Peptides derived from Kex2-processed repeat proteins are widely distributed and highly diverse in the Fungi kingdom

Umemura, Maiko

doi:10.1186/s40694-020-00100-5

Table 2 Characterization of KEP types

From: Peptides derived from Kex2-processed repeat proteins are widely distributed and highly diverse in the Fungi kingdom

Label^a	Type ID^b	Count
Label^a	Type ID^b	FRiPS factors	Strains	KEPs per strain	Genera	Phyla	Yeast α-mating factors^c	Fungal pheromones^d	With DUF3328^e	Without DUF3328^f	Genera	Phyla	HMM profiles
Top 8 types sorted by number of KEPs per strain
S-1	#22	37	2	18.50	1	1	0	0	0	37	Peniophora	Basidiomycota	DUF5109, NifZ, YukD
S-2	#139	8	1	8.00	1	1	0	0	0	8	Hypsizygus	Basidiomycota	SseB_C, FACT-Spt16_Nlob, DUF445
S-3	#158	7	1	7.00	1	1	0	0	0	7	Basidiobolus	Zoopagomycota
S-4	#171	7	1	7.00	1	1	0	0	0	7	Fibularhizoctonia	Basidiomycota	TOM13, ribosomal_L24
S-5	#80	12	2	6.00	1	1	0	0	8	4	Sistotremastrum	Basidiomycota	DUF4170, Eryth_link_C, DUF3756
S-6	#91	11	2	5.50	2	1	0	0	0	11	Neocallimastix, Piromyces	Chytridiomycota	Chitin_bind_1
S-7	#107	10	2	5.00	1	1	0	0	0	10	Batrachochytrium	Chytridiomycota
S-8	#203	5	1	5.00	1	1	0	0	1	4	Rickenella	Basidiomycota
Top 10 types sorted by number of genera having KEPs
G-1/P-2	#7	64	62	1.03	49	2	0	0	0	64	Termitomyces, Moniliophthora, Auriculariopsis, Crucibulum, Trametes, Sphaerobolus, Laccaria, Hypsizygus, Sanghuangporus, Hypholoma, Gloeophyllum, Pleurotus, Dichomitus, Armillaria, Laetiporus, Lentinus, Coprinopsis, Heliocybe, Dendrothele, Panaeolus, Phlebiopsis, Peniophora, Schizopora, Hebeloma, Pterula, Galerina, Schizophyllum, Ganoderma, Antrodiella, Pyrrhoderma, Bondarzewia, Rickenella, Obba, Postia, Pluteus, Neolentinus, Polyporus, Plicaturopsis, Punctularia, Heterobasidion, Dentipellis, Gymnopilus, Stereum, Fibularhizoctonia, Fibroporia, Cyphellophora, Grifola, Fomitiporia, Gelatoporia	Basidiomycota, Ascomycota	E_Pc_C, Pab87_oct, Osteoregulin, ATXN-1_C, ChlamPMP_M, Cytomega_UL20A, DUF4452, DUF5542, TubC_N, TruB_N, TruB_C, MATH, DUF2188, Motilin_assoc, Sid-5, Str_synth, B_lectin, Phage-tail_3, DUF1648, DUF421, UPF0258, CSD2, SspK, DNA_gyraseA_C, FtsK_alpha, TAFH, gp37_C
G-2	#2	138	137	1.01	35	1	0	121	1	137	Diplocarpon, Botryotinia, Fusarium, Phialocephala, Pseudogymnoascus, Verticillium, Botrytis, Metarhizium, Coleophoma, Purpureocillium, Lachnellula, Marssonina, Coniella, Trichoderma, Neurospora, Rutstroemia, Sporothrix, Monilinia, Ophiostoma, Pezoloma, Sclerotinia, Sphaerosporella, Colletotrichum, Amorphotheca, Coniochaeta, Thermothielavioides, Podospora, Madurella, Escovopsis, Hyaloscypha, Scytalidium, Chlorociboria, Venustampulla, Cadophora, Sodiomyces	Ascomycota	Trefoil, DUF2390, Trypan_PARP, PknG_rubred
G-3	#6	64	59	1.08	20	1	0	0	57	7	Botryotinia, Phialocephala, Botrytis, Lachnellula, Trichoderma, Rutstroemia, Pezoloma, Hyaloscypha, Scytalidium, Cadophora, Penicillium, Rhynchosporium, Talaromyces, Fonsecaea, Verruconis, Capronia, Cladophialophora, Phialophora, Exophiala, Oidiodendron	Ascomycota
G-4	#1	191	181	1.06	20	1	174	0	0	191	Saccharomyces, Cyberlindnera, Lachancea, Nakaseomyces, Kazachstania, Kluyveromyces, Naumovozyma, Wickerhamomyces, Zygosaccharomyces, Clavispora, Tetrapisispora, Eremothecium, Debaryomyces, Hanseniaspora, Vanderwaltozyma, Millerozyma, Torulaspora, Saccharomycodes, Metschnikowia, Suhomyces	Ascomycota	CLP1_P, Ribos_L4_asso_C, Cytochrome_P460, MF_alpha_N, MF_alpha, Phage_1_1
