Skip to main content

Advertisement

Table 1 Numbers of NRPS genes in each subfamily across fungal taxonomic groupsa

From: Phylogenomics reveals subfamilies of fungal nonribosomal peptide synthetases and their evolutionary relationships

Species PKS; NRPS NPS11/ETP mod 1 NPS12/ETP mod 2 NPS10 CYCLO SID ACV AAR EAS Otherb Total
Ascomycota *         *   
A. fumigatus 1 2c 1 1 1 1 0 1 10 2 20
A. nidulans 1 0 1 1 2d 1 1 1 11 0 19
B. cinerea 3e 1 0 0 0 3 0 1 5 1 14
C. immitis 1 0 0 0 0 1 0 1 5 0 8
C. heterostrophus 0 1 2 1 2d 1 0 1 6 1 15
F. graminearum 1 0 3 1 1 2 0 1 12 0 21
M. oryzae 6 1 1 1 1d 1 0 1 4 2 18
N. crassa 0 0 0 0 0 1 0 1 2 0 4
P. anserina 4 0 1 0 0 1 0 1 4 1 12
T. reesii 2 2c 1 1 0 1 0 1 5 0 13
Basidiomycota    *         
C. cinerea 0 0 3 0 0 1 0 1 0 0 5
C. neoformans 0 0 0 0 0 0 0 1 0 0 1
L. bicolor 0 0 0 0 0 0 0 1 0 0 1
P. chrysosporium 0 0 1 0 1 0 0 1 0 0 3
P. stipitis 0 0 0 0 0 0 0 1 0 0 1
P. placenta 0 0 8 0 0 0 0 2 0 0 10
P. graminis 0 0 0 0 0 0 0 1 0 1 2
S. roseus 0 0 0 0 0 0 0 1 0 1 2
U. maydis 0 0 0 1 0 2 0 1 0 1 5
Schizosaccharomycota            
S. japonicus 0 0 0 0 0 1 0 1 0 0 2
S. pombe 0 0 0 0 0 1 0 1 0 0 2
Hemiascomycota            
all species examined (Additional file 3) 0 0 0 0 0 0 0 1 0 0 1
Zygomycota            
P. blakesleeanus 0 0 0 0 0 0 0 1 0 0 1
R. oryzae 0 0 0 0 0 0 0 1 0 0 1
Chytridiomycota            
B. dendrobatidis 0 0 2 0 0 0 0 1 0 0 3
Microsporidia            
E. cuniculi 0 0 0 0 0 0 0 0 0 0 0
  1. aBased on inclusion in clades of phylogenetically defined subfamilies (Fig. 1, Additional file 6).
  2. bSeveral proteins which grouped with NRPSs did not group with any of the 9 major subfamilies. These include homologs of SidE (Afu3g03350) in A. fumigatus and P. anserina species (Afu3g15270, Pa2_7870), several proteins in the urediniomycetes U. maydis, S. roseus, and P. graminis (UM05245.1, Sr31423, and PGTG06519), two proteins in M. oryzae (MGG 14967.5, MGG07803.5), and one in B. cinerea (BC1G11613.1).
  3. cA. fumigatus has two bi-modular NRPSs (Afu_6g09660, Afu_6g09660) as does T. reesii (Trire2_24586, Trire2_60458). The first modules of all four NRPSs group with the ChNPS11/ETP module 1 subfamily; the second modules group with the NPS12 subfamily. For tallying purposes, Afu_6g09660, Afu_6g0966, Trire2_24586, and Trire2_60458 were attributed to the ChNPS11/ETP module 1 subfamily.
  4. dChNPS1 and ChNPS3 modules 1 and 3 group with the EAS subfamily, while ChNPS1 module 2 and ChNPS3 modules 2 and 4 group with the CYCLO subfamily. For tallying purposes, ChNPS1 and ChNPS3 were attributed to the CYCLO subfamily. Similarly, MGG00022.1 and AN9226 also have some A domains in the CYCLO subfamily and others in the EAS subfamily. For tallying purposes, these genes were included in the CYCLO subfamily.
  5. eB. cinerea contains 3 PKS;NRPS hybrids. For one of these (BC1G15479.1), the A domain did not align well and was missing several core motifs. This protein was removed from the final phylogenetic analysis.
  6. * PKS:NRPS and EAS subfamilies in Euascomycetes and the NPS12/ETP module 2 subfamily in Basidiomycetes are statistically over-represented.