Coordinator: Jonathan Landry
Genomics Core Facility
European Molecular Biology Laboratory (EMBL)
Meyerhofstraße 1 | D-69117 Heidelberg | Germany
phone: + 49 6221 387- 8854
Although the insect derived cell-lines from Spodoptera frugiperda (Sf21) and from Trichoplusia ni (Hi5) are widely used systems for recombinant protein expression, genomic sequences and annotations were incomplete for Sf21 and totally absent for Hi5. In 2013, the Sf21 genome and transcriptome project was started as a collaborative effort of the Protein Expression & Purification Core Facility with the Genomics and Proteomics Core Facility at EMBL Heidelberg and the Bioinformatics & Scientific Computing of the Vienna Biocenter Core Facilities (VBCF). The project was financed via crowd funding by P4EU members.
The rationale of this initiative was to produce high quality annotated sequence data so that we may:
- identify host promotors to widen the range of expression regulation.
- enable genetic engineering of the production host in order to introduce of new genetic tools and new applications.
- allow a better identification of contaminating proteins originating from the host cell in protein preparations by proteomic methods
Results of the genome annotation were presented at the 11th P4EU meeting in Heidelberg 2016-download the Sf21genome assembly and annotation presentation. The integrative approach resulted in assemblies at an unprecedented resolution-download the Sf21 Hi5 Poster pdf for more details. The genome sequence is found under https://www.ebi.ac.uk/ena/data/view/PRJEB12116
The genome annotation has already been used as the basis for two further studies:
Nature Methods, December 2016, by Koehler et al. Genetic code expansion for multiprotein complex engineering: the authors describe a baculovirus-based protein engineering method that enables site-specific introduction of unique functionalities in a recombinant eukaryotic protein complex produced in insect cells. It can be used for the fluorescent labeling of target proteins and biologics using ‘Click’ chemistries, for the engineering of the glyco moieties of antibodies, and for structure–function studies of novel eukaryotic complexes using single-molecule Förster resonance energy transfer as well as site-specific cross-linking strategies.
Plos One, August 2015, Bleckmann et al. Genomic Analysis and Isolation of RNA Polymerase II Dependent Promoters from Spodoptera frugiperda: in which the authors describe the identification and characterization of endogenous S.frugiperda promoters that are able to operate in earlier phases of infection, this is in contrast to the classically used p10 and polH promoters that require the presence of the viral transcription machinery found only during the late phase of infection.
Future plans are to apply these assembly and annotation strategies to other genomes
- Trichoplusia ni-Hi5 (Insect cell line)
- Cerianthus (Anemones)
- Xenoturbella (Marine worm)