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Biodegradation of N-Methylpyrrolidone by Paracoccus sp. NMD-4 and
Biodegradation of N-Methylpyrrolidone by Paracoccus sp. NMD-4 and
a r t i c l e i n f o a b s t r a c t
Article history: N-Methylpyrrolidone (NMP), a kind of nitrogen-containing heterocyclic pollutant, is widely used in
Received 26 December 2013 chemical industry. Microbial degradation is an important environmental fate process in soil and water,
Received in revised form however, the microbial metabolic mechanism is still unknown. Strain NMD-4, capable of utilizing NMP as
28 April 2014
the sole source of carbon and nitrogen, was isolated from the activated sludge of a pesticide plant in
Accepted 28 April 2014
Available online
Jiangsu, China, and identified as Paracoccus sp. based on its physiologicalebiochemical properties, as well
as 16S rRNA gene sequence analysis. The degradation characteristic of NMP by strain NMD-4 was studied
in a liquid culture, and the metabolic pathway of NMP by the strain was investigated. Two metabolites, 1-
Keywords:
N-Methylpyrrolidone
methyl-2,5-pyrrolidinedione and succinic acid, were detected and identified by liquid chromatography-
Paracoccus sp. mass spectrometry analysis, and a plausible microbial degradation pathway of NMP was proposed by the
Biodegradation first time.
Metabolic pathway Ó 2014 Elsevier Ltd. All rights reserved.
http://dx.doi.org/10.1016/j.ibiod.2014.04.022
0964-8305/Ó 2014 Elsevier Ltd. All rights reserved.
S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77 71
environmental fate process in soil and water (Chem Inspect Test the Kimura 2-parameter model and evaluated by bootstrap ana-
Inst., 1922). However, to the best of our knowledge, there is no lyses based on 1200 resamplings (Li et al., 2009a,b). DNAeDNA
report about the degradation of NMP by a pure culture and its hybridizations were performed according to the method of Ezaki
microbial metabolic mechanism. et al.
In this study, an NMP-degrading strain, NMD-4, was isolated
from the activated sludge of a pesticide plant in Jiangsu, China. 2.4. Inoculum preparation for degradation studies
Strain NMD-4 was identified as Paracoccus sp. This strain could use
NMP as the sole carbon and nitrogen sources for growth and Strain NMD-4 was precultured in 5 ml of LB medium at 30 C
completely degrade 500 mg L1 NMP within 24 h. The degradation with shaking at 160 rpm for 12 h. Cells were harvested by centri-
characteristic of NMP by strain NMD-4 was studied in a liquid fugation at 6000 rpm for 3 min, washed twice, and resuspended in
culture, and the degradation pathway of the NMP by the strain was fresh MSM (OD600nm ¼ 1.0).
also investigated.
2.5. Degradation of NMP by strain NMD-4 in relation to the
2. Materials and methods bacterial growth
2.1. Materials and media An inoculum (1 percent, v/v) was inoculated into a 500 ml flask
containing 200 ml MSM supplemented with 500 mg L1 of NMP.
The activated sludge used for enrichment was collected from a Each treatment was performed in triplicate, and control experi-
pesticide factory in Jiangsu, China. NMP and chromatographic- ments without inoculation or without substrate were carried out
grade dichloromethane was purchased from Sinopharm Chemical under the same condition. The cultures were incubated on a rotary
Reagent Co. Ltd. Molecular biology reagents were purchased from shaker at 160 rpm and 30 C. At regular intervals, 5 ml samples
TaKaRa Biotechnology Co. Ltd (Dalian, China). All other reagents were collected from each flask. Bacterial growth was monitored by
used in this study were of analytical grade. A mineral salts medium measuring the optical density of culture samples at 600 nm
(MSM) (1.5 g K2HPO4, 0.5 g KH2PO4, 0.2 g MgSO47H2O, 1.0 g NaCl (OD600). The disappearance of NMP was monitored by high-
per liter water, pH 7.0) was used in this study for enrichment, and a performance liquid chromatography (HPLC), and the metabolites
LuriaeBertani (LB) medium (10.0 g NaCl, 10.0 g peptone and 5.0 g were identified by HPLCeMass spectrometry (MS) as described
yeast extract per liter water, pH 7.0) was used for strain culture. For below.
