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Biotechnology Letters 26: 1181–1189, 2004.

© 2004 Kluwer Academic Publishers. Printed in the Netherlands.


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Review
Degradation of microbial polyesters

Yutaka Tokiwa∗ & Buenaventurada P. Calabia


National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba Central 6, 1-1-1 Higashi,
Tsukuba, Ibaraki 305-8566, Japan
∗ Author for correspondence (Fax: +81-29-856-4898; E-mail: y.tokiwa@aist.go.jp)

Received 25 May 2004; Accepted 28 May 2004

Key words: degradation, polyesters, polyhydroxyalkanoates, poly(D-3-hydroxybutyrate), poly(3-hydroxybutyrate)-


degrading microorganisms

Abstract
Microbial polyhydroxyalkanoates (PHAs), one of the largest groups of thermoplastic polyesters are receiving much
attention as biodegradable substitutes for non-degradable plastics. Poly(D-3-hydroxybutyrate) (PHB) is the most
ubiquitous and most intensively studied PHA. Microorganisms degrading these polyesters are widely distributed
in various environments. Although various PHB-degrading microorganisms and PHB depolymerases have been
studied and characterized, there are still many groups of microorganisms and enzymes with varying properties
awaiting various applications. Distributions of PHB-degrading microorganisms, factors affecting the biodegrada-
bility of PHB, and microbial and enzymatic degradation of PHB are discussed in this review. We also propose an
application of a new isolated, thermophilic PHB-degrading microorganism, Streptomyces strain MG, for producing
pure monomers of PHA and useful chemicals, including D-3-hydroxycarboxylic acids such as D-3-hydroxybutyric
acid, by enzymatic degradation of PHB.

Introduction thus solving the problem of vanishing landfill space.


Landfills are one of the safest and least expensive ways
Several aliphatic polyesters having properties com- to deal with the disposal of polymers.
parable to conventional plastics have been developed PHAs have attracted significant industrial interest
and used as biodegradable plastics, such as poly( D-3- because by varying the composition of the carbon
hydroxybutyrate) (PHB), poly(propiolactone) (PPL), sources, the chemical and physical properties of the
poly(4-hydroxybutyrate) (4PHB), poly(-caprolac- PHA can be altered. For instance, in Alcaligenes eu-
tone) (PCL), poly(L-lactide) (PLA), poly(butylene trophus, glucose is used as carbon source for the pro-
succinate) (PBS), poly(ethylene succinate) (PES) and duction of PHB. By modifying the carbon source, A.
poly(ester carbonate) (PEC) (Figure 1). Among the eutrophus produced copolymer of 3-hydroxybutyrate
biodegradable plastics being studied, those that have and 3-hydroxyvalerate, P(3HB-co-3HV), which is
generated the most interest are the microbial polyhy- more flexible than PHB because of reduced crys-
droxyalkanoates (PHAs). PHAs are natural biodegrad- tallinity and is suitable for many commercial appli-
able thermoplastics that are synthesized and accumu- cations (Holmes 1985, Doi 1988). This copolymer
lated intracellularly during unbalanced growth by a was initially developed by Imperial Chemical Indus-
wide variety of microorganisms. The main advantage tries (ICI), under the trade name Biopol. Recently,
of PHAs over other types of biodegradable plastic is Procter & Gamble (P&G) has developed and commer-
that they do not require special environmental con- cially produced a PHA-based polymer named Nodax.
ditions to be degraded. They can undergo rapid bio- It is a family of bacterially produced PHA copoly-
degradation under aerobic and anaerobic conditions,
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Fig. 1. Chemical structures of poly(lactide) (PLA), poly(3-hydroxybutyrate) (PHB), poly(propiolactone) (PPL), poly(-caprolactone) (PCL),
poly(ethylene succinate) (PES), poly(butylene succinate) (PBS) and poly(ester carbonate) (PEC).

