Bioremediation of Copper by Active Cells
Bioremediation of Copper by Active Cells
Bioremediation of Copper by Active Cells
Research article
A R T I C L E I N F O A B S T R A C T
Keywords: Copper bioremoval efficiency and bioaccumulation capacity of Pseudomonas stutzeri LA3 isolated from copper
Copper contaminated soil were investigated. P. stutzeri LA3 removed about 50% of Cu (II) at 50 mg l 1 of concentration
Pseudomonas stutzeri LA3 and accumulated a maximum of 1.62 mg of Cu g 1 biomass dry weight. Bioremediation by P. stutzeri LA3
Bioremediation
partially depended on the production of extracellular polymeric substances, composed of proteins and carbo-
Extracellular polymeric substances
hydrates. Cell surface alterations were observed on the Cu (II) treated biomass through a scanning electron
Scanning electron microscope
FTIR analysis microscope (SEM). Energy dispersive spectrometer (EDX) investigation of Cu (II) treated biomass showed clear
signals of Cu, confirming the presence of copper ions on the cell surface. Fourier transform infrared spectroscopy
(FTIR) showed the contribution of functional groups such as hydroxyl (–OH), carboxyl (–COOH), amide and
amine (–NH2) in the remediation process. Based on the results, the isolated strain P. stutzeri LA3 could serve as a
potential candidate for copper due to its significant copper removal effeciency.
* Corresponding author. Department of Biology, College of Science, P.O. Box 36, PC 123, Sultan Qaboos University, Al Khoud, Oman.
E-mail address: [email protected] (R. Victor).
https://doi.org/10.1016/j.jenvman.2019.109706
Received 29 June 2019; Received in revised form 9 October 2019; Accepted 12 October 2019
Available online 18 October 2019
0301-4797/© 2019 Elsevier Ltd. All rights reserved.
T.M. Palanivel et al. Journal of Environmental Management 253 (2020) 109706
bacterial cells and their transport into the cell by the metabolic cycle is followed by 25 cycles of 94 � C for 30 s, 50 � C for 30 s, 72 � C for 4 min and
defined as bioaccumulation. It involves various mechanisms like metal the final extension was performed with 72 � C for 10 min. The amplified
binding on inter- and intracellular compounds, precipitation and PCR products stained with ethidium bromide in 2% agarose gels were
methylation. The components of bacterial cell wall and different pro- examined by electrophoresis. The gels were checked by gel photo
teins in the cell wall are responsible for the binding of metals (Aryal and GS-800 system (Ingenius, Rodermark). PCR products were purified
Liakopoulou-Kyriakides, 2015). Bacteria also have numerous functional using QIA PCR purification kit. PCR products were sequenced with Big
groups such as –COOH, –SH, and –OH on their surfaces that help in the Dye Terminator kit, consisted of Big dye sequencing mix, 5X sequence
metals adsorption (Gadd, 2009). buffer, PCR product, PCR water, forward, reverse and internal primers
In general, bacteria respond to harsh environments like heavy metal 3 pmol/μL each. Sequencing purification was done using the BigDye
contaminated sites by discharging extracellular polymeric substances XTerminator purification kit and finally, sequencing was performed by
(EPS) from the cell surface (Colica et al., 2014). In general EPS exhibit a Genetic analyzer 3130 xl. Bio edit software was used to edit the se-
high affinity for copper (Fang et al., 2011; Cornu et al., 2017). The quences and was compared against the 16S rRNA collection of sequences
prospective role of EPS in the removal of heavy metals from the envi- in the GenBank database with the BLASTn program. A phylogenetic tree
ronment is because of their contribution in flocculation and ability to was constructed with MEGA7 software by UPGMA method.
