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Biotechnol. J. 2011, 6, 277285 DOI 10.1002/biot.201000117 www.biotechnology-journal.

com

Review

Prospects for microbial biodiesel production

Shuobo Shi, Juan Octavio Valle-Rodrguez, Verena Siewers and Jens Nielsen
Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden

As the demand for biofuels for transportation is increasing, it is necessary to develop technologies Received 21 November 2010
that will allow for low-cost production of biodiesel. Conventional biodiesel is mainly produced Revised 3 January 2011
from vegetable oil by chemical transesterification. This production, however, has relatively low Accepted 14 January 2011
land-yield and is competing for agricultural land that can be used for food production. Therefore,
there is an increasing interest in developing microbial fermentation processes for production of
biodiesel as this will allow for the use of a wide range of raw-materials, including sugar cane, corn,
and biomass. Production of biodiesel by microbial fermentation can be divided into two different
approaches, (1) indirect biodiesel production from oleaginous microbes by in vitro transesterifi-
cation, and (2) direct biodiesel production from redesigned cell factories. This work reviews both
microbial approaches for renewable biodiesel production and evaluates the existing challenges in
these two strategies.

Keywords: Biofuel Fatty acids Metabolic engineering Microbial biodiesel Systems biology

1 Introduction current energy crisis [1, 5]. Currently, the most


widely used biofuels are biodiesel and bioethanol.
Due to population growth and industrialization, the However, bioethanol is not viewed as the ideal bio-
demand for energy has increased rapidly in recent fuel of the future because of its low energy density
years, and the world energy consumption is pro- and incompatibility with the existing fuel infra-
jected to increase by 49% from 2007 to 2035 structure [6, 7]. There is therefore much interest to
(http://www.eia.doe.gov/oiaf/ieo/highlights.html). introduce other biofuels, e.g. butanol [7, 8], that can
However, the use of fossil fuels, currently the pri- be easier blended into gasoline, are non-corrosive
mary energy source, is now widely recognized to be and hence can be implemented in the current fuel
unsustainable and fossil fuels are likely to be ex- infrastructure. There is also much interest in
hausted in the foreseeable future [1]. Moreover, biodiesel (fatty acid esters), which fits in easily into
fossil fuel emissions are believed to be a major con- the existing infrastructure and has been thorough-
tributor to global warming [2]. Consequently, ly tested as an alternative fuel on the market. As a
worldwide concerns have been raised to search for fuel, biodiesel is similar to petro-diesel in combus-
sustainable, alternative, and renewable fuels that tion properties, allowing it to work well in conven-
have a lower environmental footprint and that can tional diesel engines and making it compatible with
satisfy the energy needs in the future [1, 3, 4]. the existing fuel infrastructure [9]. Besides, bio-
The development of different biofuels as alter- diesel is better than petro-diesel in several charac-
native, sustainable fuels is expected to relieve the teristics, such as environmental friendliness, re-
newability, reduced emission, higher combustion
efficiency, improved lubricity, higher safety, etc.
Correspondence: Professor Jens Nielsen, Department of Chemical and [10].
Biological Engineering, Chalmers University of Technology, Kemivgen 10,
In light of these demands, the total world
SE-41296, Gothenburg, Sweden
E-mail: nielsenj@chalmers.se
biodiesel production has been constantly increas-
Fax: + 46-31-772-3801 ing, with a 16-fold increase over the past 10 years,
and was estimated to amount to about 4 billion gal-
Abbreviations: FAEE, fatty acid ethyl esters; TAG, triacylglycerol lons in 2009, mainly produced in the European

2011 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim 277


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Journal

Figure 1. Biodiesel synthesis by (A) chemi-


cal or enzymatic transesterification reaction
using oils from plants; (B) chemical or en-
zymatic transesterification reaction using
oils from oleaginous microorganisms;
(C) direct synthesis using redesigned cell
factories; (D) transesterification reaction in-
volved in processing module of (A) and (B);
(E) FAEE (biodiesel) production pathway
involved in processing module of (C).

