JCVI-Syn3.0 genes (E. coli codon optimized)

JCVI-Syn3.0 genes (E. coli codon optimized)

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395 essential genes from synthetic bacterium JCVI-Syn3A, codon optimized for Escherichia coli in MoClo-compatible high-copy ampicillin resistance backbones. Shipped in Escherichia coli Top10 in 6 96 well plates.

For nearly 20 years, the J. Craig Venter Institute (JCVI) worked on creating a minimal synthetic bacterial genome, which they finally achieved in 2016. They named it JCVI-Syn3.0, though the organism JCVI-Syn3A, which is JCVI-Syn3.0 with 16 addition genes, is more commonly used because it has a more stable phenotype[1]. All 493 genes in JCVI-Syn3.0 are essential for growth and 149 of those gene's functions are unknown.  

All the essential genes have been recoded for expression in Escherichia coli and have been made MoClo compatible. There are many possible applications for these genes: you could try to recreate essential gene pathways in-vitro, or purify the proteins for functional studies, or create a synthetic MoClo-compatible Mycoplasma genome.

Recoding was done using scripts that stochastically assigned codons to amino acids. The codon table used was the FreqB table from "Design Parameters to Control Synthetic Gene Expression in Escherichia coli", which was used because it was shown to express proteins well and was recommended to us by JCVI. All genes where inserted into the BbsI:BbsI cloning sites of pOpen_build, which is individually available through our website. 395 of the 510 JCVI-Syn3A genes are included in this distribution, 14 of which do not exist in JCVI-Syn3.0. A gene map of this distribution is attached called "freegenes-jcvi-syn3a.csv". The genes added to JCVI-Syn3.0 to make JCVI-Syn3A are attached in excel spreadsheet "Genes added to JCVI-syn3.0 to make JCVI-syn3A.xlsx", which was kindly provided by John Glass at JCVI.

NOTES:
[1] John Glass, one of the leaders of the minimal genome project, noted: "Note that 2 of the genes we added to JCVI-syn3.0 to make JCVI-syn3A, which has a  more stable phenotype, are pseudogenes. I see no reason for you to remake those genes since they can just be PCR amplified from genomic DNA; although Drew may think we should make them anyway. Note that one of those pseudogenes appears to actually be synthesized. JCVISYN3A_0602, which is a pseudogene. We know that if this gene is removed from JCVI-syn3A we get the giant cell phenotype rather than the more normal JCVI-syn3A phenotype. We know because of multiple genome sequences, that there is a frameshift in the gene relative to the same gene in other Mycoplasma mycoides strains. Still, it could be that there is some RNA editing to produce the protein. Thus, I would like you to make the protein that we think JCVISYN3A_0602 was supposed to encode."

This product is made available under the unilateral OpenMTA. Read Terms of Service at the bottom of the page for details.

395 unique parts

Plate Layout

Instructions for Use:

Culture at 37C overnight, with shaking at around 300rpm. The selection marker for all parts is ampicillin.



PlateSet: FG_JCVISYN3-distro-5 FG_JCVISYN3-distro-3 FG_JCVISYN3-distro-1 FG_JCVISYN3-distro-2 FG_JCVISYN3-distro-0 FG_JCVISYN3-distro-4