bind metal ions from solutions (Pal and Paul, 2008). EPS matrix exhibits
adsorption and biodegradability owing to its special components such as 2.2. Copper removal efficiency
carbohydrates, proteins, humic substances and nucleic acids. It plays a
critical role in biofilm formation, mass transfer of heavy metals via The copper removal efficiency was investigated in 250 ml Erlen-
biofilm and adsorption through biofilm; it also offers extensive struc- meyer flasks containing 100 ml LB broth with various concentrations of
tural support to the biofilm (More et al., 2014). Cu (II) (50, 100, 150, 200 and 400 mg l 1). The flasks were inoculated
Copper is a trace metal and its average concentration in soil ranges with overnight culture and incubated at 32 � C for 96 h at 160 rpm. Cell
between 13 and 24 mg kg 1 (Kabata-Pendias and Pendias, 2001). The growth and the residual copper concentrations were analyzed from the
topsoil (0–30 cm) of the copper-mined tailing areas contained copper in aliquots (5 mL) collected at regular intervals (24 h). Growth was moni-
several thousand mg kg 1 of soil (Shutcha et al., 2015; Cornu et al., tored by measuring the optical density using a UV–Vis spectrophotom-
2017). In general, anthropogenic copper is more mobile as it is more eter at 600 nm (Thermo Scientific) and Cu concentrations were
bioavailable to the living organisms than pedogenic copper (Duplay measured using an inductively coupled plasma optical spectrometer
et al., 2014). Copper can directly enter into the food cycle from plants (ICP-OES) (PerkinElmer Inc. OPTIMA-7300DV, USA). Control experi-
and tend to accumulate in the human body where, the excess copper ments were also conducted in parallel without the addition of bacterial
causes various health problems including chronic anemia, liver cells. All the experiments were performed in triplicate. Percentage (%)
cirrhosis, brain and kidney damage (Dixit et al., 2015). removal of Cu (II) was calculated.
The present study aimed to examine the Cu (II) removal and bio-
accumulation capability of Pseudomonas stutzeri LA3, isolated from 2.3. Bioaccumulation of copper
Lasail abandoned copper mine soil in Oman. Further, the components of
extracellular polymeric substances (EPS) produced by P. stutzeri LA3 The Cu bioaccumulation ability of the isolate, P. stutzeri LA3 was
were analyzed. The interactions between Cu (II) ions and functional investigated by the modified method of Wong and So (1993). Cu content
groups on the cell wall surface of its biomass was evaluated using FTIR, in the solution was analyzed by ICP-OES. The bacteria grown without Cu
SEM and EDX analyses. At present, there are about 150 abandoned were used as a blank.
copper mine sites in Oman and this is the first study using microbes to
remediate the contaminated copper mine soil. The strain P. stutzeri LA3, 2.4. Biochemical analysis of the EPS
isolated from the abandoned copper mine soil is indigenous, adopted to
the arid and contaminated environment. It can be cultivated easily EPS produced by the isolate was extracted by a modified method
under in situ conditions. described by Adav and Lee (2008). Carbohydrate content of the
extracted EPS was measured by the phenol-sulfuric acid method, glucose
2. Materials and methods was used as a standard (Dubois et al., 1956) and the protein content was
estimated by the Bradford method with bovine albumin serum as a
2.1. Isolation and identification of copper-resistant bacteria standard (Bradford, 1976).
For isolation of potential copper resistant bacteria, 1 g of soil sample 2.5. Scanning electron microscope (SEM) and energy dispersive X-ray
was added to 100 ml of Luria- Bertani (LB) broth containing 200 mg l 1 spectroscopy (EDX)
of Cu (II) and the flasks were incubated at 32 � C for 48 h at 160 rpm for
enrichment. Further, the enriched broth was serially diluted, and plated A SEM (JEOL JSM-77600F; 20 keV, 76 A, working distance 8 mm,
on LB plates comprising 200 mg l 1 Cu (II), and incubated at 32 � C for probe current 8 A) was used to identify the effect of Cu (II) on the surface
48 h. The colonies on the plates were purified and stored on fresh agar topology and morphology followed by the EDX analysis for the
slants for further study. elemental composition of the isolates before and after the accumulation
The potential strain was identified using 16S rRNA gene sequencing. process (Tunali et al., 2006). For SEM analysis, the cells (Cu (II) treated
The genomic DNA was extracted using Power soil DNA extraction kit and untreated) were washed twice with distilled water, smeared on the
from the fresh cultures using the manufacturer’s instructions. The aluminium sample holder and left for complete drying of bacterial cells.
extracted DNA quantity and quality were examined on 1% agarose gel The dried cells were coated with carbon and examined under SEM
and NanoDrop 2000c spectrophotometer (Thermo Fisher Scientific coupled with energy dispersive X-ray analysis. EDX is one of the
Inc.). The PCR mixture (25 μl) contains 12.5 μl of Master Mix, 1 μl of appropriate tools to assess the elemental and chemical characteristics of
10 pmol 16S rRNA bacterial forward primer 27f (50 -GAGTTTGAT- the adsorbent (Tunali et al., 2006).
