RMgmDB - Rodent Malaria genetically modified Parasites

Summary

RMgm-4946
Malaria parasiteP. yoelii
Genotype
Transgene
Transgene not Plasmodium: the plant Oryza sativa auxin receptor transport inhibitor response 1 (TIR1)
Promoter: Gene model: PY17X_1040200; Gene model (P.falciparum): PF3D7_1404300; Gene product: secreted ookinete adhesive protein, putative (soap)
3'UTR: Gene model: PY17X_0719300; Gene product: bifunctional dihydrofolate reductase-thymidylate synthase, putative (DHFR-TS)
Insertion locus: Gene model: PY17X_0306600; Gene product: 6-cysteine protein P230p
Phenotype Fertilization and ookinete;
Last modified: 16 December 2020, 15:35
  *RMgm-4946
Successful modificationThe parasite was generated by the genetic modification
The mutant contains the following genetic modification(s) Introduction of a transgene
Reference (PubMed-PMID number) Reference 1 (PMID number) : 33307135
MR4 number
Parent parasite used to introduce the genetic modification
Rodent Malaria ParasiteP. yoelii
Parent strain/lineP. y. yoelii 17XNL
Name parent line/clone Not applicable
Other information parent line
The mutant parasite was generated by
Name PI/ResearcherLiu C, Yuan J
Name Group/DepartmentState Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signal Network, School o
Name InstituteXiamen University
CityXiamen, Fujian
CountryChina
Name of the mutant parasite
RMgm numberRMgm-4946
Principal namesoap-Tir1-Tir1
Alternative name
Standardized name
Is the mutant parasite cloned after genetic modificationNo
Phenotype
Asexual blood stageNot different from wild type
Gametocyte/GameteNot different from wild type
Fertilization and ookineteTir1::Flag fusion protein is highly expressed in ookinetes
OocystNot tested
SporozoiteNot tested
Liver stageNot tested
Additional remarks phenotype

Mutant/mutation
The mutant expresses the plant auxin receptor transport inhibitor response 1 (Oryza sativa TIR1) under control of the ookinete specific soap promoter. The TIR1 is (C-terminal) tagged with FLAG 
 
Protein (function)
The plant hormone auxin induces rapid proteasomal degradation of certain proteins by a specific E3 ubiquitin ligase. To implement this system in Plasmodium, only two transgenic components are needed: a plant auxin receptor called transport inhibitor response 1 (TIR1) and a proteins of interest (POI) tagged with an AID. In these engineered parasite lines stably expressing the plant TIR1, the auxin functions as a molecular glue promoting specific interaction between the ubiquitin ligase complex and AID-tagged POI, which triggers proteasomal degradation of the latter.

Phenotype
Tir1::Flag fusion protein is highly expressed in ookinetes. Transgenic parasites showed a normal phenotype during development in blood, mosquito and liver.

Additional information
We used the CRISPR/Cas9 method to tag two genes, cdc50c (PY17X_0514500) and fbxo1 (PY17X_1120000) with the AID motif and interrogate the expression of these two proteins with auxin. The eef1a-Tir1 line allows efficient degradation of the AID-tagged endogenous protein in the asexual schizont and sexual gametocyte stages, while the soap-Tir1 line allows protein degradation in the ookinetes.
To generate the plasmid for tagging the cdc50c (PY17X_0514500) with an AID degron and sextuple HA fusing epitope (AID::6HA), the C-terminal 518 bp of coding region and 529 bp of the 3’UTR of the cdc50c gene were amplified as the homologous left and right arm, respectively. One sgRNA was designed to target the Cterminal coding region of cdc50c genes. To generate the plasmid for tagging the fbxo1 (PY17X_ 1120000) with the AID::6HA, the C-terminal 498 bp of coding region and 521 bp of the 3’UTR of the fbxo1 gene were amplified as the homologous left and right arm, respectively. One sgRNA was designed to target the C-terminal coding region of fbxo1 genes.
To assess the degradation kinetics of targeting proteins, the asexual blood stage parasites, schizonts, gametocytes, and ookinete culture were incubated with 1 or 4 mM IAA (auxin; Indole 3-acetic acid, Sigma Aldrich, I2886) at 37℃. 

We noticed that in the ookinetes of eef1a-Tir1/cdc50c::aid parasites, we failed to detect a  clear depletion of 50C-AID even after 3 hours of auxin treatment, which is likely due to the relatively lower Tir1 expression in the ookinetes compared to that in the asexual blood stage and gametocytes. Therefore, we attempted to engineer a transgenic line to achieve higher Tir1 expression in the ookinetes. To that end, we used the promoter of soap (PY17X_1040200), a gene specifically and highly expressed in the ookinetes and early oocysts, to drive the Tir1 expression. Using the CRISPR/Cas9 method, we replaced the eef1a promoter with the soap promoter (1999bp) at the upstream of Tir1 in the eef1a-Tir1 parasites (RMgm-4945), and generated a new line designated as soap-Tir1 (RMgm-4946). As expected, the Tir1 protein is highly expressed in the ookinetes, but not in the asexual blood stage of the soap-Tir1 parasites 