Union and the USA [11]. Currently, biodiesel is microbes could be used to produce fatty esters
mainly produced from plant oils by transesterifica- (biodiesel) directly from simple sugars, avoiding
tion with an alcohol (methanol or ethanol) in the using costly feedstocks [1719].
presence of a base, an acid or an enzyme catalyst Production of biodiesel using microorganisms
(Figs. 1A and 1D). Vegetable oils are mainly com- has been considered as a promising alternative so-
prised of triacylglycerol (TAG), i.e. three fatty acid lution for biodiesel production. First, it is well-
chains connected to a glycerol backbone. For cost known that many microbes, such as microalgae,
reasons methanol is the reagent most frequently bacteria, fungi or yeast, can accumulate intracellu-
used for transesterification in a molar ratio of 1:1. lar lipids (mainly TAG) to a large percent of their
The plant oils account for a large percent of the biomass (Table 1). These oils derived from oleagi-
overall production cost [12]. Currently, the high nous microbes could represent a promising raw
cost and limited availability of plant oils has be- material for biodiesel production through transes-
come a rising problem for large-scale commercial terification in line with the plant-based process
viability of biodiesel production, and different ways (Figs. 1B and 1D) [14, 17, 20]. In particular, using
have been explored to address this problem. For fast growing microbes it is possible to use a wider
example, microbial oils, genetically modified crops, variety of feedstocks such as sugar cane that has a
soapstocks, used cooking oil and animal fat could substantially larger yield per hectare compared
be explored as alternative feedstocks to lower the with rapeseed, and hence allows for biodiesel pro-
cost of biodiesel [1318]. Additionally, engineered duction with less use of arable land.

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Table 1. Lipid content of some oleaginous microorganisms On the other hand, with the help of metabolic
Microorganism Lipid content Reference engineering and synthetic biology, interest has
(% dry wt) grown to engineer well-studied microbes such as
Escherichia coli and Saccharomyces cerevisiae into
Microalgae biodiesel cell factories by introducing an ester syn-
Botryococcus braunii 2575 [23] thesizing pathway, which could lead to direct pro-
Chlorella emersonii 2563 [24] duction of fatty acid ethyl esters (FAEEs) by direct-
Dunaliella tertiolecta 1671 [25]
ly esterifying ethanol with the acyl moieties of the
Monodus subterraneus 39.3 [26]
CoA thioesters of fatty acids (Figs. 1C, 1E and Fig. 2)
Nannochloropsis sp. 3168 [27]
[19, 21, 22]. These engineered cell factories could
Neochloris oleoabundans 2965 [25]
produce biodiesel directly from cheap and widely
Nitzschia sp. 4547 [27]
Phaeodactylum tricornutum 1857 [25]
available sugars such as glucose or abundant lig-
Parietochloris incisa >35 [28] nocellulosic biomass circumventing the need for a
Schizochytrium sp. 5077 [27] transesterification process, which requires com-
plex pretreatment involving isolation and purifica-
Bacteria tion. Clearly, including the entire transformation
Arthrobacter sp. >40 [29] process in one step will be the most convenient and
Acinetobacter calcoaceticus 2738 [29] cost-effective way for large-scale production of
Bacillus alcalophilus 1824 [14] biodiesel.
Gordonia sp. 72 [30]
In the following, we will review the two differ-
Rhodococcus opacus 2425 [14]
ent approaches for production of biodiesel by mi-
Fungi crobial fermentation.
Aspergillus oryzae 57 [14]
Cunninghamella echinulata 35 [31]
Humicola lanuginosa 75 [14] 2 Indirect biodiesel production
Mortierella isabellina 53.2 [32] from oleaginous microbes
Mucor mucedo 62 [33]
Yeasts Oleaginous microorganisms could represent new
Candida curvata 58 [14] lipid feedstocks for biodiesel production. The oils
Cryptococcus albidus 65 [14] can be extracted from fast growing microorganisms
Cryptococcus curvatus 58 [34] and transesterified with short-chain alcohols,
Lipomyces starkeyi 68 [35] yielding high quality biodiesel esters that comply
Rhodosporidium toruloides 58 [32] with the currently existing standards [36, 37]. Be-
sides, the wide array of microbial lipids makes it

Figure 2. Overview of engi-


neered pathways for produc-
tion of biodiesel (fatty acid
ethyl ester) from hemicellu-
loses or glucose in recombi-
nant E. coli discussed in this
review. Over-expressed genes
or operons are indicated by
thick arrows; deleted or atten-
uated genes are indicated
by crosses; heterologous
pathways are highlighted in
dashed lines; introduced het-
erologous genes are xyn10B
(C. stercorarium), xsa (B. ova-
tus), pdc and adhB (Z. mobi-
lis), atfA (A. baylyi), and FAA2
(S. cerevisiae).

