Concurrent hexachlorobenzene and chloroethene transformation by endogenous dechlorinating microorganisms in the Ebro River sediment

Taş, Neslihan; Heilig, Hans G.H.J.; Eekert, M.H.A. van; Schraa, G.; Vos, Willem M. de; Smidt, Hauke

doi:10.1111/j.1574-6941.2010.00972.x

Cited by 9 publications

(5 citation statements)

References 54 publications

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“…A fast approach of synthesizing DNA standards and controls using long oligonucleotide hybridization has made the setup of qPCR even more convenient (David et al ., 2008). The wide applications of qPCR in dehalogenation studies include: (i) establishing relationship between species and dehalogenating activities (Lendvay et al ., 2003; Yoshida et al ., 2005; Taş et al ., 2009; 2010a); (ii) examining interactions between dehalogenating bacteria and other species (Duhamel and Edwards, 2006; 2007; Cheng et al ., 2010); (iii) demonstrating growth‐linked dehalorespiration (He et al ., 2003; Bedard et al ., 2007; Grostern and Edwards, 2009; Yan et al ., 2009b; L.K. Lee et al ., 2011) and assessing culture purity (Sung et al ., 2006); (iv) assessing spatial and temporal distributions of dehalogenating bacteria (Amos et al ., 2009); and (v) analysing effects of growth factors on dehalogenating bacteria (He et al ., 2007).…”

Section: Detection and Quantification Of Dehalogenating Bacteriamentioning

confidence: 99%

Molecular techniques in the biotechnological fight against halogenated compounds in anoxic environments

Ding¹,

He²

2011

Microbial Biotechnology

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SummaryMicrobial treatment of environmental contamination by anthropogenic halogenated organic compounds has become popular in recent decades, especially in the subsurface environments. Molecular techniques such as polymerase chain reaction‐based fingerprinting methods have been extensively used to closely monitor the presence and activities of dehalogenating microbes, which also lead to the discovery of new dehalogenating bacteria and novel functional genes. Nowadays, traditional molecular techniques are being further developed and optimized for higher sensitivity, specificity, and accuracy to better fit the contexts of dehalogenation. On the other hand, newly developed high throughput techniques, such as microarray and next‐generation sequencing, provide unsurpassed detection ability, which has enabled large‐scale comparative genomic and whole‐genome transcriptomic analysis. The aim of this review is to summarize applications of various molecular tools in the field of microbially mediated dehalogenation of various halogenated organic compounds. It is expected that traditional molecular techniques and nucleic‐acid‐based biomarkers will still be favoured in the foreseeable future because of relative low costs and high flexibility. Collective analyses of metagenomic sequencing data are still in need of information from individual dehalogenating strains and functional reductive dehalogenase genes in order to draw reliable conclusions.

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Section: Detection and Quantification Of Dehalogenating Bacteriamentioning

confidence: 99%

Molecular techniques in the biotechnological fight against halogenated compounds in anoxic environments

Ding¹,

He²

2011

Microbial Biotechnology

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“…Despite playing an important role in biochemical cycles in various environments, they are manifestly difficult to cultivate due to slow growth (Nakahara et al, 2019;De Castro-Fernández et al, 2023). On the contrary, the anaerobic Dehalococcoides showed an interesting capability to transform various chlorinated organics, which are normally released through industrial and agricultural activities (Bedard et al, 2007;Taş et al, 2010). In the case of the sponge M. (M.) rosacea, Rhizobiaceae was the most abundant family (order Alphaproteobacteria) among other bacteria isolated.…”

Section: Discussionmentioning

confidence: 99%

Characterizing the bacterial communities associated with Mediterranean sponges: a metataxonomic analysis

Esposito,

Federico,

Sonnessa

et al. 2024

Front. Microbiol.