Other mutants


  Transgene: Mutant parasite expressing a transgene
Type and details of transgene
Is the transgene Plasmodium derived Transgene: not Plasmodium
Transgene namethe plant Oryza sativa auxin receptor transport inhibitor response 1 (TIR1)
Details of the genetic modification
Inducable system usedNo
Additional remarks inducable system
Type of plasmid/constructCRISPR/Cas9 construct: integration through double strand break repair
PlasmoGEM (Sanger) construct/vector usedNo
Modified PlasmoGEM construct/vector usedNo
Plasmid/construct map
Plasmid/construct sequence
Restriction sites to linearize plasmid
Selectable marker used to select the mutant parasitehdhfr/yfcu
Promoter of the selectable markereef1a
Selection (positive) procedurepyrimethamine
Selection (negative) procedure5-fluorocytosine (5-FC)
Additional remarks genetic modificationThe CRISPR/Cas9 plasmid pYCm was used to edit the parasite genome. To generate the plasmid for deleting the gene p230p (PY17X_0306600), a 973 bp of the 5’ untranslational region (UTR) upstream the initiation codon and an 857 bp of the 3’UTR following the translation stop codon were amplified as the homologous left and right arm, respectively. The left and right arms were inserted into the pYCm plasmid. Eight single guide RNAs (sgRNAs) were designed to target the coding region of the p230p gene. To generate the plasmid for replacing the coding region of p230p gene with the Tir1 expression cassette, the coding sequence of Tir1 was amplified from the Oryza sativa genome, tagged with a Flag epitope sequence, and put under the control of both the 5’UTR (promoter) of eef1a (551 bp) and the 3’UTR of the dhfr (456 bp). The Tir1 expression cassette was inserted between the left and right homologous arms in the pYCm plasmid.
We noticed that in the ookinetes of eef1a-Tir1/cdc50c::aid parasites, we failed to detect a clear depletion of 50C-AID even after 3 hours of auxin treatment, which is likely due to the relatively lower Tir1 expression in the ookinetes compared to that in the asexual blood stage and gametocytes. Therefore, we attempted to engineer a transgenic line to achieve higher Tir1 expression in the ookinetes. To that end, we used the promoter of soap (PY17X_1040200), a gene specifically and highly expressed in the ookinetes and early oocysts, to drive the Tir1 expression. Using the CRISPR/Cas9 method, we replaced the eef1a promoter with the soap promoter (1999bp) at the upstream of Tir1 in the eef1a-Tir1 parasites (RMgm-4945), and generated a new line designated as soap-Tir1 (RMgm-4946). As expected, the Tir1 protein is highly expressed in the ookinetes, but not in the asexual blood stage of the soap-Tir1 parasites
Additional remarks selection procedurePurified parasites were electroporated with 5 ug circular plasmid DNA, immediately injected i.v. into a naïve mouse, and subjected to selection with pyr provided in drinking water at a concentration of 6 mg/L from day 2 after electroporation. Pyr resistant parasites usually appear 5–6 days after drug selection. Parasite genomic DNAs from infected mouse blood were isolated and used for PCR genotyping. Correct 5’ and 3’ integrations were confirmed by PCR To remove the plasmids within the transfected parasites after prior pyr drug selection, parasites were subjected to negative selection with 5-fluorocytosine (5-FC, Sigma Aldrich, F6627). 5-FC was prepared in water at a final concentration of 2.0 mg/ml and was provided to the animals in a dark drinking bottle. A naïve mouse receiving parasites containing residual plasmids after Pyr selection was subjected to 5-FC pressure for 8 days, with a change of new drug at day 4. Complete removal of plasmids in parasites was confirmed by PCR genotyping
Other details transgene
Promoter
Gene Model of Parasite PY17X_1040200
Gene Model P. falciparum ortholog PF3D7_1404300
Gene productsecreted ookinete adhesive protein, putative
Gene product: Alternative namesoap
Primer information details of the primers used for amplification of the promoter sequence  Click to view information
Primer information details of the primers used for amplification of the promoter sequence  Click to hide information
Sequence Primer 1
Additional information primer 1
Sequence Primer 2
Additional information primer 2
3'-UTR
Gene Model of Parasite PY17X_0719300
Gene productbifunctional dihydrofolate reductase-thymidylate synthase, putative
Gene product: Alternative nameDHFR-TS
Primer information details of the primers used for amplification the 3'-UTR sequences  Click to view information
Primer information details of the primers used for amplification the 3'-UTR sequences  Click to hide information
Sequence Primer 1
Additional information primer 1
Sequence Primer 2
Additional information primer 2
Insertion/Replacement locus
Replacement / InsertionInsertion locus
Gene Model of Parasite PY17X_0306600
Gene product6-cysteine protein P230p
Gene product: Alternative name
Primer information details of the primers used for amplification of the target sequences  Click to view information
Primer information details of the primers used for amplification of the target sequences  Click to hide information
Sequence Primer 1
Additional information primer 1
Sequence Primer 2
Additional information primer 2
Sequence Primer 3
Additional information primer 3
Sequence Primer 4
Additional information primer 4