Part:BBa_K417000:Experience
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Group: ZJU-China 2015
Author: ZJU-China 2015
Preface:
The part BBa_K417000 just briefly introduced metK and its output SAMsynth. The specific function and principle of SAMsynth (S-adenosylmethionine synthetase) isn't mentioned. Furthermore, the 3D structure and other detailed information isn't included, which may bring much inconvenience to potential users. Thus, connected with our project, we added plenty of related information of metK and sincerely wish to give a hand to future users.
Summary:
1. characterize the output of metK in a novel chassis: Streptomyces avermitilis
2. create a visualization of S-adenosylmethionine synthetase
3. add the 2D PAGE maps for the output of metK in E.coli
Documentation
Part 1 characterization: the output of metK in Streptomyces avermitilis
Background
metK: S-adenosylmethionine synthetase encoding gene
metK is the gene encoding S-adenosylmethionine synthetase, which has been found in almost every organism. Its output catalyzes the formation of S-adenosylmethionine from methionine and ATP.
In Streptomyces avermitilis, it was found to stimulate the production of avermectins. When wild-type S. avermitilis strain ATCC31267 was transformed with pYJ02 and pYJ03, two metK expression plasmids, avermectin production was increased about 2.0-fold and 5.5-fold compared with that in the control strains, respectively.
As for the principle of improving the productivity, instead of changing cell growth or copy effect, metK stimulates the avermectin production by increasing the intracellular concentration of S-adenosylmethionine (SAM), an important intermediate product in avermectin production. However, there may be a maximum concentration of SAM for the production of avermectin in S. avermitilis, which means that SAM has no effect when its concentration achieve maximum.
host of avermectin——Streptomyces avermitilis
Streptomyces avermitilis, a soil-dwelling gram-positive microorganism, is a rich source of numerous secondary metabolites. Now it has been industrialized to produce the commercially important antiparasitic agent avermectin. Early in 2003, the complete genome of Streptomyces avermitilis had been sequenced.
avermectin: effective and broad-spectrum pesticide
For years, people always adopt the organochlorine pesticides such as chlordane and mirex to achieve prevention and control of termites, but these organochlorine pesticides will produce pollution and potential harm to the environment. Avermectin is a new type of high efficient biological pesticide, which has good control effect to the termites and other pests, and no pollution to the environment.
Experiment: Avermectin manufacture in S. avermitilis
Purpose
We attempt to test the function of metK gene by improving the yield of avermectin in S. avermitilis. Because as it has been described in research paper, metK was found to stimulate the production of avermectins. For one thing, being a secondary metabolite produced by Streptomyces avermitilis, avermectin is regulated by an 80kb gene cluster, making it difficult to express in other standardized strains, for instance, Escherichia coli. For another, the avermectin yield in wild type S. avermitilis strain is comparatively low. Therefore, we plan to engineer the wild S. avermitilis with metK to improve the yield of avermectin.Circuit design
promoter: ermEp
We chose ermEp, a strong constitutive promoter, to overexpress the three genes in S.avermitilis. It should be noticed that ermEp can only be expressed in S.avermitilis strains instead of Escherichia coli or any other chassis
backbone: PL96 and PL97
.PL96 and PL97 are two high-copy vectors we used to overexpress our target genes. We get these vectors through commercial purchase. These vectors have pUC18 and pIJ101 replication origins for high-copy plasmid number in Escherichia coli and S.avermitilis, respectively, and the oriT (RK2) allows the efficient and convenient plasmid transfer from E.coli to S.avermitilis.
To be noticed, we use special antibiotic aparamycin to choose final transformants. And there are aparamycin resistent gene acc in the backbone.
expression
In order to construct and express the three gene in S.avermitilis, we have adopted two hosts, E.coli DH5αand E.coli ET12567. Then the target vectors are transferred from E.coli ET12567 to S.avermitilis by conjugation.
primary host: E.coli DH5α
As usual, we use E.coli DH5α to get plentiful recombinants in high quality and quantity.
intermedia host: E.coli ET12567
E.coli ET12567 is a methylase-negative donor strain first used by MacNeil in 1988. And we use E.coli ET12567 to demethylation the recombinants to better suit the methyl-specific restriction system in S.avermitilis.
conjugation
Bacterial conjugation is the transfer of genetic material between bacterial cells by direct cell-to-cell contact or by a bridge-like connection between two cells. During conjugation the donor cell provides a conjugative or mobilizable genetic element that is most often a plasmid or transposon. In laboratories, successful transfers have been reported from bacteria to yeast, plants, mammalian cells, etc.
In our project, we use the conjugation between E.coli ET12567 and S.avermitilisi to overexpress three target genes.
circuit construction
STEP ONE: PCR
We amplify the target gene from the genome of S.avermitilisi by PCR.
STEP TWO: TA CLONING
We use TA cloning to efficiently clone the PCR products. In TA cloning, we use pMD19-T Vector, a vector transformed from pUC19 vector, to improve the efficiency of digestion and connection. As a result, we get three recombinant vectors of target genes and pMD19-T.
We digest the three recombinants and backbone PL96 with restriction enzymes NdeI, XbaI, then connect the fragments and backbone. Similarly, we use NdeI, HindⅢ to digest the three recombinants and backbone PL97 and connect the corresponding product. Then we get the target plasmids.
For more detailed protocols, please go to【超链接到队伍wiki的protocol页面】.
Result
Gel electrophoretic analysis
We successfully constructed the plasmid (PL96 and PL97) containing metK (sequence is shown in the part BBa_K1668001) gene in E.coli DH5α and E.coli ET12567. Then by transforming it into S.avermitilis through conjugation, metK can be successfully expressed in a brand new chassis.
Part 2 a visualization of S-adenosylmethionine synthetase in E.coli
We have found the 3D molecular graphic (Fig.10) and interaction figure (Fig.11) of S-adenosylmethionine synthetase in NCBI database. http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?uid=52023
Part 3 2DPAGE maps for the output of metK in E.coli
We have found the 2DPAGE maps for S-adenosylmethionine synthetase in E.coli. You can click on a highlighted spot in the figure from the website listed below to access all the associated protein entries of the spot.
http://world-2dpage.expasy.org/swiss-2dpage/viewer&map=ECOLI4.5-5.5&ac=P0A817
Uploads
http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?uid=52023
http://world-2dpage.expasy.org/swiss-2dpage/viewer&map=ECOLI4.5-5.5&ac=P0A817
Reference:
https://static.igem.org/mediawiki/parts/0/03/Overexpression_of_metK_shows_different_effects_on_avermectin_production_in_various_Streptomyces_avermitilis_strains.pdf
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