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The oceans cover over 70% of our planet, hosting a biodiversity of tremendous wealth. Sponges are one of the major ecosystem engineers on the seafloor, providing a habitat for a wide variety of species to be considered a good source of bioactive compounds. In this study, a metataxonomic approach was employed to describe the bacterial communities of the sponges collected from Faro Lake (Sicily) and Porto Paone (Gulf of Naples). Morphological analysis and amplification of the conserved molecular markers, including 18S and 28S (RNA ribosomal genes), CO1 (mitochondrial cytochrome oxidase subunit 1), and ITS (internal transcribed spacer), allowed the identification of four sponges. Metataxonomic analysis of sponges revealed a large number of amplicon sequence variants (ASVs) belonging to the phyla Proteobacteria, Cloroflexi, Dadabacteria, and Poribacteria. In particular, Myxilla (Myxilla) rosacea and Clathria (Clathria) toxivaria displayed several classes such as Alphaproteobacteria, Dehalococcoidia, Gammaproteobacteria, Cyanobacteria, and Bacteroidia. On the other hand, the sponges Ircinia oros and Cacospongia mollior hosted bacteria belonging to the classes Dadabacteriia, Anaerolineae, Acidimicrobiia, Nitrospiria, and Poribacteria. Moreover, for the first time, the presence of Rhizobiaceae bacteria was revealed in the sponge M. (Myxilla) rosacea, which was mainly associated with soil and plants and involved in biological nitrogen fixation.

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“…cDNA synthesis, PCR, denaturing gradient gel electrophoresis (DGGE), cloning, and sequence analysis were performed as described previously (41,42). A complete list of primers used in this study is given in Table S2 in the supplemental material.…”

Section: Methodsmentioning

confidence: 99%

Role of “Dehalococcoides” spp. in the Anaerobic Transformation of Hexachlorobenzene in European Rivers

Taş

Eekert

Wagner

et al. 2011

Appl Environ Microbiol

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The diffuse pollution by chlorinated organic compounds in river basins is a concern, due to their potential adverse effects on human health and the environment. Organohalides, like hexachlorobenzene (HCB), are recalcitrant to aerobic microbial degradation, and "Dehalococcoides" spp. are the only known microorganisms capable of anaerobic transformation of these compounds coupled to their growth. In this study, sediments from four European rivers were studied in order to determine their HCB dechlorination capacities and the role of Dehalococcoides spp. in this process. Only a weak correlation was observed between Dehalococcoides species abundance and HCB transformation rates from different locations. In one of these locations, in the Ebro River sediment, HCB dechlorination could be linked to Dehalococcoides species growth and activity by 16S rRNAbased molecular methods. Furthermore, HCB dechlorination activity in this sediment was found over the full range of ambient temperatures that this sediment can be exposed to during different seasons throughout the year. The sediment contained several reductive dehalogenase (rdh) genes, and analysis of their transcription revealed the dominance of cbrA, previously shown to encode a trichlorobenzene reductive dehalogenase. This study investigated the role of Dehalococcoides spp. in HCB dechlorination in river sediments and evaluated if the current knowledge of rdh genes could be used to assess HCB bioremediation potential.Production of hexachlorobenzene (HCB)-containing pesticides is banned in most of the world due to HCB's toxic and carcinogenic nature. However, production and emission of the compound still occurs as an intermediate in chemical processes and from natural sources, such as volcanoes (5, 17). In aquatic environments, HCB is mainly deposited in the sediment due to its hydrophobicity. Bacterial reductive dechlorination plays an important role in the degradation of chlorinated aromatic contaminants like HCB in these anaerobic environments (15,19). Under anaerobic conditions, HCB is used by some bacteria in their energy metabolism by coupling reductive dehalogenation to electron transport phosphorylation (36). This is the only known pathway, so far, for the microbial transformation of HCB that is linked to microbial growth. Reductive dechlorination of HCB and its lesser chlorinated derivatives was previously reported in several river sediments (8,11,18,19). Nevertheless, in none of these studies were the microorganisms responsible for the process characterized.Three strains of bacteria capable of degrading HCB via reductive dechlorination have been isolated so far. "Dehalococcoides" sp. strain CBDB1 and "Dehalococcoides ethenogenes" strain 195 dechlorinate HCB to 1,3-dichlorobenzene (DCB), 1,4-DCB, and 1,3,5-trichlorobenzene (TCB) (3,14). Additionally, production of 1,2-DCB was also observed with strain 195. A distant relative of Dehalococcoides spp., "Dehalobium chlorocoercia" DF-1, dechlorinates HCB only to 1,3,5-TCB (48). Besides HCB, strain CBDB1 can also degr...

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Concurrent hexachlorobenzene and chloroethene transformation by endogenous dechlorinating microorganisms in the Ebro River sediment

Cited by 9 publications

References 54 publications

Molecular techniques in the biotechnological fight against halogenated compounds in anoxic environments

Molecular techniques in the biotechnological fight against halogenated compounds in anoxic environments

Characterizing the bacterial communities associated with Mediterranean sponges: a metataxonomic analysis

Role of “Dehalococcoides” spp. in the Anaerobic Transformation of Hexachlorobenzene in European Rivers

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