Recent Advances in The Research of Milbemycin Biosynthesis and Regulation As Well As Strategies For Strain Improvement
Recent Advances in The Research of Milbemycin Biosynthesis and Regulation As Well As Strategies For Strain Improvement
Recent Advances in The Research of Milbemycin Biosynthesis and Regulation As Well As Strategies For Strain Improvement
https://doi.org/10.1007/s00203-021-02575-1
MINI-REVIEW
Received: 11 May 2021 / Revised: 7 September 2021 / Accepted: 12 September 2021 / Published online: 22 September 2021
© The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2021
Abstract
Milbemycins, a group of 16-membered macrocylic lactones with excellent acaricidal, insecticidal and anthelmintic activi-
ties, can be produced by several Streptomyces species. For the reason that they have low toxicity in mammals, milbemycins
and their derivatives are widely used in agricultural, medical and veterinary industries. Streptomyces bingchenggensis, one
of milbemycin-producing strains, has been sequenced and intensively investigated in the past decades. In this mini-review,
we comprehensively revisit the progress that has been made in research efforts to elucidate the biosynthetic pathways and
regulatory networks for the cellular production of milbemycins. The advances in the development of production strains for
milbemycin and its derivatives are discussed along the strain-generation technical approaches of random mutagenesis, meta-
bolic engineering and combinatorial biosynthesis. The research progress made so far indicates that strain improvement and
generation of novel milbemycin derivatives will greatly benefit from future development of enabling technologies and deeper
understanding of the fundamentals of biosynthesis of milbemycin and the regulation of its production in S. bingchenggensis.
This mini-review also proposes that the overproduction of milbemycins could be greatly enhanced by genome minimization,
systematical metabolic engineering and synthetic biology approaches in the future.
Keywords Milbemycins · Regulatory network · Streptomyces bingchenggensis · Strain improvement · Biosynthetic gene
cluster
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Fig. 1 Chemical structures of milbemycin A3/A4 and milbemycin family derivatives (color figure online)
Recently, the biosynthetic gene cluster (BGC) of milbe- and regulation and of the various strategies that have been
mycin has been identified in S. bingchenggensis and S. nan- developed to enhance the yields of milbemycins in produc-
changensis NS3226 (Kim et al. 2017; Wang et al. 2010b). tion strains.
The milbemycin BGC consists of ten genes encoding
four multifunctional modular type I polyketide synthases
(milA1, milA2, milA3 and milA4), four tailoring enzymes Milbemycin biosynthesis and regulation
(milC, milD, milE and milF), one regulator (milR) and one
unknown protein (orf1), respectively (Fig. 2A). However, The biosynthesis of milbemycin was first investigated in
unlike the closely situated avermectin BGC, milbemycin Streptomyces hygroscopicus subsp. aureolacrimosus Au-3
BGC is separated by a large DNA fragment (62-kb in S. with 13C isotope labeling in 1983. The carbon skeleton of
bingchenggensis and 55-kb in S. nanchangensis NS3226) milbemycin is derived from seven acetate units and five pro-
between milR and milA1, which is not involved in milbemy- pionate units. The C-25 groups are derived from acetate, pro-
cin biosynthesis. pionate and isobutyrate or dl-valine, respectively. The meth-
Presently, S. bingchenggensis has been developed as a oxyl group at C-5 is from l-methionine (Ono et al. 1983b).
milbemycin producer in Zhejiang Hisun Pharmaceutical Co., It is owing to the structural similarity between milbemycin
Ltd (Li et al. 2017a, b). But the yield of milbemycins in S. and avermectin or meilingmycin that the biosynthetic path-
bingchenggensis is much lower than that of avermectins in way of milbemycin has been proposed based on that of the
S. avermitilis, which hinders the widespread applications of latter (He et al. 2010; Nonaka et al. 1999a, b), namely: (1)
milbemycins in agricultural, veterinary, and medical fields. the formation of starter units acetyl-CoA or propionyl-CoA;
Therefore, there is great potential for commercial reward (2) the elongation of polyketide chain with seven malonyl-
to be realized from improvements in milbemycin overpro- CoA and five methylmalonyl-CoA to starter units by four
duction in Streptomyces species. This mini-review collates giant polyketide synthases (MilA1-MilA4); (3) spiroketal
the current status of research into milbemycin biosynthesis and furan ring formation; (4) post-modification including
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Fig. 2 Biosynthetic gene cluster and pathway of milbemycin in S. biosynthesis; purple, the genes involved in post-modification steps of
bingchenggnesis. A The physical map of milbemycin biosynthetic milbemycin biosynthesis; red, the regulator gene; dash line, the gene
gene cluster. Each arrow indicates the open reading frames (ORFs). with unknown function. B The milbemycin biosynthetic pathway
Green, the PKS genes (milA1, milA2, milA3, milA4) for milbemycin (color figure online)
oxidation, reduction and methylation to form the final milbe- which are precursors of milbemycin A3 and A4 (Wang et al.
mycin components (Fig. 2B). Among the proposed milbe- 2020). Although the function of tailoring enzyme MilC is
mycin biosynthetic pathway, the C5-O-methyltransferase still unknown, the homologs of MilC, MeiC and AveC, have
MilD was determined to catalyze milbemycin A3/A4 to been identified as a spirocyclase that catalyzes the spiroketal
yield B1/B2. The C5-keto reductase MilF was found to be ring formation (Sun et al. 2013).
responsible for reduction of C5-keto groups of milbemycins In recent years, several regulators involved in milbemycin
(Nonaka et al. 2010; Wang et al. 2014; Zhang et al. 2013). biosynthesis have been investigated, but for most of them,
Recently, another tailoring enzyme MilE, has been found to the action mechanisms still have not been clearly elucidated
be involved in furan ring formation in β-family milbemycins (Fig. 3).