mers which consist of 3-hydroxybutyrate (3HB) and and low tensile strength (Holmes 1988, Gagnon et al.
other 3-hydroxyalkanoate units having side groups 1992). This present review focuses mainly on PHB
greater than or equal to three carbon units. P&G because it is one of the most abundant PHAs in nature
used genetically modified Pseudomonas species for and it has several useful properties such as biocom-
the production of this polymer (Noda et al. 2004). patibility, optical purity and piezoelectricity (Holmes
Both Biopol and Nodax have a wide range of appli- 1988, Doi 1990). Optical polymers, e.g. PHB and
cations in the food industry and in the agricultural and PLA, have a high melting point so that their properties
medical fields. Because PHAs are thermoplastics with are comparable to conventional plastics.
biocompatible properties, they are being developed
as new absorbable materials for implantable medical
applications (Martin & Williams 2003). Genetically Distribution of PHB-degrading microorganisms
engineered plants producing PHA were recently re-
viewed (Snell & Peoples 2001); however, efficient To avoid environmental problems caused by the de-
PHA production in these plants needs to be fur- gradation of polyesters, it is essential to study the
ther improved to make it competitive with microbial capacity of the natural environment in the degradation
fermentation process. of polymers, the adverse effects of the degradation
PHAs are classified by the number of carbon atoms products produced after degradation, and the role of
in the monomer units. These are the short-chain-length polymer-degrading microorganisms. Ecological and
PHA (PHASCL ) which consists of 3–5 carbon atoms, taxonomic studies on the abundance and diversity
and the medium-chain-length PHA (PHAMCL ) which of microorganisms in the different environments are
has 6–15 carbon atoms (Anderson et al. 1990). Not necessary, since they are responsible for the decom-
many bacteria are able to synthesize PHA that con- position of plastic materials. The degradability of
sists of both PHASCL and PHAMCL (Doi et al. 1995, biodegradable plastics depends on the degrading or-
Lee et al. 1995). PHASCL have a high degree of crys- ganisms available in the environment. Polymers are
tallinity and are brittle and stiff, while PHAMCL are degraded in soils by the action of a wide range of
elastomers with low crystallinity, low melting point microorganisms. The plate count and the clear-zone
methods are very efficient methods in the evaluation
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etic affiliation. Several studies on microbial degrad-


ation of polymers have been conducted by isolating
the strains from the natural environment and then ana-
lyzing their phylogenetic affiliation (Suyama et al.
1998, Nishida et al. 2000). Suyama et al. (1998)
determined the phylogenetic positions of 39 different
soil bacteria capable of degrading aliphatic polyes-
ters such as PHB, PCL, PBS and PLA by 16S rDNA
sequencing. All isolates belong to the classes of Firmi-
cutes and Proteobacteria, and PHB-degrading isolates
were distributed in all of these taxa. We also investi-
gated the distribution of polymer-degraders among ac-
tinomycetes obtained from culture collections with
regard to their phylogenetic affiliations. The results
showed that PHB-degraders were widely distributed
among the families of Pseudonocardiaceae and re-
lated genera, Micromonosporaceae, Thermonospor-
aceae, Streptosporangiaceae and Streptomycetaceae
(Tokiwa & Jarerat 2003).

Factors affecting the biodegradability of PHB

The chemical and physical properties of a polyester


have a strong influence on its biodegradability. Lipases
can hydrolyze aliphatic polyesters other than optic-
ally active polyesters such as PHB and PLA (Tokiwa
& Suzuki 1977). Molecular weight (Mn) is one of
the factors determining the biodegradation of plastics.
Fig. 2. Colonies of Streptomyces sp. strain MG and clear zones Low molecular weight is favorable for biodegradation.
formed on (a) PHB after 2 d, (b) PES after 7 d, (c) PEC after 7 We reported that the rate of enzymatic hydrolysis of
d cultivation at 50 ◦ C. Scale bar = 10 µm.
PCL diol by Rhizopus delemar lipase was faster at the
smaller molecular weight (Tokiwa & Suzuki 1978).
of the population of polymer-degrading microorgan- The melting temperature (Tm) of a polymer has
isms in the environment (Nishida & Tokiwa 1993). a great effect on enzymatic degradability. Generally,
For comparison, we investigated the distribution of the higher the melting point of polyester, the lower
aliphatic polyester-degrading microorganisms at 30 ◦ C the biodegradability tends to be. The enzymatic de-
and 50 ◦ C and found that at both temperatures the pop- gradability decreases with increasing Tm. The purified
ulations of polyester-degrading microorganisms were lipase of R. delemar effectively hydrolyzed low melt-
in the same order: PHB = PCL > PBS > PLA ing point polyesters like PCL, PPL, poly(butylene
(Nishida & Tokiwa 1993, Pranamuda et al. 1997, adipate) (PBA) but not PHB (Tokiwa & Suzuki 1978).
Tansengco & Tokiwa 1998a). In addition, microorgan- PHB is a high crystalline thermoplastic with a melt-
isms degrading poly(propiolactone) (PPL), a chemo- ing temperature around 178 ◦ C. We also investigated
synthetic polymer whose structural units are similar the effect of higher order structure on polymer biode-
to PHB, were found to be widely distributed in the gradability. A bacterium named Pseudomonas strain
environment, similar to those degrading PHB and PCL SC-17 was used on heat-treated samples of PHB film.
(Figure 1) (Nishida et al. 1998). We found out that higher order structure properties
Given the fact that a variety of different polymer- such as crystallinity and modulus of elasticity sup-
degrading microorganisms are present in various en- pressed the polymer degradability. Scanning electron
vironments, it is necessary to identify their phylogen- microscopy (SEM) observation of the degraded PHB
film revealed the presence of hemispherical holes on
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the film surface owing to colonization of the surface