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Journal

feasible to vary the biodiesel property so that it ex- density cultures, which implies big amounts of wa-
hibits a combination of improved fuel properties ter required, increasing the production costs [27].
such as higher cetane number and heating value
and lower viscosity [38, 39]. Added to these advan- 2.2 Bacterial biodiesel production
tages, using oleaginous microbes for the production
of biodiesel will have less consequences on the Bacteria can also be used as source for lipids pro-
production of food or products derived from ter- duction to finally obtain the esters that can consti-
restrial crops. tute biodiesel.
Most bacteria produce mainly complex lipids,
2.1 Microalgae for biodiesel production only few species can produce lipids that can be
used as precursors of biodiesel [47]. The main
Microalgae are photoautotrophic-microorganisms source of lipids in these specific bacteria are TAGs,
that can convert carbon dioxide directly to lipids of which only few genera of the actinomycetes class
that can further be used for biofuel production, can accumulate to high levels, as in the case of
particularly for biodiesel [1, 23, 40, 41], and its bio- Acinetobacter [48], Mycobacterium [49] and Strepto-
mass can be fermented to produce other fuels [1, myces [50].These TAGs accumulated inside the cell
4143]. especially when bacteria are grown on simple car-
Microalgae seem to be one of the most promis- bon sources under stress conditions [29]. It has
ing feedstock for providing large amounts of lipids been found that strains of Rhodococcus opacus can
that can be further directed to synthesize renew- accumulate up to 87% (by dry weight) [51]; the TAG
able biodiesel to substitute fossil diesel, due to a bodies of these bacteria are mainly composed of
very high oil yield and a very low land area needed TAGs (87%), diacylglycerols (~5%), free fatty acids
for its cultivation (3.4 times less land required in (~5%), phospholipids (1.2%) and proteins (0.8%)
comparison with corn growing). Furthermore, they [52]. The TAGs were mainly formed by hexade-
have a higher content of oil than macroalgae [44], canoic acid (16:0) and octadecenoic acid (18:1) [53].
they grow very quickly and some species are very Other bacteria genera, such as Gordonia sp. can ac-
rich in oil. They can double their biomass in 3.5 h cumulate up to 72% TAG with a predominant com-
during the exponential growth phase in batch cul- position of docosanoic acid (22:0) and hexanoic
tures, and their common doubling time is around acid (6:0) [30]. Genera such as Streptomyces syn-
24 h. thesize TAGs, but only in the absence of a nitrogen
The oil content of microalgae usually ranges be- source [50].
tween 20 to 60% by weight of the dry biomass With the advance of systems biology and meta-
(Table 1); and in some genera such as Botryococcus, bolic engineering, there is the possibility to engi-
Nannochloropsis and Schizochytrium it can be close neer common production hosts such as E. coli to
to 80%. Microalgae can produce many different greatly increase their fatty acids production [54].
kinds of lipids, hydrocarbons and complex oils, de- Metabolically modified E. coli can produce fatty
pending on the species [45]. Lipids with long car- acids at 2.5 g/L by knocking out the fadD gene
bon chains are satisfactory for the biodiesel pro- (encoding the fatty acyl-CoA synthetase) and by
duction. The oils produced in microalgae are main- overexpressing acetyl-CoA carboxylase and
ly unsaturated fatty acids: palmitoleic (16:1), oleic thioesterase. This effort opens the door to harness-
(18:1), linoleic (18:2) and linolenic (18:3) acids. Sat- ing multiple metabolic tools in constructing an ef-
urated fatty acids such as palmitic (16:0) and stearic ficient fatty acids-producing cell from a non-
(18:0) acids are also present in low concentration oleaginous microbe. Although bacteria accumulate
[14]. In certain species, polyunsaturated fatty acids low concentrations of lipids (compared to microal-
can be synthesized [46], but biodiesel produced gae, for example), they have other advantages re-
from these compounds oxidizes faster than petro- lated to biodiesel production: they possess a high-
leum diesel, forming sediments that affect the com- er specific growth rate (usually reaching high bio-
bustion engine. The faster the microalga grows and mass levels in 1224 h) and they are easy to culti-
the higher its oil content, the higher the biodiesel vate.
productivity will be.
Microalgae can contain high amounts of lipids, 2.3 Fungi for biodiesel production
but compared to other oleaginous microorganisms
they require large areas of land due to their photo- Fungi can also be utilized as a lipid source for bio-
synthetic activity [14]. Besides this, due to their diesel production. Some species can produce high
sunlight requirement, the daily and seasonal vari- concentrations of lipids such as Humicola lanugi-
ations affect their growth. Moreover, they need low nosa (75%) [14]. In other fungi different levels of