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MilR, encoded by a cluster-situated regulatory gene, was hydrolase, a gene family that is not directly involved in
identified as a LAL family (large ATP-binding regulator of milbemycin biosynthesis. The data obtained by Wei et al.
the LuxR family) pathway-specific transcriptional regulator clearly showed that the effect of MilR2 on 5-oxomilbemy-
for milbemycin biosynthesis (Zhang et al. 2016). Deletion cin A3/A4 production might be only partially mediated by
of milR led to the complete loss of milbemycins production. the function of sbi_00791. Additionally, the authors also
Xiang’s group proved that MilR positively regulated milbe- proposed that MilR2 and its homologs probably regulated
mycin biosynthesis by specifically binding the promoters of carbohydrate transport and hydrolysis (Wei et al. 2018).
the milA4-milE operon and of milF with its C-terminal HTH
domain. Four amino acid residues (K37A, K37R, D122A
and D123A) in the N-terminal AAA domain (ATPases Strategies for the enhancement
associated with diverse cellular activity) were shown to be of milbemycin production
essential for the regulatory function of MilR (Zhang et al.
2016). The overexpression of milR significantly improved As broad-spectrum antiparasitic agents, milbemycins and
the production of milbemycin A3/A4, but had no influence their derivatives showed high commercial value and huge
on nanchangmycin biosynthesis in S. bingchenggensis. market potential. Notably, the derivatives from milbemycin
Several other regulators also have been reported to be A3/A4 have higher insecticidal activity and lower toxicity
involved in milbemycin biosynthesis. The pleiotropic regu- than the most commonly used biopesticide—avermectin B 1a.
lator NsdA, a repressor of sporulation and production of However, titer and yield of milbemycins are much lower than
actinorhodin, a calcium-dependent antibiotic and methyl- that of avermectins, which might limit widespread applica-
enomycin, was originally identified in Streptomyces coeli- tions of milbemycins. Scientists have endeavored to improve
color A3(2) (Yu et al. 2006). Previous results showed that the production of milbemycin by process optimization and
the NsdA-encoding gene was widely present and conserved strain improvement. Warr et al. found that concentration of
in Streptomyces species. The disruption of nsdA homologous fructose (or starch) and carbon–nitrogen ratio significantly
gene led to overproduction of milbemycin A4 and nanchang- affected milbemycin production (1994). Subsequently,
mycin in S. bingchenggensis. The nsdA disruption mutant Zhang et al. developed an optimized medium for milbemy-
also showed mycelia pigment and sporulation changes simi- cin production with response surface methodology, which
lar to those of S. coelicolor (Wang et al. 2006). increased the yield of milbemycins to 1110 ± 98 µg/mL, a
γ-Butyrolactone (GBL) systems, including A-factor- 2.61-fold higher yield than before (2011). It is therefore clear
mediated ArpA/AfsA system, SCBs-mediated ScbR/ScbA that improved medium and culture conditions can greatly
system, VBs-mediated BarA/BarX, IM-2-mediated FarA/ enhance strain optimization efforts. The application of dif-
FarX system and SVB1-mediated JadR3/JadW1 system, ferent strategies to improve milbemycin producing strains,
govern secondary metabolites biosynthesis in Streptomy- such as random mutagenesis, metabolic engineering and
ces (O’rourke et al. 2009; Sultan et al. 2016; Takano 2006). combinational biosynthesis, are discussed and summarized
SbbR, a putative ArpA homologous regulator, affected in the following paragraphs.
milbemycin production through directly activating the
expression of milR. SbbA, probably involved in biosynthesis Random mutagenesis
of GBL, had a negative effect on milbemycin biosynthesis
and was repressed by SbbR (Romero-Rodríguez et al. 2015). Random mutation and rational screening is still an efficient
Also, electrophoresis mobility shift assays (EMSAs) proved method to improve productivity of secondary metabolites
that SbbR directly bound to putative promoters of 11 regu- for industrial fermentation (Gao et al. 2010). Wang et al.
latory genes that encode 7 cluster-situated regulators and 4 obtained a high-yield milbemycin-producing strain through
well-known global regulators, which suggests that SbbR/ a rational screening procedure after UV irradiation and
SbbA system, like other ArpA/AfsA-type systems, play an N-methyl-N-nitro-N-nitrosoguanidine (NTG) treatment of
upper-layer role in milbemycin biosynthetic regulatory cas- a parent strain (2009). The production of milbemycin A3/
cades (Romero-Rodríguez et al. 2015). A4 by the final mutant strain reached 1450 mg/L, an 80%
Recently, a novel TetR family regulator MilR2 increase compared to that of the parent S. bingchenggensis
(sbi_00792), tested as an activator for 5-oxomilbemycin strain. Atmospheric and room temperature plasma (ARTP)
A3/A4 biosynthesis, showed little effect on the transcrip- mutation system, new and effective mutation technology,
tion of 5-oxomilbemycin A3/A4 biosynthetic genes in a has also been employed to improve milbemycin yield. For
high 5-oxomilbemycins-producing strain S. hygroscopicus example, Wang et al. obtained a S. bingchenggensis mutant
SIPI-KF (Wei et al. 2018). However, MilR2 was shown to that produced a nearly two-fold higher milbemycin A3/A4
repress the transcription of sbi_00791 by binding to the pro- titer than the initial strain (2014). Ribosomal engineering
moter of sbi_00791. The gene sbi_00791 encodes a putative with random mutagenesis showed great potential to improve
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production of milbemycins. Lu et al. achieved more than production and mildly enhanced the titer of milbemycin A3/
63.3% increasement of milbemycin production by screen- A4 (Wang et al. 2020). MilF transforms 5-oxomilbemycin
ing streptomycin-resistant strain after UV mutagenesis A3/A4 to milbemycin A3/A4 and disruption of milF was
(2018). Teng et al. obtain milbemycin A3 or A4 single found to block the production of milbemycin A3/A4 and B2/
component strain by combinatorial mutagenesis of UV, B3 and resulted in mainly the production of 5-oximilbemy-
ethylmethane sulfonate, atmospheric and room temperature cin A3/A4, which is beneficial for the production of milbe-
plasma (ARTP) and screening strains with glycine-resist- mycin oxime in industry (Wang et al. 2010a).