by strain SC-17. The results implied that the surface
of PHB film is necessary as a growing field for the
bacteria (Nishida & Tokiwa 1992). Kumagai et al.
(1992) reported that the rate of enzymatic hydrolysis
of PHB films by the PHB depolymerase of Alcaligenes
feacalis is strongly dependent on the degree of crys-
tallinity of PHB film. Enzymatic degradation of PHB
films decreases with increasing crystallinity.
Furthermore, the rate of biodegradation of PHB
is influenced by a number of factors such as: the
microbial population in a given environment, the tem-
perature and the properties of the plastic material to be
degraded.

Microbial degradation of PHB

Chowdhury (1963) found the first PHA-degrading mi-


croorganisms belonging to Bacillus, Pseudomonas
and Streptomyces. Since then, a number of aerobic and
anaerobic PHB-degrading microorganisms have been
isolated from various ecosystems. For reviews see Lee
(1996), Jendrossek et al. (1996) and references cited
therein.
The clear-zone method is the most widely used
for the isolation and screening of polymer degrading
microorganisms. The formation of clear zones around Fig. 3. Scanning electron micrographs of PHB films. (a) Unin-
the colonies is an indication that the polymer is hy- oculated PHB film, (b) Streptomyces strain MG in the process of
drolyzed by the enzyme into water-soluble products degrading PHB, (c) hemispherical holes formed on the film surface.
(Nishida et al. 1993). The main advantage of this test Scale bar = 10 µm.
is that it is generally fast and simple, and allows the
simultaneous execution of a great number of tests. As useful in high-temperature composting technology. A
previously mentioned, PHB-degrading microorgan- high temperature will prevent the degradation sys-
isms are widely distributed in different environments. tem acting as the breeding ground from pathogenic
The percentage of PHB-degrading microorganisms in microorganisms.
the environment was estimated to be 0.5–9.6% of the The population of PHB-degrading microorganisms
total colonies (Suyama et al. 1998). in soil has been calculated as 5–86% (3.5 × 104 −
Mergaert et al. (1993) isolated 295 strains capable 1.8 ×107 c.f.u./g wet wt soil) of the total population of
of degrading PHB and P(3HB-co-3HV) copolymer microorganisms growing on PHB agar plates at 50 ◦ C
from soils by the clear zone method. Most of the PHB- (Tansengco & Tokiwa 1998a). Takeda et al. (1998)
degrading microorganisms consist of a wide range isolated a thermophilic strain of Leptothrix sp. that
of different microorganisms at ambient or mesophilic degraded PHB but the focus has so far been mainly on
temperatures while only a few species were capable of enzyme degradation. Several studies on microbial de-
degradation at higher temperatures. Thus, there is little gradation of polyesters at high temperatures have been
information on microbial degradation of PHB at high conducted in our laboratory by isolating microorgan-
temperature. Although PHB has relatively high crys- isms from different ecosystems. Tansengco & Tokiwa
tallinity, it is sensitive to degrading enzymes at high (1998b) examined the biodegradability of different
temperatures, allowing its rapid degradation (Takeda aliphatic polyesters at 50 ◦ C by an isolated Bacillus
et al. 1998). Studies on thermophilic microorganisms strain TT96. The bacterium can degrade PHB, PCL,
that could degrade aliphatic polyesters will be very
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PBS and PES films. After 2 weeks’ incubation at TT96 on various film samples at 50 ◦ C is shown in
50 ◦ C, 14.3% (w/w) of PHB film was degraded, while Table 1.
PCL samples were completely degraded. The percent
degradation of PES and PBS were 5% (w/w) and 4.4%
(w/w), respectively. Enzymatic degradation of PHB
In addition, a thermotolerant Aspergillus sp. ST-01,
isolated from soil was able to degrade PCL, PHB and The enzymatic degradation of polymers by hydrolysis
poly(butylene succinate-co-adipate) (PBSA) at 50 ◦ C. is a two-step process: first, the enzyme binds to the
The strain degraded PCL completely after 6 days’ polymer substrate then subsequently catalyzes a hy-