solid media, 15 g per liter of agar powder was added. When
necessary, NMP was added to the media at an appropriate con- 2.6. Biodegradation kinetics
centration. All media were sterilized by autoclaving at 121 C for
20 min. The NMP-degrading strain incubated in LB medium for 48 h was
centrifuged at 6000 g for 10 min in 50 mL Eppendorf centrifuge
2.2. Enrichment and strain isolation tube. The cell pellet was washed twice with phosphate buffer saline
(PBS, pH 7.4) and then suspended in NaCl solution (0.85 percent).
An activated sludge sample (5 g) was added to 100 ml of MSM Then the bacteria suspension was prepared for the next biodegra-
containing 500 mg L1 NMP as the sole carbon and nitrogen source. dation experiments. 4.0 ml of bacteria suspension was added into
The sample was incubated on a rotary shaker at 160 rpm at 30 C. 250 ml flasks containing 100 ml MSM with 500 mg L1 NMP to
After 3 days, the culture became turbid, and 5 ml of the culture was make the final cell density 1.0 108e1.0 109 cfu mL1 .The flasks
inoculated in fresh MSM containing 500 mg L1 NMP and incubated was placed in rotary shaker (160 r min1) at 30 C. At regular in-
for another 3 days. The decrease of NMP was monitored by HPLC as tervals, 5 ml samples were collected from each flask and the sam-
described below. Enrichment cultures capable of degrading NMP ples were used to determine the concentration of NMP. Cell
were diluted and spread onto MSM agar containing 500 mg L1 counting was performed with LB plates by the plate dilution
NMP. Colonies grown on these plates were picked up, purified by technique, and colonies were counted after 72 h of incubation at
repeated streaking, and tested for the ability to degrade NMP. In 28 C.
this study, four strains capable of degrading NMP were isolated.
Among them, strain NMD-4, which processed the highest NMP- 2.7. Effects of the temperature, pH, metal ions, initial substrate
degrading ability, was selected for further investigation. concentration and dissolved oxygen concentration on NMP
degradation
2.3. Identification of the strain
Two milliliter inoculums were incubated in 200 ml of MSM
The NMP-degrading bacterium was identified according to containing 500 mg L1 NMP for 24 h at different temperatures (20,
Bergey’s Manual of Determinative Bacteriology (Holt et al., 1994). 25, 30, 35, 40 and 45 C), under different pH conditions (5.0e10.0,
Genomic DNA was extracted by high-salt precipitation (Sambrook in increments of 1.0 pH units) and with different concentrations
and Russel, 2001), and the 16S rDNA sequence was amplified by (0.1 mM and 1 mM) of metal ions (Cd2þ, Cu2þ, Co2þ, Mn2þ, Zn2þ and
PCR using standard procedures with a bacterial universal primer set Ni2þ). The effects of initial NMP concentrations of 500 mg L1,
27F (50 -AGAGTTTGATCCTGGCTCAG-30 ) and 1492R (50 -TACGGC- 750 mg L1, 1000 mg L1, 1500 mg L1, and 2000 mg L1 were
TACCTTGTTACGACTT-30 ) (Lane, 1991; Marchesi et al., 1998). A investigated. The effects of oxygen level on NMP degradation was
fragment corresponding to E. coli 16S rDNA positions 8e1513 was investigated by inoculating the strain into 50 mL, 75 mL and 125 mL
amplified. The PCR product was purified using an Axy-Prep PCR MSM containing 500 mg L1 NMP, respectively. The cultures were
Purification Kit (AxyGen) and determined by the Nanjing Jinsirui incubated on a rotary shaker at 160 rpm and 30 C. At regular in-
Biological Technique Company (Applied Biosystems, model 3730). tervals, 2 ml samples were collected from each flask. The biomass
Closely related 16S rDNA sequences from GenBank were aligned was monitored by OD600, and the concentration of the NMP was
using Clustal_X, and phylogenetic analysis was performed with the determined by HPLC. Experiments were conducted in three parallel
software MEGA version 3.0 (Kumar et al., 2004). Phylogenetic trees flasks and the concentration of NMP in each flask was indepen-
were generated using the neighbor-joining method according to dently determined.
