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Review
Degradation of microbial polyesters
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.
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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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.
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-
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