cultivation and more than 90% (weight) of the film drolytic cleavage. PHB can be degraded either by the
samples of PHB and PBSA were degraded by this action of intracellular and extracellular depolymerases
fungus. Among the five thermotolerant and thermo- in PHB-degrading bacteria and fungi. Intracellular
philic fungi from the culture collection of the Institute degradation is the hydrolysis of an endogenous car-
of Fermentation, Osaka (IFO), only 1 strain (Ther- bon reservoir by the accumulating bacteria themselves
moascus aurantiacus) degraded PHB, PCL and PBS while extracellular degradation is the utilization of
(Sanchez et al. 2000). Most recently, a new thermo- an exogenous carbon source not necessarily by the
philic Streptomyces strain MG capable of degrading accumulating microorganisms.
PHB at 50 ◦ C was isolated from soil (Calabia & There are two types of PHB polymers: native and
Tokiwa 2004). This actinomycete could also degrade denatured PHB granules. Native PHB granules con-
other polymers as confirmed by the clear zone method. taining lipids and proteins are rapidly hydrolyzed by
The photographs of the colonies of strain MG and intracellular PHB depolymerase. On the other hand,
the clear zones formed on PHB, PES, and PEC are denatured granules, which are partially crystalline, are
shown in Figure 2. A weak but clearly detectable hy- hardly hydrolyzed by intracellular depolymerases but
drolysis was observed on PCL and PBS plates (photos can be degraded by extracellular PHB depolymerases
not shown). into water-soluble products.
The microbial degradation of PHB films at 50 ◦ C Starch is one example of a natural storage poly-
by Streptomyces strain MG was observed using SEM. mer which is composed of two types of the repeating
The surface of the uninoculated control film was rough glucose of polymer chains, amylose and amylopectin.
and uneven, which resulted from the evaporation of These tiny white granules are relatively dense, insol-
solvent after casting (Figure 3a). PHB film was dir- uble and hydrate only slightly in cold water (Swinkels
ectly retrieved from the culture broth after 72 h incub- 1985). Similar to PHB, the native form of starch has
ation. Adherence of the microbial cells was observed semi-crystalline and amorphous layers containing lip-
on the entire PHB film surface (Figure 3b). The film ids and proteins. Neither PHB nor starch granules
was washed with distilled water, dried under vacuum can be purified completely, thus they cannot be used
and observed once again by SEM. The film surface in some applications due to their impurities. The en-
exposed to strain MG had a rough appearance and zymatic degradation system of starch seems to be
possessed numerous pits of varying size (Figure 3c). similar to that of PHB.
The surface layer and the lateral portions of the film
attacked by the microorganisms began to disintegrate. Intracellular PHB depolymerase
The formation of hemispherical holes on the film was
attributable to the microbial actions of the cells at- Although intracellular PHB-depolymerases play a
tached to the film, indicating that degradation tends number of roles in the degradation of PHB, little
to occur in the colonization of PHB surface by Strep- is known about the enzymes involved in the intra-
tomyces sp. strain MG. Biodegradation starts when cellular degradation of this polymer, mainly due to
microorganisms begin growing on the surface of the the close association of the degrading enzymes with
film and secrete enzymes that breakdown the polymer PHB-containing granules and the dependency of the
into molecular building blocks. This indicates that film enzyme activity on the structural integrity of the
surfaces are favorable microhabitats for microorgan- granules (Merrick & Doudoroff 1964, Tanaka et al.
isms. The PHB film was completely degraded after 1981). Few studies on the intracellular degradation
incubation for 6 d at 50 ◦ C. The degrading-ability of of PHB have been published. Merrick & Doudoroff
Streptomyces strain MG, Aspergillus ST-01, Bacillus (1964) were the first to report an intracellular PHB
1186
Table 1. Degradation of various film samples by microorganisms at 50 ◦ C.