ance, rifampicin-resistance, sodium acetate-resistance, and Furthermore, enhancement of the utilization of carbon
3-bromopyruvate tolerance. The milbemycin A4 production sources through sugar transporter engineering is also an effi-
of strain 75–22 has increased about four times than that of cient approach for the overproduction of secondary metabo-
initial strain CGMCC 7677 in 50L fermenter. The ratio of lites (Bertram et al. 2004; Getsin et al. 2013; Li et al. 2010).
milbemycin A4 was more than 80%. The milbemycin A3 TP2 and TP5, two ATP-binding transporters, can elevate the
production of strain 95–23 has increased about nine times utilization rate of sucrose in S. bingchenggensis. In the work
than that of initial strain CGMCC 7677 in 50L fermenter. of Jin et al. the expression of TP2 and TP5 was fine-tuned
And the ratio of milbemycin A3 was more than 70% (Teng by native temporal promoters, which resulted in an increase
et al. 2019). of milbemycin A3/A4 production of 36.9% (Jin et al. 2020).
Meanwhile, titers of avermectin B 1a and nemadectin were
Metabolic engineering also greatly improved through controlling the expression of
these two transporters in S. avermitilis and S. cyaneogriseus,
In comparison to the time-intensive and laborious respectively.
approaches of classical mutagenesis highlighted above, Recent years, multi-omics techniques have been devel-
metabolic engineering is regarded as a more efficient and oped as effective ways to identify candidate beneficial muta-
direct method for the improvement of secondary metabolites tions for antibiotics production (Chae et al. 2017; Palazzotto
production in microbes. and Weber 2018). Genome re-sequencing of the high-yield-
Rewiring regulatory network is an efficient approach to ing mutant strain S. bingchenggensis BC04 found 3 candi-
enhance the production of antibiotics and here we highlight date beneficial genes (or operons) (sbi_04868, sbi_06921
the application of this approach in the case of milbemy- and sbi_06922, and sbi_04683) involved in primary metabo-
cin. The overexpression of cluster-situated positive regu- lism from 133 mutation sites. Overexpression of sbi_06921
latory gene milR by Zhang et al. enhanced the production and sbi_06922, and sbi_04683, and downregulation the tran-
of milbemycin A3/A4 by 38% (2016). Wang et al. found scription level of sbi_04868 by CRISPRi system resulted
that the deletion of negative regulatory gene nsdA and sbbA in the titer of milbemycin A3/A4 increasing by 27.6% to
increases milbemycin A3/A4 production by 33.3% and 25%, 3164.5 mg/L (Liu et al. 2021).
respectively (2006). Wei et al. created a milR2-overexpres-
sion strain that produced 34.4% higher levels of 5-oxomilbe- Combinatorial biosynthesis
mycin A3/A4 than the parental strain (2018).
Blocking branches of biosynthetic pathways is generally In the past decades, combinatorial biosynthesis has been
known to result in improvements in the production of sec- widely applied in Type I Polyketide research, particularly
ondary metabolites (Meng et al. 2016; Komatsu et al. 2010; research pertaining to the modular architecture of repetitive
Ikeda et al. 2014). The milbemycin biosynthetic pathway domains in multifunctional Polyketide Synthases (PKSs)
is illustrated in Fig. 2B. MilD (C5-O-methyltransferase) (Baltz 2014; Park and Yoon 2019). An example of com-
introduces methyl group to the C5-OH. There are several binatorial biosynthesis applied in the search for milbemy-
examples of the biosynthetic pathway disruption approach in cin high-yield strains is the work by Kim et al. whereby,
metabolic engineering efforts for the creation of high-yield due to the similarity between milbemycin and avermectin
mutants for the production of milbemycins. For example, the PKSs, a new milbemycin-producing strain was engineered
milD disruption mutant accumulated high milbemycin A3/ based on an avermectin high-producing strain, by replace-
A4 yields through blockage of the generation of C5-O-meth- ment of AveA1 and AveA3 with the MilA1 and MilA3 from
ylmilbemycin B2/B3 (Wang et al. 2014; Zhang et al. 2013). S. bingchenggensis, respectively (Kim et al. 2017). How-
MilE, a CYP171 family cytochrome P450 enzyme, catalyzes ever, the production of milbemycin A3/A4 in the recom-
the conversion of β-family milbemycins to milbemycin A3/ binant strain was only a few micrograms per liter, which
A4. Overexpression of milE increased the titer of milbemy- was much lower than that of wild-type S. bingchenggen-
cin A3/A4 by 53.1% (Wang et al. 2020). CYP41 is respon- sis (Kim et al. 2017). In another case of the application of
sible for the hydroxylation at C26 of milbemycin A3/A4 combinatorial biosynthesis in milbemycin and derivatives
and disruption of cyp41 abolished most milbemycin α9/10 research, production optimization of Tenvermectin A and B
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in S. avermitilis was achieved using a mix of various well- (fermentation), and downstream (recovery and purifica-
established genetic-engineering techniques, protein engi- tion) processes altogether to develop microbial strains with
neering techniques, and synthetic biology techniques. In this desired functions and characteristics (Ko et al. 2020; Rob-
work by Huang et al., Tenvermectin A and B (TVMs), two ertsen et al. 2018). An example that highlights the potential
novel avermectin derivatives, were produced by a geneti- of Systems Metabolic Engineering in the development of
cally engineered strain, S. avermitilis MHJ1011, which was milbemycin producer strains is the work of Liu et al., who
constructed by replacement of the native aveA1 with milA1 obtained a strain with a titer of milbemycin A3/A4 increased
from S. hygroscopocis in S. avermitilis G8-17, an avermec- by 27.6% to 3164.5 mg/L through manipulating three candi-
tin industrial strain. The total titer of the two TVMs was date primary metabolism genes from genome re-sequencing
3400 mg/L in S. avermitilis MHJ1011 (Huang et al. 2015b). results. In essence, this increase in milbemycin yield was
Furthermore, the substitution of aveDH2-KR2 located in achieved by enhancing the uptake of gluconate (2021).