CACTGGCTCAG-30 ), reverse primer 1492r (50 - TACGGCTACCTTGT-
TACGACTT-30 ) (Guo et al., 2010), PCR water 3.5 μl and 7 μl of extracted 2.6. Fourier transform infrared spectroscopy (FTIR) analysis
DNA. PCR was performed in a thermal cycler (Eppendorf) with the
following program: five cycles of 94 � C for 30 s, 60 � C 30 s, 72 � C for FTIR was used to distinguish the molecular structural confirmation
4 min and five cycles of 94 � C for 30 s, 55 � C for 30 s and 72 � C for 4 min and fluctuations of functional groups before and after Cu (II)
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T.M. Palanivel et al. Journal of Environmental Management 253 (2020) 109706
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T.M. Palanivel et al. Journal of Environmental Management 253 (2020) 109706
Table 1
Composition and production of EPS by P. stutzeri LA3 at different Cu (II) concentrations; Values represented mean � SD; different letter(s) following values within the
columns are significantly different at P � 0.05.
1 1 1
Cu (II) concentration (mg l ) Carbohydrates (mg l ) Protein (mg l ) Ratio Chi-square value Significance
a a
Control 41.54 � 2.24 93.58 � 3.43 1.00:2.25 – –
100 94.09 � 3.46b 141.15 � 2.64c 1.00:1.50 90.66 p < 0.05
200 97.76 � 2.61b 273.60 � 3.31d 1.00:2.79 422.39 p < 0.05
400 94.46 � 4.17b 101.23 � 1.44b 1.00:1.07 68.04 p < 0.05
Fig. 4. Scanning electron microscope images of P. stutzeri LA3 (a) before Cu (II) treated (control) and (b) after Cu (II) treated cells.
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T.M. Palanivel et al. Journal of Environmental Management 253 (2020) 109706
Fig. 5. FTIR spectrum of P. stutzeri LA3 (a) before Cu (II) treated (control) (b) after Cu (II) treated.
(VI). Vijayaraghavan and Yun (2008) reported that the constitutents of these bacteria are thin. A recent study reported that EPS produced by a
gram negative bacteria such as peptidoglycan, phospholipids, and li- strain of Stenotrophomonas maltophilia exhibited 69.1% and 43% of Cu
popolysaccharides are mainly accountable for the anionic nature and and chromium ion removal respectively at the initial concentration of
binding ability of the metal to the cell wall, although the cell walls of 25 mg l 1 (Gupta and Diwan, 2017). Thus the production of EPS seems
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T.M. Palanivel et al. Journal of Environmental Management 253 (2020) 109706
to be an intrinsic self defense mechanism against exposure to high and FTIR results indicated the bioremediation ability of P. stutzeri LA3.
concentrations of heavy metals. The studied strain of P. stutzeri LA3 is indigenous, adapted to the arid
environment and thus, can easily be cultivated under field conditions.
3.5. SEM and EDX analysis However, field trials are necessary to consider its efficacy and cost-
effectiveness in the natural environment.
The surface morphology of the isolate, P. stutzeri LA3 treated and
untreated with Cu (II) was investigated using scanning electron micro- Declaration
scopy (Fig. 4a and b). There was a significant morphological difference
between Cu (II) treated and untreated cells. The untreated cells were The authors express that they do not have any conflict of interest.
very clear and discrete in appearance, while the treated cells were
clumped and shiny because the cell surface was covered by Cu (II) Acknowledgements
particles in addition to the production of EPS. Several other studies re-
ported that the metal treated bacterial cell surface was altered and We greatly acknowledge the Department of Biology, College of Sci-
impaired by the heavy metal ion accumulation (Colak et al., 2013; Aryal ence, Sultan Qaboos University for partially supporting this project.
and Liakopoulou-Kyriakides, 2015). The heavy metal remediation by
microbes dictates the alteration of cell surface and clustering of cells to
Appendix A. Supplementary data
alleviate the toxic effects (Jacob et al., 2018).
The adsorption of Cu (II) ions on to P. stutzeri LA3 was analyzed by
Supplementary data to this article can be found online at https://doi.
EDX. Supplementary Fig. 2a and b showed the typical EDX pattern for
org/10.1016/j.jenvman.2019.109706.
Cu (II) untreated and treated, P. stutzeri LA3 respectively. The EDX
pattern for untreated biomass did not exhibit the indication for Cu
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