Polyester film Mn Degradation of polyester (% w/w)


Streptomyces MG Aspergillus ST-01 Bacillus TT96

PHB 2.1 × 105 100 93 14


PCL 6.7 × 104 71 97 100
PBSA 4.9 × 104 92 95 ND
PES 5.9 × 104 ND ND 5
PBS 4.8 × 104 0 0 4
PLA 2.1 × 105 0 0 1

PHB: poly(D-3-hydroxybutyrate); PCL: poly(-caprolactone); PBSA: poly(butylene succinate-


co-adipate); PES: poly(ethylene succinate); PBS: poly(butylene succinate); PLA: poly(L-lactide).
ND: Not determined.

depolymerase system, wherein soluble enzymes from PHB depolymerases have been isolated and purified
Rhodospirillum rubrum were used to degrade native from various microorganisms belonging to the Alc-
PHB granules isolated from Bacillus megaterium. The aligenes (Tanio et al. 1982, Shirakura et al. 1986,
system is made up of a thermostable activator and ther- Bachman & Seebach 1999), Comamonas (Jendrossek
molabile depolymerase. In this artificial system, the et al. 1993, Kasuya et al. 1994) and Pseudomonas spe-
hydrolysis of native PHB granules needs pre-treatment cies (Nakayama et al. 1985, Mukai et al. 1994, 1999,
with either activator or trypsin prior to hydrolysis by Schober et al. 2000). This shows that extracellular
the depolymerase. The first sequence of an intracel- PHB depolymerases are ubiquitous in the environ-
lular depolymerase was reported by Saegusa et al. ment. Analysis of their primary structures revealed
(2001). They cloned an intracellular PHB depoly- that the enzymes are composed of substrate-binding
merase (PhaZ1Reu ) from Ralstonia eutropha H16 that domain, catalytic domain, and a linker region connect-
could degrade amorphous but not crystalline PHB by ing the two domains. The substrate-binding domain
the shotgun method. plays a role in binding to the solid PHB. The catalytic
Most recently, an intracellular 3-hydroxybutyrate domain contains the catalytic machinery composed of
(3HB)-oligomer hydrolase of R. eutropha was purified a catalytic triad (Ser-His-Asp). The serine is part of a
from Escherichia coli. The purified enzyme efficiently lipase box pentapeptide Gly-X-Ser-X-Gly, which has
hydrolyzed linear and cyclic 3HB oligomers and could been found in all known hydrolases such as lipases,
degrade artificial amorphous PHB at a rate similar esterases and serine proteases (Jaeger et al. 1994).
to that of PhaZ1Reu. The enzyme appeared to hydro- The properties of PHB depolymerases have been
lyze linear oligomers such as an exo-type hydrolase, studied extensively and share several biochemical
even though it could degrade cyclic 3HB-oligomers. properties such as: relatively small Mn , below 100 kDa
Therefore, it utilizes both endo- and exo-modes of hy- and most PHA depolymerases are between 40 and
drolysis. The kinetic properties of this enzyme were 50 kDa; do not bind to anion exchangers such as
almost the same as those of the extracellular 3HB- DEAE but have strong affinity to hydrophobic materi-
oligomerhydrolase from R. picketii T1 , which was als such as butyl-Toyopearl and phenyl-Toyopearl; op-
concluded to be an exo-type hydrolase (Kobayashi timum pH is between 7.5–9.8, only the depolymerase
et al. 2003). Although intracellular PHB depoly- of Pseudomonas picketti and Penicillium funiculosum
merases have been studied for a number of years, have pH optima between 5.5 and 7; highly stable
the details of the system are still not clear because at a wide range of pH, temperature, ionic strength,
intracellular degradation of PHB seems to be very etc; most PHA depolymerases are inhibited by ser-
complex. ine esterase inhibitors such as diidopropyl-fluoryl-
phosphate or acylsulfonyl compounds, which have
Extracellular PHB depolymerase been shown to bind covalently to the active site serine
of serine hydrolases (Jendrossek 1998).
Extracellular PHB depolymerases are secreted from Apparently, most PHA-degrading bacteria that
various microorganisms and play an important role in have been analyzed produce only one PHA depoly-
the metabolism of PHB in the environment. Several merase. Pseudomonas lemoigne, one of the best-
1187

