Table 3.
Protein Numbers, HGT Candidates, and High-Confidence HGT Candidates in the Panagrolaimus Genomes and Outgroups
| Species | Total # Proteins | Possible HGT Candidates (AI >0) | Candidates Identified as Contaminantsa | # HGT Candidates with AI >30 | High-Confidence HGT Candidatesb |
|||||
|---|---|---|---|---|---|---|---|---|---|---|
| # on Same Contig with Other Gene | # with Neighbors Hitting Metazoa | # with introns | # with Expression >10/100/1000 TPM in RNA-seq | # with Pfam Domains (Total Number of Pfam Domains) | Distinct Pfam Domains | |||||
| Panagrolaimus superbusb | 24,160 | 528 | 20 | 88 | NA | NA | NA | NA | 70 (91) | 56 |
| Panagrolaimus sp. ES5 | 24,756 | 975 | 141 | 232 | 215 | 73 | 132 | 185/155/97 | 183 (429) | 136 |
| Panagrolaimus sp. PS1159 | 27,350 | 899 | 19 | 182 | 159 | 98 | 133 | 174/164/112 | 141 (268) | 93 |
| Panagrolaimus sp. DAW1 | 31,646 | 1,177 | 18 | 201 | 194 | 84 | 136 | 178/153/84 | 131(172) | 62 |
| Propanagrolaimus sp. JU765 | 24,878 | 530 | 39 | 44 | 42 | 25 | 27 | 44/44/36 | 34 (100) | 23 |
| Panagrellus redivivus | 26,372 | 516 | 12 | 22 | 21 | 21 | 16 | NA | 14 (18) | 12 |
a
AI>0 and >70% id to non-metazoan protein.
b
Owing to the shortness of the contigs and a low-coverage 454 transcriptome we refrained from calculating high-confidence candidates for P. superbus.