Genes

Gene Name NCBI ID
MMSYN1_0001 AMW76285.1
MMSYN1_0002 AMW76286.1
MMSYN1_0003 AMW76287.1
MMSYN1_0005 AMW76289.1
MMSYN1_0007 AMW76291.1
MMSYN1_0008 AMW76292.1
MMSYN1_0009 AMW76293.1
MMSYN1_0010 AMW76294.1
MMSYN1_0011 AMW76295.1
MMSYN1_0012 AMW76296.1
MMSYN1_0029 AMW76300.1
MMSYN1_0033 AMW76302.1
MMSYN1_0034 AMW76303.1
MMSYN1_0039 AMW76304.1
MMSYN1_0040 AMW76305.1
MMSYN1_0042 AMW76306.1
MMSYN1_0043 AMW76307.1
MMSYN1_0044 AMW76308.1
MMSYN1_0045 AMW76309.1
MMSYN1_0046 AMW76310.1
MMSYN1_0047 AMW76311.1
MMSYN1_0054 AMW76312.1
MMSYN1_0060 AMW76313.1
MMSYN1_0061 AMW76314.1
MMSYN1_0063 AMW76315.1
MMSYN1_0065 AMW76317.1
MMSYN1_0066 AMW76318.1
MMSYN1_0077 AMW76320.1
MMSYN1_0079 AMW76321.1
MMSYN1_0094 AMW76325.1
MMSYN1_0097 AMW76327.1
MMSYN1_0106 AMW76329.1
MMSYN1_0107 AMW76330.1
MMSYN1_0108 AMW76331.1
MMSYN1_0109 AMW76332.1
MMSYN1_0113 AMW76333.1
MMSYN1_0115 AMW76335.1
MMSYN1_0116 AMW76336.1
MMSYN1_0117 AMW76337.1
MMSYN1_0126 AMW76338.1
MMSYN1_0127 AMW76339.1
MMSYN1_0128 AMW76340.1
MMSYN1_0129 AMW76341.1
MMSYN1_0131 AMW76342.1
MMSYN1_0132 AMW76343.1
MMSYN1_0133 AMW76344.1
MMSYN1_0138 AMW76346.1
MMSYN1_0139 AMW76347.1
MMSYN1_0141 AMW76349.1
MMSYN1_0142 AMW76350.1
MMSYN1_0143 AMW76351.1
MMSYN1_0144 AMW76352.1
MMSYN1_0145 AMW76353.1
MMSYN1_0146 AMW76354.1
MMSYN1_0147 AMW76355.1
MMSYN1_0148 AMW76356.1
MMSYN1_0150 AMW76358.1
MMSYN1_0151 AMW76359.1
MMSYN1_0154 AMW76531.1
MMSYN1_0163 AMW76360.1
MMSYN1_0164 AMW76361.1
MMSYN1_0165 AMW76362.1
MMSYN1_0166 AMW76363.1
MMSYN1_0167 AMW76364.1
MMSYN1_0168 AMW76365.1
MMSYN1_0196 AMW76368.1
MMSYN1_0197 AMW76369.1
MMSYN1_0198 AMW76370.1
MMSYN1_0200 AMW76372.1
MMSYN1_0202 AMW76374.1
MMSYN1_0203 AMW76375.1
MMSYN1_0213
MMSYN1_0214 AMW76377.1
MMSYN1_0215 AMW76378.1
MMSYN1_0216 AMW76379.1
MMSYN1_0218 AMW76380.1
MMSYN1_0220 AMW76381.1
MMSYN1_0221 AMW76382.1
MMSYN1_0227 AMW76384.1
MMSYN1_0228 AMW76385.1
MMSYN1_0229 AMW76386.1
MMSYN1_0230 AMW76387.1
MMSYN1_0233 AMW76388.1
MMSYN1_0234 AMW76389.1
MMSYN1_0238 AMW76391.1
MMSYN1_0239 AMW76392.1
MMSYN1_0240 AMW76393.1
MMSYN1_0247 AMW76394.1
MMSYN1_0248 AMW76395.1
MMSYN1_0253 AMW76398.1
MMSYN1_0254 AMW76399.1
MMSYN1_0257 AMW76400.1
MMSYN1_0259 AMW76401.1
MMSYN1_0260 AMW76402.1
MMSYN1_0262 AMW76403.1
MMSYN1_0263 AMW76404.1
MMSYN1_0264 AMW76405.1