280 2011 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim


Biotechnol. J. 2011, 6, 277285 www.biotechnology-journal.com

lipids can be obtained: it has been reported that As- lipids were mainly oleic, palmitic, stearic and
pergillus oryzae can accumulate lipids to up to 57% linoleic acids [58].
of its cell dry weight [14], and in Mucor rouxii a lipid Lipids produced from yeasts can be converted
content of 30% was found, among these lipids the into esters to constitute biodiesel. In the case of Tri-
one that was present at highest concentration was chosporon fermentans, a high methyl esters yield
linolenic acid (317%) [55]. (92%) was obtained by transesterification of fatty
Biodiesel esters can be produced from the fila- acids extracted from cells [59]. A direct transesteri-
mentous fungus Mucor circinelloides, from which a fication process from yeast biomass could be
lipid content of 19.9 % (by wt) was reported using achieved but low yields (less than 20%) have been
for extraction a solvent mixture of chloroform and found. In a particular study, methanolysis of L.
methanol (at a 2:1 ratio). There were two proce- starkeyi biomass was performed under mediation of
dures followed for the formation of esters: trans- alkali metal hydroxides under heating at 70C for
formation of extracted lipids and direct transfor- 24 h [32]. Another option that can be applied is uti-
mation of dry fungal biomass. The transesterifica- lizing different mineral acids (H2SO4, HCl and
tion reaction was realized during 8 h at 65C in the H3PO4) as catalysts. The reaction was started mix-
presence of an acid catalyst (in this case, BF3, ing powdered cells with a methanolic solution of a
H2SO4 or HCl). Surprisingly, the direct method pro- mineral acid and heated at 70C. The yields of
duced fatty acid methyl esters at a higher yield and methyl esters were 60 and 53%, for H2SO4 at 0.1 M
purity (>99% for all catalysts) than the one using and HCl at 0.2 M, respectively, in a reaction with a
the two steps process (91.498.0%). These esters biomass: methanol ratio of 1:20 (w/v) for 16 h [32].
produced can be used directly as biodiesel [56]. The factors influencing this esterification yield
Among fungi, oleaginous yeasts are distin- are acid catalyst selected and its concentration,
guished by their capacity to accumulate high con- time course of the reaction, temperature and bio-
centrations of lipids (over 20% of their biomass). mass:methanol ratio.
Species such as Rhodosporidium toruloides and As mentioned above, in order to process the
Lipomyces starkeyi have been found to accumulate transesterification reaction with the oils from
lipids at around 60 and 70% of dry cell weight oleaginous microbial cells, several unit operations
(Table 1); these lipids are mainly constituted by should be performed. Conventionally, the transes-
TAGs [57]. Besides conventional batch culture, oth- terification is performed with the alcohol (methan-
er fermentative systems applied to Rhodosporidium ol) and triacylglycerides extracted from dried mi-
toruloides can achieve a higher productivity of lipid crobial biomass, but a novel single-step method has
synthesis (0.54 g/L/h in fed-batch culture). These been developed that transesterifies lipids by direct

Figure 3. Process followed to synthesize


biodiesel esters from oleaginous mi-
croorganisms by conventional trans-
esterification with extracted lipids from
cells or by direct transesterification of
the microbial biomass obtained.