72 S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77
Fig. 3. (a) Time course of biodegradation of NMP and growth of strain NMD-4; (b) The
first order kinetic of the biodegradation of NMP by strain NMD-4.
to the fitted result, the first-order rate constant was 0.137, and the
biodegradation half-life of NMP was 5.05 h.
3.4.2. Effect of pH on the degradation of NMP 3.5. The metabolic pathway of NMP biodegradation by strain
As shown in Fig. 4(b), when the pH was between 6 and 8, more NMD-4
than 80 percent of the added 500 mg L1 NMP was degraded by the
strain within 24 h, the highest NMP removal rate was achieved at The metabolites produced during NMP degradation were iden-
pH 7.0. When the pH was below 6 or above 9, the NMP biodegra- tified by HPLC-MS. The mass spectrum of NMP and its metabolites
dation process was severely inhibited. after 12 h of cultivation and 24 h of cultivation are shown in Figs. 5e
6.
3.4.3. Effects of heavy metal ions on NMP biodegradation As shown in Fig. 5(a) and (b), the most prominent protonated
The results of Fig. 4(c) revealed that both 1.0 mM and 0.1 mM of molecular ions were found at m/z ¼ 100.3 [M þ H]þ, m/z ¼ 122.5
Ni2þ, Cd2þ and Mn2þ severely inhibited the degradation of NMP. [M þ Na]þ, m/z ¼ 136.4 [M þ Na]þ, and m/z ¼ 117.4 [MH], and the
Addition of 1.0 mM Cu2þ or Co2þ strongly inhibited the degradation compounds corresponding to these protonated molecular ions
activity, whereas addition of 0.1 mM of Cu2þ or Co2þ showed a were designated as products A, B, C, and D respectively.
slight inhibitory effect. However, addition of 1.0 mM or 0.1 mM Fig. 6(a) shows that the positive-ion chemical ionization of
Zn2þ showed little inhibition effect on the degradation of NMP. product A was 100.1 [M þ H]þ, enabling the assignment of the
molecular ion (Mþ) at m/z ¼ 99. Product A had characteristic
3.4.4. Effects of dissolved oxygen concentration on NMP second-order MS fragment ion peaks at m/z ¼ 58.10 and 69.10. We
biodegradation proposed that peak m/z 58.10 was due to the loss of CH3NH2 and
As we know, at the culture shaking at the same speed, the more peak m/z 69.10 was due to the loss of CH2eC]O. Product A was
bulk the culture volume is, the less the oxygen dissolved in the identified as N-methyl-2-pyrrolidone. Product B showed a base
culture. The data in Table 1 revealed a negative correlation between peak at m/z ¼ 122.0, also enabling the assignment of the molecular
the degradation rate of NMP and the liquid volume, suggesting that ion at m/z ¼ 99.0. We proposed peak m/z 122 was due to the
74 S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77
Table 1 at m/z ¼ 99.0, 75.8, 85.3 and 54.8. As it can be seen m/z 99 fragment
Influence of oxygen factor to the biodegradation of NMP by strain NMD4. loosing H2O molecule, m/z 75.8 fragment loosing H2O and CH2, m/z
Liquid volume (mL) Degradation ratea (%) 85.3 fragment loosing CH2eC]O and m/z 54.8 corresponding to
50 95 5
H2C]CHeCH]O. Thus product D was identified as succinic acid.
75 93 4
125 84 2
4. Discussion
a
Results are average value of triplicate measurements deviation.
O
Na+
C
a
OH
O
O
OH
D b
Fig. 5. HPLC-MS analysis of metabolites formed during NMP degradation by strain NMD-4 (a) 12 h extract, (b) 24 h extract.
S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77 75
Fig. 6. Tandem mass spectrometry spectrum of NMP and its metabolites: (a) NMP þ Hþ (b) 1-methyl-2,5-pyrrolidinedione (c) succinic acid.
76 S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77
CH CH
OH
O
N N O O
O O O O CO2+H2O
CH3NH2 OH
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