MMSYN1_0270 AMW76406.1
MMSYN1_0271 AMW76407.1
MMSYN1_0281 AMW76408.1
MMSYN1_0282 AMW76409.1
MMSYN1_0283 AMW76410.1
MMSYN1_0285 AMW76411.1
MMSYN1_0286 AMW76412.1
MMSYN1_0287 AMW76413.1
MMSYN1_0288 AMW76414.1
MMSYN1_0289 AMW76415.1
MMSYN1_0290 AMW76416.1
MMSYN1_0291 AMW76417.1
MMSYN1_0296 AMW76419.1
MMSYN1_0298 AMW76421.1
MMSYN1_0300 AMW76423.1
MMSYN1_0301 AMW76424.1
MMSYN1_0302 AMW76425.1
MMSYN1_0304 AMW76427.1
MMSYN1_0305 AMW76428.1
MMSYN1_0308 AMW76429.1
MMSYN1_0314 AMW76430.1
MMSYN1_0316 AMW76432.1
MMSYN1_0325 AMW76434.1
MMSYN1_0326 AMW76435.1
MMSYN1_0327 AMW76436.1
MMSYN1_0328 AMW76437.1
MMSYN1_0329 AMW76438.1
MMSYN1_0330 AMW76439.1
MMSYN1_0332 AMW76440.1
MMSYN1_0338 AMW76441.1
MMSYN1_0344 AMW76442.1
MMSYN1_0345 AMW76443.1
MMSYN1_0346 AMW76444.1
MMSYN1_0352 AMW76448.1
MMSYN1_0353 AMW76449.1
MMSYN1_0359 AMW76450.1
MMSYN1_0360 AMW76451.1
MMSYN1_0361 AMW76452.1
MMSYN1_0363 AMW76454.1
MMSYN1_0364 AMW76455.1
MMSYN1_0365 AMW76456.1
MMSYN1_0366 AMW76457.1
MMSYN1_0371 AMW76458.1
MMSYN1_0373 AMW76460.1
MMSYN1_0375 AMW76461.1
MMSYN1_0376 AMW76462.1
MMSYN1_0378 AMW76464.1
MMSYN1_0380 AMW76466.1
MMSYN1_0381 AMW76467.1
MMSYN1_0387 AMW76469.1
MMSYN1_0388 AMW76470.1
MMSYN1_0389 AMW76471.1
MMSYN1_0390 AMW76472.1
MMSYN1_0391 AMW76473.1
MMSYN1_0392 AMW76474.1
MMSYN1_0394 AMW76475.1
MMSYN1_0398
MMSYN1_0401 AMW76479.1
MMSYN1_0402 AMW76480.1
MMSYN1_0403 AMW76481.1
MMSYN1_0404 AMW76482.1
MMSYN1_0405 AMW76483.1
MMSYN1_0406 AMW76484.1
MMSYN1_0407 AMW76485.1
MMSYN1_0408 AMW76486.1
MMSYN1_0409 AMW76487.1
MMSYN1_0410 AMW76488.1
MMSYN1_0411 AMW76489.1
MMSYN1_0412 AMW76490.1
MMSYN1_0413 AMW76491.1
MMSYN1_0416 AMW76494.1
MMSYN1_0418 AMW76495.1
MMSYN1_0420 AMW76497.1
MMSYN1_0421 AMW76498.1
MMSYN1_0424 AMW76500.1
MMSYN1_0425 AMW76501.1
MMSYN1_0426 AMW76502.1
MMSYN1_0427 AMW76503.1
MMSYN1_0428 AMW76504.1
MMSYN1_0430 AMW76506.1
MMSYN1_0431 AMW76507.1
MMSYN1_0434 AMW76510.1
MMSYN1_0435 AMW76511.1
MMSYN1_0437 AMW76512.1
MMSYN1_0438 AMW76513.1
MMSYN1_0439 AMW76514.1
MMSYN1_0441 AMW76516.1
MMSYN1_0442 AMW76517.1
MMSYN1_0443 AMW76518.1
MMSYN1_0444 AMW76519.1
MMSYN1_0445 AMW76520.1
MMSYN1_0447 AMW76521.1
MMSYN1_0448 AMW76522.1
MMSYN1_0451 AMW76523.1
MMSYN1_0452 AMW76524.1
MMSYN1_0475 AMW76526.1
MMSYN1_0478 AMW76527.1
MMSYN1_0479 AMW76528.1
MMSYN1_0481 AMW76529.1
