TABLE 3.
Final candidate list of six from larval Frankliniella occidentalis to move forward to validation and biological characterizationa
| Putative protein (abbreviation) | Fo seq contig matchb | ORF length (nucleotides/amino acids)c | Signal peptide (amino acid positions)d | Conserved domain(s)e
|
Top GenBank match accession no., protein (species) (% coverage, % identity, E value)f | ||
|---|---|---|---|---|---|---|---|
| Name | Positions (amino acids) | E value | |||||
| Cuticular protein-V (CP-V) | CL4900Contig1 | 1,302/434 | 1–18 | Chitin_bind_4 | 47–92 | 5.7 × 10−6 | XP_017786818.1, PREDICTED: cell surface glycoprotein 1 (Nicrophorus vespilloides) (94, 44, 1 × 10−85) |
| Endocuticle structural glycoprotein-GN (endoCP-GN) | CL4382Contig1 | 852/283 | 1–15 | Chitin_bind_4 | 190–246 | 7.5 × 10−11 | XP_018334183.1, endocuticle structural glycoprotein SgAbd-2-like (Agrilus planipennis) (33, 53, 4 × 10−22) |
| Endocuticle structural glycoprotein-V (endoCP-V) | contig01248 | 522/173 | 1–17 | Chitin_bind_4 | 63–119 | 1.4 × 10−18 | XP_022906571.1, endocuticle structural glycoprotein SgAbd-2-like (Onthophagus taurus) (63, 58, 2 × 10−35) |
| Cyclophilin (peptidyl-prolyl cis-trans isomerase) | CL4854Contig1 | 618/205 | None | cyclophilin_ABH_like | 44–202 | 2.3 × 10−120 | XP_019753975.1, PREDICTED: peptidyl-prolyl cis-trans isomerase (Dendroctonus ponderosae) (99, 75, 2 × 10−109) |
| PpiB | 57–196 | 2.6 × 10−63 | |||||
| Pro_isomerase | 47–201 | 1.2 × 10−62 | |||||
| Enolase | CL4706Contig1 | 1,302/433 | None | PLN00191 | 3–433 | 0 | XP_019767728.1, PREDICTED: enolase-like (Dendroctonus ponderosae) (99, 87, 0) |
| Enolase | 5–417 | 0 | |||||
| Eno | 6–431 | 0 | |||||
| Enolase_C | 143–433 | 0 | |||||
| Mitochondrial ATP synthase α-subunit | CL4310Contig1 | 1,665/554 | None | PRK09281 | 45–551 | 0 | XP_023718907.1, mitochondrial ATP synthase α-subunit, (Cryptotermes secundus) (99, 89, 0) |
| AtpA | 45–553 | 0 | |||||
| F1_ATPase_alpha | 135–416 | 0 | |||||
| ATP-synt_ab | 190–413 | 6.1 × 10−117 | |||||
Sequences were deposited into the National Center for Biotechnology Information (NCBI) GenBank database with the following accession numbers: CP-V, MH884758; endoCP-GN, MH884757; endoCP-V, MH884756; cyclophilin, MH884760; enolase, MH884759; and mitochondrial ATP synthase α, MH884761.
De novo-assembled contigs from F. occidentalis transcriptome derived by Roche 454/Sanger EST library hybrid (18).
Prediction by NCBI ORF finder (https://www.ncbi.nlm.nih.gov/orffinder/).
Prediction by SignalP (http://www.cbs.dtu.dk/services/SignalP/).
Prediction by NCBI Batch Web CD-search tool (https://www.ncbi.nlm.nih.gov/Structure/bwrpsb/bwrpsb.cgi, CDSEARCH/cdd v3.16); E value cutoff, 10−5. Only specific hits are shown.
BLASTP search of NCBI nr protein database against TIP ORF as of 6 August 2018; top match indicates highest alignment (maximum) score.