: Hans F. Stroo
Publisher: Springer Science & Business Media
Total Pages: 421
Release: 2012-10-02
Genre: Technology & Engineering
ISBN: 1461441153

​This volume provides a review of the past 10 to 15 years of intensive research, development and demonstrations that have been on the forefront of developing bioaugmentation into a viable remedial technology. This volume provides both a primer on the basic microbial processes involved in bioaugmentation, as well as a thorough summary of the methodology for implementing the technology. This reference volume will serve as a valuable resource for environmental remediation professionals who seek to understand, evaluate, and implement bioaugmentation.

Handbook of Bioremediation

Handbook of Bioremediation
Author: Mirza Hasanuzzaman
Publisher: Academic Press
Total Pages: 766
Release: 2020-10-18
Genre: Science
ISBN: 0128193832

Handbook of Bioremediation: Physiological, Molecular and Biotechnological Interventions discusses the mechanisms of responding to inorganic and organic pollutants in the environment using different approaches of phytoremediation and bioremediation. Part One focuses specifically on inorganic pollutants and the use of techniques such as metallothionein-assisted remediation, phytoextraction and genetic manipulation. Part Two covers organic pollutants and consider topics such as plant enzymes, antioxidant defense systems and the remediation mechanisms of different plant species. This comprehensive volume is a must-read for researchers interested in plant science, agriculture, soil science and environmental science. The techniques covered in this book will ensure scientists have the knowledge to practice effective bioremediation techniques themselves. Provides a comprehensive review of the latest advances in bioremediation of organic and inorganic pollutants Discusses a range of different phytoremediation techniques Evaluates the role of genomics and bioinformatics within bioremediation