aveA1 of S. avermitilis NA-108 with milDH2-ER2-KR2 Multi-Omics techniques, including genomics, transcrip-
located in milA1 of S. bingchenggensis led to a recombinant tomics, proteomics and metabolomics, have enabled system-
strain which produced ivermectin B1a with a high yield of level analysis of milbemycin biosynthesis and metabolism
3450 mg/L (Zhang et al. 2015). All these efforts have shown in S. bingchenggensis, which will extend the limits of what
that combinatorial biosynthesis is a worthwhile approach in Systems Metabolic Engineering can achieve and offer fur-
the development of high-yield strains for the production of ther opportunities for workers via the identification of rate-
milbemycin and its derivatives. limiting steps in milbemycin metabolism and related path-
ways, which can then be targeted for engineering. Moreover,
the multi-omics data can be used to model the metabolic
Conclusions and future prospects network of milbemycin in S. bingchenggensis, for the predic-
tion of candidate regions for genome minimization.
In past decades, the yields of milbemycins have been Synthetic biology is the third approach we suggest. Syn-
improved a lot through various approaches, such as optimi- thetic biology, as a cutting-edge technology, has shown great
zation of fermentation medium, classical mutagenesis, meta- potential that derives from its robust and reliable charac-
bolic engineering and combinatorial biosynthesis. However, ter. However, the application of synthetic biology greatly
the production yields of milbemycins are still much lower depends on the availability of enabling technology and
than those of avermectin B 1a. We propose that the following knowledge, such as the availability of annotated genomes
three strategies would be the most promising for engineering where information about Promoters, Ribosome Binding
milbemycin high-production strains in the future. Sites, Terminators, etc., is accessible. Hence the applica-
Genome minimization (Li et al. 2017a, b) is the first fea- tion of synthetic biology in Streptomyces species, unlike in
sible approach we propose as the next frontier in further Escherichia coli and Saccharomyces were comprehensively
efforts to create milbemycin high-yield production strains. annotated genomes and cell manipulation techniques are
Deletion of competitive gene clusters and non-essential available, is relatively more hindered by the paucity of ena-
chromosomal regions has already been shown to improve bling genetic knowledge and cell manipulation techniques.
yields in the production of avermectin, salinomycin and Nevertheless, there are still ways and means to circumvent
actinorhodin, possibly by enhancing precursor supply these limitations that can allow application of synthetic biol-
(Gomez-Escribano and Bibb 2011; Huang et al. 2015a; Lu ogy to Streptomyces with the goal of creating strains with
et al. 2016). The genome of S. bingchenggensis comprises enhanced production of milbemycin. For example, strains
at least 47 secondary metabolite biosynthetic gene clusters can be designed and built by predictive modelling, refactor-
including that of milbemycin, in which more than 23 are ing biosynthetic pathway, regulatory engineering, product
putative polyketides clusters (Wang et al. 2013). Recently, efflux and metabolic flux manipulation (Breitling et al. 2021;
the Cpf1-based genome editing method has been developed Lee et al. 2019; Phelan et al. 2017). Heterologous expres-
for efficient large fragment deletion in S. bingchenggensis sion or multi-copies integration of secondary metabolic
(Li et al. 2018), which will facilitate the genome minimiza- gene clusters has been successful for actinorhodin, spinosad,
tion in S. bingchenggensis. However, the big downside of rapamycin and pristinamycin (Tan et al. 2017) and could
this approach is that a lot of endeavor is still required to be extended to milbemycin. The recently developed EQCi
decide which areas are candidates for deletion. (Endogenous Quorum-sensing system with CRISPRi) strat-
The second approach we propose is System Metabolic egy has improved rapamycin production by achieving bal-
Engineering. Systems Metabolic Engineering, which inte- ance between essential pathways and product synthesis (Tian
grates traditional metabolic engineering with systems et al. 2020) and could be extended to milbemycin as well.
biology, synthetic biology, and evolutionary engineering, Also, dynamic metabolic control strategies can be helpful
considers upstream (raw material preparation), midstream to decouple the cell growth and product biosynthesis, which
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can speed up the overproduction of secondary metabolites strain improvement. FEMS Microbiol Lett 368(10):fnab060.
