Environmental pollution has been on the rise in the past few decades owing to increased human activities on energy reservoirs, unsafe agricultural practices and rapid industrialization. Amongst the pollutants that are of environmental and public health concerns due to their toxicities are: heavy metals, nuclear wastes, pesticides, green house gases, and hydrocarbons. Remediation of polluted sites using microbial process (bioremediation) has proven effective and reliable due to its eco-friendly features. Bioremediation can either be carried out ex situ or in situ, depending on several factors, which include but not limited to cost, site characteristics, type and concentration of pollutants. Generally, ex situ techniques apparently are more expensive compared to in situ techniques as a result of additional cost attributable to excavation. However, cost of on-site installation of equipment, and inability to effectively visualize and control the subsurface of polluted sites are of major concerns when carrying out in situ bioremediation. Therefore, choosing appropriate bioremediation technique, which will effectively reduce pollutant concentrations to an innocuous state, is crucial for a successful bioremediation project. Furthermore, the two major approaches to enhance bioremediation are biostimulation and bioaugmentation provided that environmental factors, which determine the success of bioremediation, are maintained at optimal range. This review provides more insight into the two major bioremediation techniques, their principles, advantages, limitations and prospects.

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Bioremediation techniques–classification based on site of application: principles, advantages, limitations and prospects

Bioremediation approaches for organic pollutants: a critical perspective

Biofilms: implications in bioremediation.

A field experiment was conducted in Delaware (USA) to evaluate three crude oil bioremediation techniques. Four treatments were studied: no oil control, oil alone, oil + nutrients, and oil + nutrients + an indigenous inoculum. The microbial populations were monitored by standard MPN techniques, PLFA profile analysis, and 16S rDNA DGGE analysis for species definition. Viable MPN estimates showed high but steadily declining microbial numbers and no significant differences among treatments during the 14-weeks. Regarding the PLFA results, the communities shifted over the 14-week period from being composed primarily of eukaryotes to Gram-negative bacteria. The Gram-negative communities shifted from the exponential to the stationary phase of growth after week 0. All Gram-negative communities showed evidence of environmental stress. The 16S rDNA DGGE profile of all plots revealed eight prominent bands at time zero. The untreated control plots revealed a simple, dynamic dominant population structure throughout the experiment. The original banding pattern disappeared rapidly in all oiled plots, indicating that the dominant species diversity changed and increased substantially over 14 weeks. The nature of this change was altered by nutrient-addition and the addition of the indigenous inoculum.

/pdf/microbial-population-changes-during-bioremediation-of-an-46czbde8f8.pdf

Microbial Population Changes During Bioremediation of an Experimental Oil Spill

Microbial biosensors: A review

https://www.cell.com/trends/biotechnology/pdf/S0167-7799(05)00023-5.pdf

Accessing microbial diversity for bioremediation and environmental restoration

Application of microbial metabolic potential (bioremediation) is accepted as an environmentally benign and economical measure for decontamination of polluted environments. Bioremediation methods are generally categorized into ex situ and in situ bioremediation. Although in situ bioremediation methods have been in use for two to three decades, they have not yet yielded the expected results. Their limited success has been attributed to reduced ecological sustainability under environmental conditions. An important determinant of sustainability of in situ bioremediation is pollutant bioavailability. Microbial chemotaxis is postulated to improve pollutant bioavailability significantly; consequently, application of chemotactic microorganisms can considerably enhance the performance of in situ degradation. The environmental fate of degradative microorganisms and the ecological consequence of intervention constitute other important descriptors for the efficiency and sustainability of bioremediation processes. Integrative use of culture-dependent, culture-independent methods (e.g. amplified rDNA restriction analysis, terminal restriction fragment length polymorphism, denaturing/thermal gradient gel electrophoresis, phospholipid fatty acid, etc.), computational and statistical analyses has enabled successful monitoring of the above aspects. The present review provides a detailed insight into some of the key factors that affect the efficiency of in situ bioremediation along with a comprehensive account of the integrative approaches used for assessing the ecological sustainability of processes. The review also discusses the possibility of developing suicidal genetically engineered microorganisms for optimized and controlled in situ bioremediation.

Integrative approaches for assessing the ecological sustainability of in situ bioremediation

Aims: The aim of this study is to isolate and characterize organisms capable of utilizing high concentration atrazine from the contaminated sites.



