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International Biodeterioration & Biodegradation 93 (2014) 70e77

Contents lists available at ScienceDirect

International Biodeterioration & Biodegradation


journal homepage: www.elsevier.com/locate/ibiod

Biodegradation of N-Methylpyrrolidone by Paracoccus sp. NMD-4 and


its degradation pathway
Shu Cai a, Tianming Cai b, Shiyang Liu b, Qian Yang b, Jian He a, *, Liwei Chen b, *, Jiang Hu b
a
The College of Life Science, Nanjing Agricultural University, Nanjing 210095, People’s Republic of China
b
The College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, People’s Republic of China

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.

1. Introduction degradation mechanism in the environment, and a lot of studies


concerned the absorption, migration, volatilization and conversion
N-Methylpyrrolidone (NMP) is a nitrogen-containing heterocy- of NMP in soil and water have been reported. The Koc of 1-methyl-
clic compound with a five-membered lactam structure. Its advan- 2-pyrrolidone is estimated as 5(SRC), using a log Kow of 0.38
tages include a strong polarity, good inertia, low viscosity, non- (Sasaki H et al., 1988) and a regression-derived equation (US EPA;
corrosiveness and low volatility (Lane DJ, 1991). The high produc- Estimation Program Interface (EPI) Suite. Ver. 4.1. Jan, 2010). Ac-
tion of NMP wide usage as a solvent and intermediate in chemical cording to a classification scheme (Swann RL et al., 1983), this
industry may result in its release to the environment through estimated Koc value suggests that 1-methyl-2-pyrrolidone is ex-
various waste streams (Rhee et al., 1997). NMP is difficult to remove pected to have very high mobility in soil. 1-Methyl-2-pyrrolidinone
because of its high solubility in water. According to the Toxics had Rf values of 0.74, 0.65, 0.67, and 1.0 in silt, loam, clay and sand,
Release Inventory Data by American Conference of Governmental respectively, in laboratory soil thin layer chromatography (TLC)
Industrial Hygienists (2008), NMP is released into the environ- experiments (Shaver TN, 1984) which is consistent with significant
ment by chemical industries at a volume of 2450 tons. NMP shows mobility in soil (SRC). The Henry’s Law constant for 1-methyl-2-
certain toxic to human’s health. E.g., it causes headache and irri- pyrrolidone is 3.20  109 atm-cu m/mole (SRC) using a fragment
tation to the respiratory system and eyes (Beaulieu et al., 1993); constant estimation method (Kim et al., 2000). This Henry’s Law
skin contact with NMP may also cause abortion (Solomon et al., constant indicates that 1-methyl-2-pyrrolidone is expected to be
1996; Bower et al., 1997). The Environmental Protection Agency essentially nonvolatile from water surfaces (Lyman et al., 1990). 1-
of the USA and the European Union have recognized NMP as Methyl-2-pyrrolidone’s Henry’s Law constant indicates that vola-
causing developmental toxicity. The Food and Drug Administration tilization from moist soil surfaces may not occur (SRC).
of the USA placed NMP into class 2 of residual solvents that should In soil, NMP is expected to have a very high mobility with an
be limited in pharmaceutical products due to their inherent toxic- estimated Koc of 4.6, and a low volatilization from soil surfaces
ities. Therefore, it is necessary to investigate its behavior and based upon its vapor pressure. According to Japanese MITI (Min-
istry of International Trade and Industry) data, 73 percent of the
Theoretical BOD was reached in 4 weeks in a static die-away system
using an activated sludge with the initial NMP present at 100 mg/L,
* Corresponding authors. Tel./fax: þ86 25 84395002.
E-mail addresses: hejian@njau.edu.cn (J. He), clw@njau.edu.cn (L. Chen). suggesting that microbial degradation is an important

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

2.8. Analytical method

The concentration of NMP was determined by HPLC (FL2200,


Fuli analytical instrument Co. Ltd, Zhejiang, China). The separation
column used for HPLC (internal diameter of 4.6 mm and length of
25 cm) was filled with C18. The mobile phase was methanol:water
(20:80, V:V), and the flow rate was 1.0 ml min1. The detection
wavelength was 214 nm, and the injection volume was 20 mL. The
metabolites produced during NMP degradation were identified by
HPLC-MS. The conditions for the HPLC/UV in HPLC-MS were as
followed: The type of the columns were Agilent XDB-C18
5 cm  0.46 cm 1.8 mm columns, and methanol and ultrapure
water (20:80, V:V) was used as mobile phase, the flow rate was
1 ml min1. MS analyses were performed in ESI mode with an
Agilent G6410B Triple Quad Mass Spectrometer.