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Journal

alcoholysis of dried microbial biomass, without though the metabolism needs to be further opti-
previous lipid extraction (Fig. 3) [25, 32]. However, mized.
even the single-step method requires an addition- Furthermore, Steen et al. [19] harnessed the ex-
al expense for the pretreatment of biomass. It tensively investigated fatty acid metabolism in bac-
would further reduce the cost of the inexpensive teria to engineer Escherichia coli to produce
oleaginous microbe feedstock, if methods without biodiesel directly from simple sugars. The flux
drying of the biomass could be developed. The cur- through the fatty acid pathway was increased to
rent catalysts used for transesterification are improve production of free fatty acids and acyl-
chemical catalysts, due to their high conversion ef- CoAs by eliminating -oxidation, by overexpress-
ficiency at low costs, but they involve complex op- ing thioesterases and acyl-CoA ligases. Biodiesel
erations such as treatment of contaminated water was produced by expressing a wax ester synthase
and recovery of biodiesel esters. Recently, biocat- and ethanol-producing genes (Fig. 2). In the pres-
alytic transesterification techniques using lipases ence of glucose, the yield of produced biodiesel
have been presented as a less energy intensive and could reach 674 mg/L. By further introducing xy-
environmentally friendly method, and with yields lanases, the engineered E. coli could produce
exceeding 90% [60]. Biocatalytic transesterification biodiesel to 11.6 mg/L directly from hemicellulose,
has therefore received much attention, especially a major component of plant-derived biomass, with
in the area of immobilization [61] and whole-cell 2% xylan addition.
biocatalysis [62, 63]. Production of biodiesel directly from micro-
organisms has also been reported in recent patent
applications [6567], all owned by LS9 Inc. (Fig. 2).
3 Direct biodiesel production Briefly, the metabolically engineered E. coli strain
from engineered cell factories was manipulated to be able to produce biodiesel
and fatty acid derivatives thereof (short and long
Many research efforts have focused on direct pro- chain alcohols, hydrocarbons, fatty alcohols, waxes,
duction of biodiesel through microbial conversion etc). The fadE gene was first disrupted in E. coli,
from abundant and cost-effective renewable re- which was then not capable of degrading fatty acids
sources without any additional modifications, and and fatty acyl-CoAs. Then, the enforced fatty acid
this became feasible with the finding of a novel bi- biosynthesizing ability and fatty acid derivatives
functional wax ester synthase/acyl-CoA:diacyl- production ability were accomplished through the
glycerol acyltransferase (WS/DGAT), which could overexpression of several genes encoding enzymes
synthesize wax esters from alcohols and fatty acid like thioesterase (tesA), acyl-CoA synthase (fadD),
coenzyme A thioesters (acyl-CoA) [64]. Biodiesel acetyl-CoA carboxylase (accABCD), fatty acid syn-
produced in this process are primarily FAEEs, thase (fabH, fabD, fabG, fabF), acyl carrier protein
which have better performances than fatty acid (acpP), wax synthase (atfA), alcohol acyltrans-
methyl esters (FAMEs). Furthermore, methanol ferase, alcohol dehydrogenase, and different kinds
used for transesterification is largely derived from of fatty alcohol forming acyl-CoA reductases. To
non-renewable natural gas and is toxic and haz- further enhance fatty acids production, genes
ardous (Figs. 1A and 1B), and there are therefore aceEF had been suggested to express in a produc-
many benefits for producing biodiesel (FAEEs) di- tion host, accompanied by attenuating glycerol-3-
rectly using a redesigned microbial cell factory phosphate dehydrogenase (gpsA), lactate dehydro-
(Fig. 1C). Currently, the two model organisms, E. coli genase (ldhA), pyruvate formate lyase I (pflB),
and S. cerevisiae, are being used to develop direct phosphate acetyltransferase (pta), pyruvate oxi-
biodiesel production. dase (poxB), acetate kinase (ackA), and glycerol-3-
The idea of wax ester production was first ap- phosphate O-acyltransferase (plsB). Later, in US
plied effectively by Kalscheuer et al. [21].They suc- patent publication 2010/0071259 inventors from
cessfully expressed the WS/DGAT gene (atfA) from the same company showed that by adding a mix-
the Acinetobacter baylyi strain ADP1 in combina- ture of at least two different alcohols to a medium
tion with the ethanol production genes (pdc and containing the engineered fatty esters-producing
adhB) from Zymomonas mobilis in E. coli and used E. coli strain, at least two different fatty esters could
the recombinant E. coli for biodiesel production be produced. In particular, by selecting various
(Fig. 2). A final FAEE content of 1.28 g/L was types and/or amounts of alcohols, it was possible to
achieved after 72 h of fermentation supplemented produce a desired fatty ester composition, i.e. de-
with exogenous fatty acids. This research is an ex- signed biodiesel, which would possess improved
cellent demonstration of the feasibility for direct fuel properties, such as desired cloud point, cetane
production of fatty acid esters by microbes al- number, viscosity and lubricity [68].

