Skip to main content

Table 2 Characterization of the transcriptome libraries

From: Interspecific and host-related gene expression patterns in nematode-trapping fungi

Librarya Ao(Mh) Ao(Hs) Ad(Mh) Ad(Hs) Mc(Hs)
Reads      
Total number of reads 114 418 70 061 226 301 191 632 245 264
Filtered readsb 97 770 58 208 183 433 141 506 206 854
Isotigs      
Total number of isotigs 2 663 1 354 4 517 4 003 5 258
  Fungal isotigs 2 514 1 261 4 021 3 560 4 741
  Nematode isotigs 11 20 21 18 44
  Others 0 5 8 4 16
Filtered isotigsc 2 634 1 318 4 428 3 926 5 140
(Average size, bp) (1 160) (1 008) (1 237) (1 128) (1 167)
Isotigs with Pfam 1 730 856 2 317 2 504 3 071
Number of unique Pfam 1 251 707 1 555 1 592 1 847
Isotigs with UniRef50 2 485 1 239 3 916 3 472 4 601
Unique UniRef50 2 326 1 174 3 101 3 230 3 981
Mapping to Ao genome      
Number of mapped reads 73 623 40 051    
Number of gene modelsd 7 351 6 377    
  1. aThe following five combinations of fungi and nematodes were characterized: A. oligospora and M. hapla (Ao(Mh)), A. oligospora and H. schachtii (Ao(Hs)), A. dactyloides and M. hapla (Ad(Mh)), A. dactyloides and H. schachtii (Ad(Hs)), and M. cionopagum and H. schachtii (Mc(Hs)).
  2. bNumber of reads after removal of rRNA sequences.
  3. cNumber of isotigs after removal of non-fungal sequences, low abundance isotigs (less than 5 reads), and short isotigs (<100 bp).
  4. dNumber of gene models that have ≥1 read.