2.9. Nucleotide sequence accession numbers


Fig. 1. Time course of NMP biodegradation and growth of Paracoccus sp. strain NMD-4
on mineral salt medium containing 500 mg L1 NMP.
The GenBank Accession number for the 16S rRNA gene sequence
of strain NMD-4 is KF715850.
amount of the NMP added in the medium suggested a possible
3. Results and discussion negative correlation between the growth of the strain and the NMP
concentration: the high the NMP concentration was, the slower the
3.1. Isolation and identification of the NMP-degrading strain strain grew. The decrease of the bacteria growth at higher NMP
concentration is most likely due to substrate inhibition.
After two rounds of enrichment, the enrichment culture could
degrade about 75 percent of 500 mg L1 NMP within 3 days. A 3.3. Biodegradation kinetics
number of bacterial strains capable of degrading NMP were isolated
from the enrichment culture. One isolate, designated NMD-4, was The biodegradation experiments were carried out at 30  C, pH
selected for further study due to its strongest NMP-degrading 7.0, with the initial NMP concentration of 500 mg L1. As shown in
ability. This strain was able to degrade over 90 percent of Fig. 3, the cell number of strain NMD-4 (colony forming units) kept
500 mg L1 NMP in MSM within 24 h incubation and utilized NMP relatively stable (about 8.5 108 cfu/ml) during the whole process,
as carbon and nitrogen sources for growth. whereas the biodegradation efficiency of NMP were 28.25 percent,
When grown on LB agar, colonies of the strain are pale white, 60.20 percent, 79.89 percent and 90.64 percent, when incubation
circular and convex. Cells are non-spore-forming, gram-negative, for 4 h, 8 h, 12 h and 16 h, respectively. Based on these results, the
non-motile, strictly aerobic and globular or globular-rod-shaped biodegradation of NMP was fitted with the first-order kinetics
(Fig. S2). The optimal growth of strain NMD-4 was observed at shown as follows:
pH 7.0e8.0 and a temperature of 30  C in LB medium. Positive for
nitrate reduction, but negative for hydrolysis of starch and Tweens dC=dt ¼ kC
20, urease, arginine dihydrolase, gelatinase, glucose fermentation
The integrated form of the above equation is
and indole production. Utilizes L-arabinose, D-glucose, D-mannitol,
arabinose, succinic acid, valeric acid, D-sorbitol, D-mannose, pro-
C ¼ C0 $ekt
pionic acid, acetic acid, malate, L-histidine, sodium lactic acid, D-
fructose, methylamine and propionic acid. Genomic DNA was iso- where C is the NMP concentration at time t, C0 is the NMP con-
lated from the bacterium and the 16S rRNA gene sequence was centration at time zero k is the first-order rate constant. According
amplified by PCR. Phylogenetic analysis of the 16S rRNA gene
sequence (Fig. S3) revealed that strain NMD-4 belonged to Para-
coccus sp. and formed a subclade with Paracoccus bengalensis JJJT
(99.92 percent similarity) and Paracoccus versutus ATCC 25364T
(99.93 percent similarity). On the basis of 16S DNA gene analysis,
the strain was identified as Paracoccus sp.

3.2. Growth and NMP biodegradation

3.2.1. Utilization of NMP as the sole source of carbon and nitrogen


for growth of strain NMD-4
As shown in Fig. 1, the growth of the strain entered a log phase
after a lag phase of approximately 4 h, the OD600 increased from
0.012 to 0.789 within 24 h; correspondingly, The concentration of
NMP slowly decreased in the first 4 h and then sharply declined,
and finally the added NMP was completely degraded within 24 h.

3.2.2. Effect of the initial concentration of NMP on its degradation


Fig. 2 shows the effect of the initial concentration of NMP on the Fig. 2. The effect of different NMP initial concentration on growth of NMD-4 strain in
growth of strain NMD-4. Comparison of the biomass with the mineral salt medium.
S. Cai et al. / International Biodeterioration & Biodegradation 93 (2014) 70e77 73

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. NMP degradation characteristics

3.4.1. Effect of temperature on the degradation of NMP


Fig. 4(a) shows that after 24 h of cultivation, when the tem- Fig. 4. Effect of temperature (a), pH (b) and metal ions (c) on NMP degradation
peratures were 20  C, 25  C, 30  C, 35  C and 40  C, 23 percent, 82 efficiency.
percent, 91 percent, 85 percent and 42 percent of the added NMP
were degraded, respectively. These results indicated that NMP was oxygen level is an important factor in the degradation of NMP, thus
degraded quickly at temperatures ranging from 25  C to 35  C and high dissolved oxygen level can promote the NMP degradation
the most optimal temperate was 30  C. efficiency.

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.

Nitrogen-containing heterocyclic compounds, such as pyridine,


addition of Naþ. Thus, product B was identified as N-methyl-2- quinolone and NMP, are widely used in chemical industry, and also
pyrrolidone. The positive-ion chemical ionization of product C are important environmental contaminants. Therefore, their
was 136.4 [M þ Na]þ, enabling the assignment of the molecular ion degradation mechanisms are of great interest. Microbial degrada-
(Mþ) at m/z ¼ 113. As shown in Fig. 6(b), product C had charac- tion is considered to be one of the most important factors for
teristic second-order MS fragment ion peaks at m/z ¼ 67.8, 92.3, removing nitrogen-containing heterocyclic pollutants from the
78.4, and 96.9. The initial protonation of the carbonyl group, as environment. To date, several bacterial strains capable of degrading
occurs in C, makes the further elimination of CH3eC]O, CH3eNe some other nitrogen-containing heterocyclic pollutants, such as
C]O and CH2eC(NHeCH3) ¼ O. Product C was identified as 1- pyridine and quinolone, have been reported (Kaiser et al., 1996).
methyl-2,5-pyrrolidinedione. The negative-ion chemical ioniza- Strain NMD-4 was an efficient NMP-degrading strain, which could
tion of product D was 117.4 [MH], enabling the assignment of the mineralize 500 mg L1 NMP within 24 h in a very small inoculum.
molecular ion (M) at m/z ¼ 118. Fig. 6(c) demonstrates that The strain was identified as Paracoccus sp. To our knowledge, strain
product D had characteristic second-order MS fragment ion peaks NMD-4 is the first NMP-degrading strain reported for the genus

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

Fig. 7. Proposed metabolic pathway of NMP by strain NMD-4.

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