282 2011 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim


Biotechnol. J. 2011, 6, 277285 www.biotechnology-journal.com

On the one hand, it should be noticed that cost-effective, sustainable alternative. Press re-
ethanol, one of the two substrates for biodiesel, is leases from several different companies indicate
not naturally produced by E. coli. Establishment of that there are several microbial biodiesel projects
heterologous ethanol biosynthesis is a prerequisite ongoing, e.g. at ExxonMobil Corp., Dow Chemical
for an E. coli biodiesel producer. In this regard, a far Co., LS9 Inc., Amyris Biotechnologies Inc., Codexis
better choice of microbial cell factory for industrial Inc, BP and Martek Biosciences Corp.
production of biodiesel would be the yeast S. cere- The application of microorganisms for efficient
visiae, which is a well-known organism used in the production of biodiesel will require a significant
production of ethanol through the fermentation of de-regulation of lipid metabolism, which repre-
glucose [69]. sents a big challenge due to its complexity and the
Using the same principle as for E. coli, it has limited knowledge of the field [19, 71, 72]. Recent
been reported that novel lipids, including FAEEs progress in synthetic biology and systems biology
and fatty acid isoamyl esters (FAIEs), could be pro- has accelerated the ability to analyze and imple-
duced in S. cerevisiae H1246 with oleic acid addition ment metabolic pathways with unprecedented pre-
by expressing the A. baylyi bifunctional WS/DGAT cision [7375], and provide useful strategies for
enzyme [70]. This study indicated that the non- system-level metabolic engineering by creating
specificity of WS/DGAT from A. calcoaceticus ADP1 and modifying genetic systems [76, 77]. More im-
could lead to the biosynthesis of a large variety of portantly, in silico metabolic models enabled the
lipids in vivo in a eukaryotic expression host. systematic elucidation and design of biology sys-
A recent patent application, namely US patent tems with desired and more predictable properties
2009/0117629 by Schmidt-Dannert and Holtzapple [7678], e.g. enhanced lipid accumulation, or engi-
[21] describes a method for the production of neered pathways for de novo biodiesel production
biodiesel and wax esters by heterologous expres- in vivo, making microorganism an ideal platform
sion of wax synthase (WS2) from Marinobacter hy- for future biodiesel production.
drocarbonoclasticus in S. cerevisiae by exogenous
supply of fatty acids. The WS2 from M. hydrocar-
bonoclasticus performs a higher wax synthase ac- We acknowledge financial support from the Chal-
tivity for ethanol compared the A. baylyi bifunc- mers Foundation, Knut and Alice Wallenberg Foun-
tional WS/DGAT enzyme. Moreover, unlike the A. dation, the European Research Council and the Mex-
baylyi bifunctional WS/DGAT enzyme, the WS2 ican National Council of Science and Technology.
does not have DGAT activity, which catalyzes the
formation of TAG from fatty acids. TAG synthesis The authors have declared no conflict of interest.
would function as a competitive pathway for
biodiesel production. Hence, the WS2 from M. hy-
drocarbonoclasticus is very suitable for the particu- 5 References
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