MMSYN1_0493 AMW76532.1
MMSYN1_0494 AMW76533.1
MMSYN1_0495 AMW76534.1
MMSYN1_0501 AMW76537.1
MMSYN1_0503 AMW76538.1
MMSYN1_0504 AMW76539.1
MMSYN1_0511 AMW76541.1
MMSYN1_0512 AMW76542.1
MMSYN1_0513 AMW76543.1
MMSYN1_0515 AMW76544.1
MMSYN1_0517 AMW76546.1
MMSYN1_0518 AMW76547.1
MMSYN1_0523 AMW76549.1
MMSYN1_0524 AMW76550.1
MMSYN1_0525 AMW76551.1
MMSYN1_0528 AMW76553.1
MMSYN1_0529 AMW76554.1
MMSYN1_0530 AMW76555.1
MMSYN1_0531
MMSYN1_0535 AMW76557.1
MMSYN1_0536 AMW76558.1
MMSYN1_0539 AMW76560.1
MMSYN1_0540 AMW76561.1
MMSYN1_0541 AMW76562.1
MMSYN1_0542 AMW76563.1
MMSYN1_0543 AMW76564.1
MMSYN1_0544 AMW76565.1
MMSYN1_0545 AMW76566.1
MMSYN1_0601 AMW76569.1
MMSYN1_0606 AMW76570.1
MMSYN1_0607 AMW76571.1
MMSYN1_0608 AMW76572.1
MMSYN1_0609 AMW76573.1
MMSYN1_0611 AMW76574.1
MMSYN1_0612 AMW76575.1
MMSYN1_0613 AMW76576.1
MMSYN1_0614 AMW76577.1
MMSYN1_0615 AMW76578.1
MMSYN1_0616 AMW76579.1
MMSYN1_0617 AMW76580.1
MMSYN1_0620 AMW76581.1
MMSYN1_0632 AMW76583.1
MMSYN1_0634 AMW76584.1
MMSYN1_0636 AMW76585.1
MMSYN1_0637 AMW76586.1
MMSYN1_0638 AMW76587.1
MMSYN1_0639 AMW76588.1
MMSYN1_0640 AMW76589.1
MMSYN1_0641 AMW76590.1
MMSYN1_0642 AMW76591.1
MMSYN1_0643 AMW76592.1
MMSYN1_0644 AMW76593.1
MMSYN1_0645 AMW76594.1
MMSYN1_0646 AMW76595.1
MMSYN1_0647 AMW76596.1
MMSYN1_0650 AMW76599.1
MMSYN1_0651
MMSYN1_0652 AMW76601.1
MMSYN1_0653 AMW76602.1
MMSYN1_0654 AMW76603.1
MMSYN1_0655 AMW76604.1
MMSYN1_0656 AMW76605.1
MMSYN1_0657 AMW76606.1
MMSYN1_0659 AMW76608.1
MMSYN1_0660 AMW76609.1
MMSYN1_0661 AMW76610.1
MMSYN1_0663 AMW76612.1
MMSYN1_0664 AMW76613.1
MMSYN1_0665 AMW76614.1
MMSYN1_0666 AMW76615.1
MMSYN1_0668 AMW76617.1
MMSYN1_0670 AMW76619.1
MMSYN1_0671 AMW76620.1
MMSYN1_0672 AMW76621.1
MMSYN1_0684 AMW76622.1
MMSYN1_0685 AMW76623.1
MMSYN1_0686 AMW76624.1
MMSYN1_0687 AMW76625.1
MMSYN1_0688 AMW76626.1
MMSYN1_0690 AMW76628.1
MMSYN1_0691 AMW76629.1
MMSYN1_0692 AMW76630.1
MMSYN1_0693 AMW76631.1
MMSYN1_0695 AMW76633.1
MMSYN1_0696 AMW76634.1
MMSYN1_0697 AMW76635.1
MMSYN1_0706 AMW76636.1
MMSYN1_0707 AMW76637.1
MMSYN1_0708 AMW76638.1
MMSYN1_0710 AMW76639.1
MMSYN1_0727 AMW76641.1
MMSYN1_0729 AMW76643.1
MMSYN1_0730 AMW76644.1
MMSYN1_0732 AMW76645.1
MMSYN1_0733 AMW76646.1
MMSYN1_0747 AMW76647.1
MMSYN1_0772 AMW76649.1
MMSYN1_0773 AMW76650.1
MMSYN1_0775 AMW76652.1