(Burg et al. 2016). Hence as highlighted above, with the https://doi.org/10.1093/femsle/fnab060
Burg JM, Cooper CB, Ye ZX, Reed BR, Moreb EA, Lynch MD
development of microbial synthetic biology and the many (2016) Large-scale bioprocess competitiveness: the potential
allied enabling technologies and strategies, the optimization of dynamic metabolic control in two-stage fermentations. Curr
of milbemycin-producing strains would be greatly improved Opin Chem Eng 14:121–136. https://doi.org/10.1016/j.coche.
by the many options that become available. Furthermore, 2016.09.008
Carter GT, Nietsche JA, Hertz MR, William DR, Siegel MM, Morton
for implementation of most of the above strategies, efficient GO, James JC, Borders DB (1988) LL-F28249 antibiotic com-
multi-site simultaneous genome editing will probably be plex: a new family of antiparastic macrocyclic lactones. J Antibiot
an essential enabling technology that has to be developed. 41(4):519–529. https://doi.org/10.7164/antibiotics.41.519
Precise and economical process control, which could be Chae TU, Choi SY, Kim JW, Ko YS, Lee SY (2017) Recent advances
in systems metabolic engineering tools and strategies. Curr Opin
achieved with synthetic biology tools after clearly under- Biotechnol 47:67–82. https://doi.org/10.1016/j.copbio.2017.06.
standing the biosynthesis and regulation of milbemycins, 007
would greatly promote the industrial production of milbe- Chen JS, Liu M, Liu XT, Miao J, Fu CZ, Gao HY, Müller R, Zhang
mycins and facilitate microbial strain optimization. Q, Zhang LX (2016) Interrogation of Streptomyces avermitilis
for efficient production of avermectins. Synth Syst Biotechnol
1(1):7–16. https://doi.org/10.1016/j.synbio.2016.03.002
Acknowledgements We thank the members of Institute of Biophar- Danaher M, Radeck W, Kolar L, Keegan J, Cerkvenik-Flajs V (2012)
maceuticals, Taizhou University for many fruitful discussions. Many Recent developments in the analysis of avermectin and milbe-
thanks to Dr. Alexander Zawaira (formerly of Taizhou University and mycin residues in food safety and the environment. Curr Pharm
now of Beijing Open University, Haidian District, Beijing) for editing Biotehnol 13(6):936–995. https://doi.org/10.2174/1389201128
and suggestion. 00399068
Gao H, Liu M, Zhuo Y, Zhou XL, Liu JT, Chen DF, Zhang WQ, Guo
Funding This study was funded the Natural Science Foundation of ZX, Peng S, Zhang LX (2010) Assessing the potential of an
Zhejiang Province to HX (LY19C010002) and the Scientific Research induced-mutation strategy for avermectin overproducers. Appl
Foundation of Taizhou to HX (No. 2001xg07). Environ Microbiol 76(13):4583–4586. https://doi.org/10.1128/
AEM.01682-09
Declarations Getsin I, Nalbandian GH, Yee DC, Vastermark A, Paparoditis PCG,
Reddy VS, Saier MH Jr (2013) Comparative genomics of trans-
port proteins in developmental bacteria: Myxococcus xanthus and
Conflict of interest All authors declare that they have no conflict of Streptomyces coelicolor. BMC Microbiol 13(1):279–279. https://
interest. doi.org/10.1186/1471-2180-13-279
Gomez-Escribano JP, Bibb MJ (2011) Engineering Streptomyces coe-
Ethical statement This manuscript is in compliance with ethical stand- licolor for heterologous expression of secondary metabolite gene
ards. This manuscript does not contain any studies with human partici- clusters. Microb Biotechnol 4(2):207–215. https://doi.org/10.
pants or animals performed by any of the authors. 1111/j.1751-7915.2010.00219.x
He YL, Sun YH, Liu TG, Zhou XF, Bai LQ, Deng ZX (2010) Clon-
ing of separate meilingmycin biosynthesis gene clusters by use
of acyltransferase-ketoreductase didomain PCR amplification.
References Appl Environ Microbiol 76(10):3283–3292. https://doi.org/10.
1128/AEM.02262-09
Baker GH, Blanchflower SE, Dorgen RJ, Everett JR, Manger BR, Read- Huang H, Zheng GS, Jiang WH, Hu HF, Lu YH (2015a) One-step
ing CR, Readshaw SA, Shelley P (1996) Further novel milbemy- high-efficiency CRISPR/Cas9-mediated genome editing in Strep-
cin antibiotics from Streptomyces sp. E225: fermentation, isola- tomyces. Acta Biochim Biophys Sin (Shanghai) 47(4):231–243.