studied PHA-degrading bacteria, however, produces at


least five different extracellular PHA-depolymerases
which differ slightly in their biochemical properties.
The three PHA-depolymerases (PHB depolymerases
A, B and D) are specific for PHB and P(3HB-co-
3HV) with a low 3-HV content. The other two PHA
depolymerases (PHB depolymerase C and poly( D-3-
hydroxyvalerate (PHV) depolymerase) also degrade
both PHB and PHV (Jendrossek 2001). In addition,
a strain of Alcaligenes faecalis T1, which was isolated Fig. 4. Substrate specificities of lipase, PHB-depolymerase and
from activated sludge, excreted D-3-hydroxybutyrate PLA-degrading enzyme. Poly(D-3-hydroxybutyrate) ( D-PHB),
poly(DL-hydroxybutyrate) ( DL-PHB), poly(D-hydroxyvalerate)
oligomer hydrolase, in addition to an extracellular
(D-PHV), poly(L-lactide) (L-PLA), poly(DL-lactide) (DL-PLA).
PHB depolymerase (Shirakura et al. 1983). It is likely
that our isolates Streptomyces strain MG, Aspergillus
ST-01, Bacillus TT96 produced more than one enzyme Conclusion and future prospects
that could degrade PHB, PCL, PBS, PBSA and PES.
This suggests that the enzymes produced by these Biodegradable plastics, such as PHB, continue to
strains have a wide range of substrate specificity. make progress in both the commercial and scientific
Further study is necessary to find out whether the fields. However, their use as a replacement for con-
enzymes produced by these polyester-degrading mi- ventional plastics in a wide range of applications has
croorganisms are composed of two or more types of been hindered by their brittleness, low mechanical
enzyme that are capable of degrading PHB, PCL, strength and high production cost. Improvements in
PBS, PBSA and PES. PHB and PCL are both de- the fermentation technology and genetically modified
graded by these microorganisms. PHB is a microbial strains are being developed for the economical and
polyester with high melting point and is degraded efficient production of PHB (Lee et al. 1999, Tagu-
by PHB depolymerases whereas PCL is a synthetic chi et al. 2003). Many fine chemicals produced by
semi-crystalline aliphatic polyester with low melting chemical processes can also be prepared using mi-
point and can be hydrolyzed by lipases but not PHB crobial fermentation (Lee et al. 2004). Our isolate,
depolymerase. On the other hand, lipases cannot hy- Streptomyces strain MG, is a good candidate for the
drolyze PHB (Tokiwa & Suzuki 1977, Tanio et al. production of pure D-3-hydroxybutyric acid, which
1982). However, several lipases hydrolyze polyes- is the main component of the degradation products
ters of ω-hydroxyalkanoic acids such as PCL and obtained by enzymatic degradation of PHB (Calabia
poly(4-hydroxybutyrate). & Tokiwa 2004). A pure monomer of PHB, D-3-
Lipases have a common amino acid sequence hydroxybutyric acid, is also an important precursor
around the active site, Gly-X1 -Ser-X2 -Gly, which was of 4-acetoxyazetidinone, which is used in making car-
also observed in PHA depolymerases. The X1 residue bapenem antibiotics (Chiba & Nakai 1985). Intensive
is a leucine residue in PHA depolymerases instead studies on this newfound strain as a useful microor-
of a histidine one in bacterial lipases. This finding ganism for industrial application are necessary.
suggested that Pseudomonas alcaligenes and P. aer-
uginosa lipases and PHA depolymerases may share
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