Table 5. List of the top 20 most abundant Pratylenchus penetrans transcripts identified in nematode infected soybean roots (top), the top 20 most abundant P. penetrans transcripts identified in nematode infected soybean roots which encode a putative signal peptide (bottom).
| Pratylenchus species | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Transcript | FPKM Planta | Pc | Pt | Pv | Pz | ANNOTATION—NR Database | Top-Hit Species | Best e-value | Bit Score | Accession |
| Top 20 of all transcripts found in planta | ||||||||||
| 1 | 26,730.55 | + | + | + | + | Hypotethical protein Bm1 | Brugia malayi | 3.04E-21 | 89.35 | XP_001895031 |
| 2 | 10,915.12 | + | + | + | + | Vitellogenin—partial | Ascaris suum | 0 | 634.02 | ERG79133 |
| 3 | 8,952.19 | + | + | + | + | Actin | Ditylenchus destructor | 0 | 788.10 | ACT78498 |
| 4 | 3,525.76 | No match | ||||||||
| 5 | 3,501.78 | + | + | + | + | Fatty acid and retinol binding partial | Radopholus similis | 5.19E-93 | 285.03 | AFI80890 |
| 6 | 3,370.08 | + | + | + | + | Fatty acid desaturase domain containing protein | Ditylenchus destructor | 4.55E-170 | 493.04 | AGT39213 |
| 7 | 3,227.35 | No match | ||||||||
| 8 | 2,471.04 | No match | ||||||||
| 9 | 2,445.49 | + | + | + | Actin | Caenorhabditis elegans | 1.21E-12 | 60.10 | CAA34718 | |
| 10 | 2,267.89 | No match | ||||||||
| 11 | 2,030.17 | + | + | + | + | Tropomyosin | Heterodera glycines | 1.13E-128 | 384.80 | AAQ12016 |
| 12 | 1,899.02 | + | Cuticular collagen | Meloidogyne incognita | 1.24E-31 | 132.11 | AAB63467 | |||
| 13 | 1,723.74 | No match | ||||||||
| 14 | 1,626.76 | + | + | + | + | Polyadenylate-binding protein 1 | Loa loa | 0 | 702.98 | XP_003136646 |
| 15 | 1,479.70 | + | No match | |||||||
| 16 | 1,374.32 | + | No match | |||||||
| 17 | 1,344.32 | + | + | Cuticle collagen 6 | Ascaris suum | 2.91E-19 | 98.21 | ERG81835 | ||
| 18 | 1,308.45 | + | + | + | + | Protein unc-87 | Heterodera glycines | 0 | 711.06 | AAT70232 |
| 19 | 1,268.15 | No match | ||||||||
| 20 | 1,228.26 | + | + | + | + | Fatty acid elongation protein 3 | Loa loa | 7.65E-102 | 313.54 | XP_003148091 |
| Top 20 transcripts with signal peptide in planta | ||||||||||
| Pratylenchus species | ||||||||||
| Pc | Pt | Pv | Pz | |||||||
| 1 | 10,915.12 | + | + | + | + | Vitellogenin—partial | Ascaris suum | 0 | 634.02 | ERG79133 |
| 2 | 3,501.78 | + | + | + | + | Fatty acid and retinol binding partial | Radopholus similis | 5.19E-93 | 285.03 | AFI80890 |
| 3 | 1,899.02 | + | Cuticular collagen | Meloidogyne incognita | 1.24E-31 | 132.10 | AAB63467 | |||
| 4 | 1,052.87 | + | + | + | Hypothetical protein Y032_0510g2735 | Ancylostoma ceylanicum | 6.73E-19 | 88.96 | EYC42944 | |
| 5 | 836.70 | + | + | + | + | Cathepsin l-like cysteine proteinase | Ditylenchus destructor | 1.66E-155 | 459.14 | ACT35690 |
| 6 | 834.28 | No match | ||||||||
| 7 | 772.08 | No match | ||||||||
| 8 | 735.92 | + | + | + | + | Cathepsin l | Ancylostoma ceylanicum | 1.68E-89 | 287.34 | EYC42688 |
| 9 | 689.63 | + | + | Catalase | Ditylenchus destructor | 0 | 624.39 | AFJ15102 | ||
| 10 | 686.05 | + | Nematode cuticle collagen domain protein | Ancylostoma ceylanicum | 2.29E-29 | 120.55 | EYC31354 | |||
| 11 | 642.97 | + | + | + | + | Protein disulfide isomerase | Ancylostoma ceylanicum | 0 | 727.62 | EYB93146 |
| 12 | 609.44 | + | + | + | + | Peptidase c1a domain containing protein | Onchocerca volvulus | 2.75E-143 | 423.70 | AAC47348 |
| 13 | 607.27 | + | + | + | Unnamed protein product | Haemonchus contortus | 2.90E-20 | 93.58 | CDJ86795 | |
| 14 | 602.80 | + | + | Protein isoform b | Oesophagostomum dentatum | 3.32E-15 | 81.26 | KHJ85643 | ||
| 15 | 599.83 | + | + | No match | ||||||
| 16 | 588.96 | + | + | + | + | Protein BM-CNB-1 | Brugia malayi | 7.12E-06 | 51.62 | CDP98667 |
| 17 | 581.96 | + | + | + | + | Calreticulin | Pratylenchus goodeyi | 0 | 528.86 | AIW66697 |
| 18 | 573.84 | No match | ||||||||
| 19 | 569.85 | + | + | Neuroendocrine convertase 2 | Heterodera glycines | 0 | 1177.54 | AAK66762 | ||
| 20 | 554.77 | No match | ||||||||
Pc: Pratylenchus coffeae; Pt: Pratylenchus thornei; Pv: Pratylenchus vulnus; Pz: Pratylenchus zeae.