tion and structure elucidation. J Antibiot 27(35):272–280. https:// https://doi.org/10.1093/abbs/gmv007
doi.org/10.7164/antibiotics.49.272 Huang J, Chen AL, Zhang H, Yu Z, Li MH, Li N, Lin JT, Bai H, Wang
Baltz RH (2014) Combinatorial biosynthesis of cyclic lipopeptide anti- JD, Zheng YG (2015b) Gene replacement for the generation of
biotics: a model for synthetic biology to accelerate the evolution designed novel avermectin derivatives with enhanced acaricidal
of secondary metabolite biosynthetic pathways. ACS Synth Biol and nematicidal activities. Appl Environ Microbiol 81(16):5326–
3(10):748–758. https://doi.org/10.1021/sb3000673 5334. https://doi.org/10.1128/AEM.01025-15
Bertram R, Schlicht M, Mahr K, Nothaft H, Saier MH Jr, Titgemeyer Ikeda H, Kazuo SY, Omura S (2014) Genome mining of the Strepto-
F (2004) In silico and transcriptional analysis of carbohydrate myces avermitilis genome and development of genome-minimized
uptake systems of Streptomyces coelicolor A3(2). J Bacteriol hosts for heterologous expression of biosynthetic gene clusters. J
186(5):1362–1373. https://doi.org/10.1128/jb.186.5.1362-1373. Ind Microbiol Biotechnol 41(2):233–250. https://d oi.o rg/1 0.1 007/
2004 s10295-013-1327-x
Bienhoff SE, Kok DJ, Roycroft LM, Roberts ES (2013) Efficacy of Jacobs CT, Scholtz CH (2015) A review on the effect of macrocyclic
a single oral administration of milbemycin oxime against natu- lactones on dung-dwelling insects: toxicity of macrocyclic lac-
ral infections of Ancylostoma braziliense in dogs. Vet Parasitol tones to dung beetles. Onderstepoort J Vet Res 82(1):858. https://
195(1–2):102–105. https://doi.org/10.1016/j.vetpar.2013.01.004 doi.org/10.4102/ojvr.v82i1.858
Breitling R, Avbelj M, Bilyk O, Carratore FD, Filisetti A, Hanko Jin PJ, Li SS, Zhang YY, Chu LY, He HR, Dong ZX, Xiang WS (2020)
EKR, Iorio M, Redondo RP, Reyes F, Rudden M, Severi E, Mining and fine-tuning sugar uptake system for titer improve-
Slemc L, Schmidt K, Whittall DR, Donadio S, García AR, ment of milbemycins in Streptomyces bingchenggensis. Synth
Genilloud O, Kosec G, De Lucrezia D, Petković H, Thomas G, Syst Biotechnol 5(3):214–221. https://doi.org/10.1016/j.synbio.
Takano, (2021) Synthetic biology approaches to actinomycete 2020.07.001
13
5856 Archives of Microbiology (2021) 203:5849–5857
Kim SW, Rahman M, Abd El-Aty AM, Truong TBL, Choi JH, Park JS, Nonaka K, Tsukiyama T, Sato K, Kumasaka C, Maruyama F, Yoshi-
Kim MR, Shin HC, Shim JH (2016) Residue level and dissipation kawa H (1999b) Bioconversion of milbemycin-related com-
pattern of lepimectin in shallots using high-performance liquid pounds: isolation and utilization of non-producer, strain RNBC-
chromatography coupled with photodiode array detection. Biomed 5-51. J Antibiot 52(7):620–627. https://doi.org/10.7164/antib
Chromatogr 30(11):1835–1842. https://d oi.o rg/1 0.1 002/b mc.3 759 iotics.52.620
Kim MS, Cho WJ, Song MC, Park SW, Kim K, Kim E, Lee N, Nam Nonaka K, Tsukiyama T, Okamoto Y, Sato K, Kumasaka C, Yammoto
SJ, Oh KH, Yoon YJ (2017) Engineered biosynthesis of milbe- T, Maruyama F, Yoshikawa H (2010) New milbemycins from
mycins in the avermectin high-producing strain Streptomyces Streptomyces hygroscopicus subsp. aureolacrimosus: fermanta-
avermitilis. Microb Cell Fact 16(1):9. https://doi.org/10.1186/ tion, isolation and strucutre elucidation. J Antibiot 31(47):694–
s12934-017-0626-8 704. https://doi.org/10.7164/antibiotics.53.694
Ko YS, Kim JW, Lee JA, Han T, Kim GB, Park JE, Lee SY (2020) Ono M, Mishima H, Takiguchi Y, Terao M (1983a) Milbemycins, a
Tools and strategies of systems metabolic engineering for the new family of macrolide antibiotics. Fermentation, isolation and
development of microbial cell factories for chemical production. physico-chemical properties of milbemycins D, E, F, G, and H.
Chem Soc Rev 49(14):4615–4636. https://doi.org/10.1039/d0cs0 J Antibiot 36(5):509–515. https://doi.org/10.7164/antibiotics.36.
0155d 509
Komatsu M, Uchiyama T, Omura S, Cane DE, Ikeda H (2010) Ono M, Mishima H, Takiguchi Y, Terao M, Kobayashi H, Iwasaki S,
Genome-minimized Streptomyces host for the heterologous Okuda S (1983b) Milbemycins, a new family of macrolide anti-
expression of secondary metabolism. Proc Natl Acad Sci USA biotics. Studies on the biosynthesis of milbemycins alpha 2, alpha
107(6):2646–2651. https://doi.org/10.1073/pnas.0914833107 4 and D using 13C labeled precursors. J Antibiot 36(8):991–1000.
Lee N, Hwang S, Lee Y, Cho S, Palsson B, Cho BK (2019) Synthetic https://doi.org/10.7164/antibiotics.36.991
biology tools for novel secondary metabolite discovery in Strep- O’rourke S, Wietzorrek A, Fowler K, Corre C, Challis GL, Chater KF
tomyces. J Microbiol Biotechnol 29(5):667–686. https://doi.org/ (2009) Extracellular signalling, translational control, two repres-
10.4014/jmb.1904.04015 sors and an activator all contribute to the regulation of methyl-
Li M, Chen Z, Zhang X, Song Y, Wen Y, Li JL (2010) Enhancement enomycin production in Streptomyces coelicolor. Mol Microbiol
of avermectin and ivermectin production by overexpression of the 71(3):763–778. https://d oi.o rg/1 0.1 111/j.1 365-2 958.2 008.0 6560.x
maltose ATP-binding cassette transporter in Streptomyces aver- Palazzotto E, Weber T (2018) Omics and multi-omics approaches to
mitilis. Bioresour Technol 101(23):9228–9235. https://d oi.o rg/1 0. study the biosynthesis of secondary metabolites in microorgan-
1016/j.biortech.2010.06.132 isms. Curr Opin Microbiol 45:109–116. https://doi.org/10.1016/j.