Methods and Results:  A selective enrichment was used for isolating atrazine-degrading organisms from the contaminated sites resulting in isolation of an efficient atrazine-degrading organism designated as strain MB-P1. On the basis of 16S rRNA gene sequencing, total cellular fatty acid analysis and physiological and biochemical tests, strain MB-P1 was identified as a member of genus Rhodococcus. High performance liquid chromatography was performed to identify the atrazine degradation intermediates demonstrating that the degradation proceeds via formation of ‘de-ethylatrazine’ and ‘de-isopropylatrazine’. Further, plasmid curing by SDS method showed atrazine-degrading gene(s) to be plasmid-encoded.



Conclusions:  We have successfully isolated a Rhodococcus sp. strain MB-P1 which is capable of utilizing atrazine as sole source of carbon and energy at very high concentrations of 1000 ppm. The pathway for degradation of atrazine has also been determined. The metabolic gene(s) responsible for atrazine degradation was found to be plasmid-encoded.



Significance and Impact of the Study: Rhodococcus sp. strain MB-P1 could be used as an ideal model system for in-situ degradation and restoration of ecological niches which are heavily contaminated with atrazine.

https://sfamjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/j.1472-765X.2009.02724.x

Isolation and characterization of an atrazine-degrading Rhodococcus sp. strain MB-P1 from contaminated soil.

Microbial degradation studies have pointed toward the occurrence of two distinct PNP catabolic pathways in Gram positive and Gram negative bacteria. The former involves 4-nitrocatechol (4-NC), 1,2,4-benzenetriol (BT), and maleylacetate (MA) as major degradation intermediates, whereas the later proceeds via formation of 1,4-benzoquinone (BQ) and hydroquinone (HQ). In the present study we identified a Gram negative organism viz. Burkholderia sp. strain SJ98 that degrades PNP via 4NC, BT, and MA. A 6.89 Kb genomic DNA fragment of strain SJ98 that encompasses seven putatively identified ORFs (orfA, pnpD, pnpC, orfB, orfC, orfD, and orfE) was cloned. PnpC is benzenetriol dioxygenase belonging to the intradiol dioxygenase superfamily, whereas PnpD is identified as maleylacetate reductase, a member of the Fe-ADH superfamily showing NADH dependent reductase activity. The in vitro activity assays carried out with purified pnpC and pnpD (btd and mar) gene products transformed BT to MA and MA to beta-ketoadipate, respectively. The cloning, sequencing, and characterization of these genes along with the functional PNP degradation studies ascertained the involvement of 4-NC, BT, and MA as degradation intermediates of PNP pathway in this strain. This is one of the first conclusive reports for 4-NC and BT mediated degradation of PNP in a Gram negative organism.

p-Nitrophenol Degradation via 4-Nitrocatechol in Burkholderia sp. SJ98 and Cloning of Some of the Lower Pathway Genes

In this study, the authors present three different metamaterial absorbers (MMAs) namely, T, split-I (SI) and split-Jerusalem cross (SJC) with different dimensions and geometrical configurations. The absorption rates of T-, SI- and SJC-shaped absorbers are studied at microwave frequencies. T-shaped absorber demonstrates perfect absorption at 10.19 GHz, making it suitable for single band operation, whereas SI-shaped absorber exhibits two perfect absorption peaks at 9.32 and 10.75 GHz finding its application in dual band operation. However, novel SJC-shaped absorber demonstrates multiple absorption peaks at 9.92, 10.42, 10.93, 11.75 and 13.25 GHz with absorption of 99.5, 91, 99.9, 91.8 and 99.6%, respectively, making it suitable for X- and Ku-band operations. The proposed MMAs have a thickness of around 0.8 mm (i.e. <;
 λ
/37) with respect to the lowest frequency of operation. Furthermore, the absorbers are analysed for different angles of polarisation and incidence for transverse electric polarised wave with a step size of 15°. The proposed absorbers have been fabricated and experimentally demonstrated at X-band verifying the results obtained from simulations and implementing an equivalent circuit method. Further, SJC-shaped absorber is demonstrated for multi-and wide-band terahertz applications exhibiting four perfect absorption peaks at 2.76, 2.89, 3.02 and 3.31 THz.

https://ietresearch.onlinelibrary.wiley.com/doi/pdf/10.1049/iet-map.2019.0623

Janmejay Pandey

Papers

Accessing microbial diversity for bioremediation and environmental restoration

Integrative approaches for assessing the ecological sustainability of in situ bioremediation

Isolation and characterization of an atrazine-degrading Rhodococcus sp. strain MB-P1 from contaminated soil.

p-Nitrophenol Degradation via 4-Nitrocatechol in Burkholderia sp. SJ98 and Cloning of Some of the Lower Pathway Genes

Ultra-thin metamaterial perfect absorbers for single-/dual-/multi-band microwave applications