MMSYN1_0776 AMW76653.1
MMSYN1_0777 AMW76654.1
MMSYN1_0779 AMW76656.1
MMSYN1_0787 AMW76657.1
MMSYN1_0789 AMW76658.1
MMSYN1_0790 AMW76659.1
MMSYN1_0791 AMW76660.1
MMSYN1_0792 AMW76661.1
MMSYN1_0793 AMW76662.1
MMSYN1_0794 AMW76663.1
MMSYN1_0795 AMW76664.1
MMSYN1_0796 AMW76665.1
MMSYN1_0798 AMW76667.1
MMSYN1_0799 AMW76668.1
MMSYN1_0800 AMW76669.1
MMSYN1_0803 AMW76670.1
MMSYN1_0805 AMW76672.1
MMSYN1_0807 AMW76674.1
MMSYN1_0809 AMW76675.1
MMSYN1_0810 AMW76676.1
MMSYN1_0813 AMW76677.1
MMSYN1_0814 AMW76678.1
MMSYN1_0817 AMW76679.1
MMSYN1_0818 AMW76680.1
MMSYN1_0819 AMW76681.1
MMSYN1_0821 AMW76683.1
MMSYN1_0822 AMW76684.1
MMSYN1_0823 AMW76685.1
MMSYN1_0824 AMW76686.1
MMSYN1_0825 AMW76687.1
MMSYN1_0826 AMW76688.1
MMSYN1_0827 AMW76689.1
MMSYN1_0831 AMW76691.1
MMSYN1_0832 AMW76692.1
MMSYN1_0833 AMW76693.1
MMSYN1_0834 AMW76694.1
MMSYN1_0835 AMW76695.1
MMSYN1_0836 AMW76696.1
MMSYN1_0837 AMW76697.1
MMSYN1_0838 AMW76698.1
MMSYN1_0839 AMW76699.1
MMSYN1_0840 AMW76700.1
MMSYN1_0853 AMW76703.1
MMSYN1_0870 AMW76705.1
MMSYN1_0872 AMW76706.1
MMSYN1_0874 AMW76708.1
MMSYN1_0875 AMW76709.1
MMSYN1_0876 AMW76710.1
MMSYN1_0877 AMW76711.1
MMSYN1_0879 AMW76713.1
MMSYN1_0881 AMW76714.1
MMSYN1_0885 AMW76715.1
MMSYN1_0886 AMW76716.1
MMSYN1_0887 AMW76717.1
MMSYN1_0906 AMW76718.1
MMSYN1_0907 AMW76719.1
MMSYN1_0908 AMW76720.1
MMSYN1_0648 AMW76597.1
MMSYN1_0689 AMW76627.1
MMSYN1_0910 AMW76722.1
MMSYN1_0235 AMW76390.1
MMSYN1_0669 AMW76618.1
MMSYN1_0315 AMW76431.1
MMSYN1_0774 AMW76651.1
MMSYN1_0482 AMW76530.1
MMSYN1_0299 AMW76422.1
MMSYN1_0499 AMW76535.1
MMSYN1_0851 AMW76701.1
MMSYN1_0379 AMW76465.1
MMSYN1_0137 AMW76345.1
MMSYN1_0362 AMW76453.1
MMSYN1_0350 AMW76447.1
MMSYN1_0873 AMW76707.1
MMSYN1_0694 AMW76632.1
MMSYN1_0667 AMW76616.1
MMSYN1_0621 AMW76582.1
MMSYN1_0294 AMW76418.1
MMSYN1_0080 AMW76322.1
MMSYN1_0649 AMW76598.1
MMSYN1_0830 AMW76690.1
MMSYN1_0662 AMW76611.1
MMSYN1_0852 AMW76702.1
MMSYN1_0778 AMW76655.1
MMSYN1_0797 AMW76666.1
MMSYN1_0317 AMW76433.1
MMSYN1_0082 AMW76324.1
JCVISYN3A_0520
JCVISYN3A_0521
JCVISYN3A_0522
JCVISYN3A_0527
JCVISYN3A_0538
JCVISYN3A_0548
JCVISYN3A_0549
JCVISYN3A_0592
JCVISYN3A_0593
JCVISYN3A_0604
JCVISYN3A_0605
JCVISYN3A_0610
JCVISYN3A_0622
JCVISYN3A_0623

 

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