Li L, Jiang WH, Lu YH (2017a) New strategies and approaches for mib.2018.03.004
engineering biosynthetic gene clusters of microbial natural prod- Park JW, Yoon YJ (2019) Recent advances in the discovery and com-
ucts. Biotechnol Adv 35(8):936–946. https://doi.org/10.1016/j. binatorial biosynthesis of microbial 14-membered macrolides
biotechadv.2017.03.007 and macrolactones. J Ind Microbiol Biotechnol 46(3–4):445–458.
Li JS, Zhang SY, Zhang H, Wang HY, Zhang J, Chen AL, Wang JD, https://doi.org/10.1007/s10295-018-2095-4
Xiang WS (2017b) Isolation and identification of new macro- Phelan RM, Sachs D, Petkiewicz SJ, Barajas JF, Blake-Hedges JM,
cyclic lactones from a genetically engineered strain Streptomy- Thompson MG, Reider Apel A, Rasor BJ, Katz L, Keasling DJ
ces bingchenggensis BCJ60. J Antibiot (Tokyo) 70(3):297–300. (2017) Development of next generation synthetic biology tools for
https://doi.org/10.1038/ja.2016.130 use in Streptomyces venezuelae. ACS Synth Biol 6(1):159–166.
Li L, Wei KK, Zheng GS, Liu XC, Chen SX, Jiang WH, Lu YY (2018) https://doi.org/10.1021/acssynbio.6b00202
CRISPR-Cpf1 assisted multiplex genome editing and transcrip- Pluschkell U, Horowitz AR, Ishaaya I (1999) Effect of milbemec-
tional repression in Streptomyces. Appl Environ Microbiol. tin on the sweetpotato whitefly, Bemisia tabad. Phytoparasitica
https://doi.org/10.1128/AEM.00827-18 27(3):183–191. https://doi.org/10.1007/BF02981457
Liu YQ, Wang HY, Li SS, Zhang YY, Cheng X, Xiang WS, Wang Robertsen HL, Weber T, Kim HU, Lee SY (2018) Toward systems met-
XJ (2021) Engineering of primary metabolic pathways for titer abolic engineering of Streptomycetes for secondary metabolites
improvement of milbemycins in Streptomyces bingchenggensis. production. Biotechnol J. https://doi.org/10.1002/biot.201700465
Appl Microbiol Biotechnol 105(5):1875–1887. https://d oi.o rg/1 0. Romero-Rodríguez A, Robledo-Casados I, Sánchez S (2015) An over-
1007/s00253-021-11164-7 view on transcriptional regulators in Streptomyces. Biochim Bio-
Lu CY, Zhang XJ, Jiang M, Bai LQ (2016) Enhanced salinomycin phys Acta 1849(8):1017–1039. https://doi.org/10.1016/j.bbagrm.
production by adjusting the supply of polyketide extender units 2015.06.007
in Streptomyces albus. Metab Eng 35:129–137. https://d oi.o rg/1 0. Sultan SP, Kitani S, Miyamoto KT, lguchi H, Atago T, lkeda H, Nihira
1016/j.ymben.2016.02.012 T (2016) Characterization of AvaR1, a butenolide-autoregulator
Lu FJ, Hou YY, Li XG, He LL, Chu YW, Xia HY, Tian YQ (2018) receptor for biosynthesis of a Streptomyces hormone in Streptomy-
Breeding of high milbemycin-producing strain by ribosomal ces avermitilis. Appl Microbiol Biotechnol 100(22):9581–9591.
engineering. Chin J Antibiot 43(7):811–816. https://doi.org/10. https://doi.org/10.1007/s00253-016-7781-4
13461/j.cnki.cja.006299 Sun P, Zhao QF, Yu FT, Zhang H, Wu ZH, Wang YY, Wang Y, Zhang
Meng L, Xiong Z, Chu J, Wang Y (2016) Enhanced production of QL, Liu W (2013) Spiroketal formation and modification in aver-
avermectin by deletion of type III polyketide synthases biosyn- mectin biosynthesis involves a dual activity of AveC. J Am Chem
thetic cluster rpp in Streptomyces avermitilis. Lett Appl Microbiol Soc 135(4):1540–1548. https://doi.org/10.1021/ja311339u
63(5):384–390. https://doi.org/10.1111/lam.12635 Takano E (2006) Gamma-butyrolactones: Streptomyces signaling mol-
Nicastro RL, Sato ME, Silva MZ (2011) Fitness costs associated with ecules regulating antibiotic production and differentiation. Curr
milbemectin resistance in the two-spotted spider mite Tetranychus Opin Microbiol 9(3):287–294. https://d oi.o rg/1 0.1 016/j.m ib.2 006.
urticae. Int J Pest Manag 57(3):223–228. https://doi.org/10.1080/ 04.003
09670874.2011.574745 Tan GY, Deng KH, Liu XH, Tao H, Chang YY, Chen J, Chen K, Sheng
Nonaka K, Kumasaka C, Okamoto Y, Maruyama F, Yoshikawa H Z, Deng ZX, Liu TG (2017) Heterologous biosynthesis of spi-
(1999a) Bioconversion of milbemycin-related compounds: bio- nosad: an omics-guided large polyketide synthase gene cluster
synthetic pathway of milbemycins. J Antibiot 52(2):109–116. reconstitution in Streptomyces. ACS Synth Biol 6(6):995–1005.
https://doi.org/10.7164/antibiotics.52.109 https://doi.org/10.1021/acssynbio.6b00330
13
Archives of Microbiology (2021) 203:5849–5857 5857
Teng Y, Xu MD, Zhu JW, Zheng LH, Ying XX, Bai H (2019) The Warr SRC, Box SJ, Burbidge C, Edwards H, Jones JJ (1994) Milbemy-
rational breeding of high-yield strains for producing the single A3 cin production by Streptomyces sp.: the effect of carbohydrates.
