Table 1. Nematode PDAs Identified Through Bioinformatics using resources from NCBI, Sanger, and www.nematode.net.
| Species | Clade | NCBI Accession # | Previously Assigned Names or Retrieval Information Relevant for Other Databases | Total # of Residues in Archived Sequence | Residues Included in Alignments and Tree Relative to Archived Sequence |
| Ancylostoma caninum | V | N/A | Acan_isotig17215 (Nematode.net) | – | – |
| Ascaris suum | III | ADY42356a | ADY42356 | – | – |
| ADY43217b | ADY43217 | 735 | 578–733 | ||
| Brugia malayi | III | AAW70738 | WolBm0147, YP_197908 | 264 | 55–214 |
| EDP33092 | Bml_33340; 14961.m05161 (TIGR) | 1802 | 1469–1624 | ||
| Caenorhabditis brenneri | V | EGT33229 | CAEBREN_29772 | 2693 | 2373–2526 |
| EGT30475 | CBN-LGX-1 | 666 | 321–481 | ||
| Caenorhabditis briggsae | V | CAP34613 | CBG_16715 | 2523 | 2202–2355 |
| CAP33224 | CBG_14800 | 699 | 354–513 | ||
| Caenorhabditis elegans | V | CCD67046 | C54G7.3 | 1876 | 1500–1533, 1557–1650c |
| ABX00803 | F48E3.8 | 2444 | 2124–2277 | ||
| Caenorhabditis remanei | V | EFO83068 | CRE_00058 | 2545 | 2225–2378 |
| EFO82567 | CRE_00232 | 682 | 335–498 | ||
| Loa loa | III | EFO26644 | LOAG_01839 | 416 | 83–237 |
| Meloidogyne incognita d | IVb | AF531169 | Msp9, MI00182 (Nematode.net),MI04101 (Nematode.net) | – | – |
| Oesophagostomum dentatum | V | N/A | Oden_isotig26807 (Nematode.net) | – | – |
| Onchocerca flexuosa | III | N/A | OF01019 (Nematode.net) | – | – |
| Onchocerca volvulus | III | N/A | contig33574 (Sanger) | – | – |
| N/A | contig48143 (Sanger) | – | – | ||
| Ostertagia ostertagi | V | N/A | OS02548 (Nematode.net) | – | – |
| Teladorsagia circumtincta | V | N/A | Tcir_isotig26540 (Nematode.net) | – | – |
| Trichinella spiralis | I | EFV55667 | Tsp_03980 | 1524 | 1190–1343 |
The sequences ADY42356 and ADY43217 share 99% sequence identity within the predicted NodB homology domain, but only 32% sequence identity outside this region. ADY42356 has a truncated portion of the catalytic domain. We are unable to discern these as 1 or 2 homologs, but given the catalytic domain identity we use only ADY43217 for alignments.
Based on our sequencing of this region of the gene we have shown that predicted residues 1534–1556 (relative to predicted sequence associated with Accession No. CCD67046) would not be present in the protein sequence.
M. incognita Msp9 is a potential homolog which has sequence verification from two clones available from www.nematode.net. Msp30 (AY142120) shows some homology as well, but there is less supporting data.