and A4 components of milbemycin. Chin J Antibiot 44(2):197– J Ind Microbiol Biotechnol 13(1):43–48. https://doi.org/10.1007/
202. https://doi.org/10.13461/j.cnki.cja.006553 BF01569661
Tian JZ, Yang GH, Gu Y, Sun XQ, Lu YY, Jiang WH (2020) Develop- Wei KK, Wu YJ, Li L, Jiang WH, Hu JF, Lu YH, Chen SX (2018)
ing an endogenous quorum-sensing based CRISPRi circuit for MilR2, a novel TetR family regulator involved in 5-oxomilbe-
autonomous and tunabledynamic regulation of multiple targets mycin A3/A4 biosynthesis in Streptomyces hygroscopicus. Appl
in Streptomyces. Nucleic Acids Res 48(14):8188–8202. https:// Microbiol Biotechnol 102:8841–8853. https://doi.org/10.1007/
doi.org/10.1093/nar/gkaa602 s00253-018-9280-2
Wang XJ, Guo SL, Guo WQ, Xiang WS (2006) Role of nsdA in nega- Yu Z, Wang Q, Deng ZX, Tao MF (2006) Activation of silent antibiotic
tive regulation of antibiotic production and morphological dif- synthesis in Streptomyces lividans by disruption of a negative
ferentiation in Streptomyces bingchenggensis. J Antibiot 62:309– regulator nsdA, a gene conserved in Streptomyces. Chin J Bio-
313. https://doi.org/10.1038/ja.2009.33 technol 22(5):757–762
Wang XJ, Wang XC, Xiang WS (2009) Improvement of milbemycin- Zhang BX, Wang XJ, Xiang WS (2011) Optimization of fermentation
producingStreptomyces bingchenggensis by rational screening medium for enhanced production of milbemycin by a mutant of
of ultraviolet- and chemically induced mutants. World J Micro- Streptomyces bingchenggensis BC-X-1 using response surface
biol Biotechnol 25(6):1051–1056. https:// d oi. o rg/ 1 0. 1 007/ methodology. Afr J Biotechnol 10(37):7225–7235. https://doi.
s11274-009-9986-5 org/10.5897/AJB11.077
Wang XJ, Wang CQ, Sun XL, Xiang WS (2010a) 5-ketoreductase from Zhang J, An J, Wang JJ, Yan YJ, He HR, Wang XJ, Xiang WS (2013)
Streptomyces bingchenggensis: overexpression and preliminary Genetic engineering of Streptomyces bingchenggensis to pro-
characterization. Biotechnol Lett 32(10):1497–1502. https://doi. duce milbemycins A3/A4 as main components and eliminate
org/10.1007/s10529-010-0320-y the biosynthesis of nanchangmycin. Appl Microbiol Biotechnol
Wang XJ, Yan YJ, Zhang B, An J, Wang JJ, Tian J, Jiang L, Chen YH, 97(23):10091–10101. https://d oi.o rg/1 0.1 007/s 00253-0 13-5 255-5
Huang SX, Yin M, Zhang J, Gao AL, Liu CX, Zhu ZX, Xiang Zhang J, Yan YJ, An J, Huang SX, Wang XJ, Xiang WS (2015)
WS (2010b) Genome sequence of the milbemycin-producing bac- Designed biosynthesis of 25-methyl and 25-ethyl ivermectin
terium Streptomyces bingchenggensis. J Bacteriol 192(17):4526– with enhanced insecticidal activity by domain swap of avermectin
4527. https://doi.org/10.1128/JB.00596-10 polyketide synthase. Microb Cell Fact 14:152. https://doi.org/10.
Wang XJ, Zhang B, Yan YJ, An J, Zhang J, Liu CX, Xiang WS (2013) 1186/s12934-015-0337-y
Characterization and analysis of an industrial strain of Streptomy- Zhang YY, He HR, Liu H, Wang HY, Wang XJ, Xiang WS (2016)
ces bingchenggensis by genome sequencing and gene microarray. Characterization of a pathway-specific activator of milbemycin
Genome 56(11):677–689. https://doi.org/10.1139/gen-2013-0098 biosynthesis and improved milbemycin production by its over-
Wang HY, Zhang J, Zhang YJ, Zhang B, Liu CX, He HR, Wang XJ, expression in Streptomyces bingchenggensis. Microb Cell Fact
Xiang WS (2014) Combined application of plasma mutagenesis 15(1):152. https://doi.org/10.1186/s12934-016-0552-1
and gene engineering leads to 5-oxomilbemycins A3/A4 as main Zhao JH, Xu XJ, Ji MH, Cheng JL, Zhu GN (2011) Design, synthesis,
components from Streptomyces bingchenggensis. Appl Micro- and biological activities of milbemycin analogues. J Agric Food
biol Biotechnol 98(23):9703–9712. https://d oi.o rg/1 0.1 007/ Chem 59(9):4836–4850. https://doi.org/10.1021/jf2001926
s00253-014-5970-6
Wang HY, Cheng X, Liu YQ, Li SS, Zhang YY, Wang XJ, Xiang Publisher's Note Springer Nature remains neutral with regard to
WS (2020) Improved milbemycin production by engineering jurisdictional claims in published maps and institutional affiliations.
two Cytochromes P450 in Streptomyces bingchenggensis. Appl
Microbiol Biotechnol 104(7):2935–2946. https://d oi.o rg/1 0.1 007/
s00253-020-10410-8
13