G-5/P-1	#24	35	33	1.06	19	3	0	0	16	19	Botryotinia, Botrytis, Coleophoma, Rutstroemia, Sclerotinia, Colletotrichum, Aspergillus, Penicillium, Dendrothele, Bondarzewia, Pluteus, Heterobasidion, Phialemoniopsis, Cordyceps, Beauveria, Parastagonospora, Leptosphaeria, Psilocybe, Blyttiomyces	Ascomycota, Basidiomycota, Chytridiomycota	CW_binding_1, DUF1871, Fe_hyd_SSU, HTH_19, ESSS, Fibrinogen_BP, DUF3976, Nuc_N, RHS_repeat, ATP1G1_PLM_MAT8, SHS2_FTSA
G-6	#13	49	43	1.14	19	1	0	0	46	3	Pseudogymnoascus, Rutstroemia, Colletotrichum, Aspergillus, Penicillium, Rhynchosporium, Talaromyces, Chaetomium, Cordyceps, Blastomyces, Paracoccidioides, Monosporascus, Hypoxylon, Histoplasma, Emergomyces, Beauveria, Torrubiella, Emmonsia, Ophiocordyceps	Ascomycota	ID, Fibrinogen_BP, CRA_rpt, CAP160, FliC, DUF4485, Novirhabdo_Nv
G-7	#12	50	48	1.04	18	1	0	0	1	49	Verticillium, Neurospora, Colletotrichum, Thermothielavioides, Sodiomyces, Aspergillus, Capronia, Exophiala, Phaeoacremonium, Valsa, Cytospora, Phialemoniopsis, Gaeumannomyces, Magnaporthiopsis, Thermothelomyces, Umbilicaria, Chaetomium, Eurotiomycetes	Ascomycota	SAP, Hydrophobin_2, Ish1, HeH, Slx4
G-8	#15	49	48	1.02	18	1	0	0	45	4	Pseudogymnoascus, Sporothrix, Colletotrichum, Coniochaeta, Thermothielavioides, Phialemoniopsis, Pyrenophora, Pyricularia, Grosmannia, Stagonospora, Parastagonospora, Paraphaeosphaeria, Bipolaris, Exserohilum, Epicoccum, Ascochyta, Pyrenochaeta, Periconia	Ascomycota	PAP_assoc, WHH
G-9	#16	48	48	1.00	14	1	0	0	0	48	Phialocephala, Verruconis, Pyrenophora, Parastagonospora, Bipolaris, Exserohilum, Epicoccum, Ascochyta, Pyrenochaeta, Pestalotiopsis, Alternaria, Stemphylium, Corynespora, Venturia	Ascomycota	CARD_2, T2SSM_b, DUF3953
G-10	#19	45	45	1.00	11	1	0	0	41	4	Metarhizium, Neurospora, Aspergillus, Penicillium, Zymoseptoria, Cordyceps, Beauveria, Ophiocordyceps, Sordaria, Ustilaginoidea, Pseudocercospora	Ascomycota	DUF2020, VIT, DUF3983
Top 7 types sorted by number of phyla having KEPs^g
G-5/P-1	#24	35	33	1.06	19	3	0	0	16	19	Botryotinia, Botrytis, Coleophoma, Rutstroemia, Sclerotinia, Colletotrichum, Aspergillus, Penicillium, Dendrothele, Bondarzewia, Pluteus, Heterobasidion, Phialemoniopsis, Cordyceps, Beauveria, Parastagonospora, Leptosphaeria, Psilocybe, Blyttiomyces	Ascomycota, Basidiomycota, Chytridiomycota	CW_binding_1, DUF1871, Fe_hyd_SSU, HTH_19, ESSS, Fibrinogen_BP, DUF3976, Nuc_N, RHS_repeat, ATP1G1_PLM_MAT8, SHS2_FTSA
G-1/P-2	#7	64	62	1.03	49	2	0	0	0	64	Termitomyces, Moniliophthora, Auriculariopsis, Crucibulum, Trametes, Sphaerobolus, Laccaria, Hypsizygus, Sanghuangporus, Hypholoma, Gloeophyllum, Pleurotus, Dichomitus, Armillaria, Laetiporus, Lentinus, Coprinopsis, Heliocybe, Dendrothele, Panaeolus, Phlebiopsis, Peniophora, Schizopora, Hebeloma, Pterula, Galerina, Schizophyllum, Ganoderma, Antrodiella, Pyrrhoderma, Bondarzewia, Rickenella, Obba, Postia, Pluteus, Neolentinus, Polyporus, Plicaturopsis, Punctularia, Heterobasidion, Dentipellis, Gymnopilus, Stereum, Fibularhizoctonia, Fibroporia, Cyphellophora, Grifola, Fomitiporia, Gelatoporia	Basidiomycota, Ascomycota	E_Pc_C, Pab87_oct, Osteoregulin, ATXN-1_C, ChlamPMP_M, Cytomega_UL20A, DUF4452, DUF5542, TubC_N, TruB_N, TruB_C, MATH, DUF2188, Motilin_assoc, Sid-5, Str_synth, B_lectin, Phage-tail_3, DUF1648, DUF421, UPF0258, CSD2, SspK, DNA_gyraseA_C, FtsK_alpha, TAFH, gp37_C
P-3	#165	7	7	1.00	5	2	0	0	4	3	Fonsecaea, Cladophialophora, Galerina, Psilocybe, Coprinellus	Ascomycota, Basidiomycota
P-4	#108	10	6	1.67	3	2	0	0	0	10	Rhizophagus, Diversispora, Trichomonascus	Mucoromycota, Ascomycota	Apidaecin
P-5	#245	5	5	1.00	3	2	0	0	0	5	Pterula, Puccinia, Batrachochytrium	Basidiomycota, Chytridiomycota	FKBP_C
P-6	#205	5	4	1.25	2	2	0	5	0	5	Yarrowia, Cutaneotrichosporon	Ascomycota, Basidiomycota	CTD
P-7	#26	35	33	1.06	2	2	0	0	0	35	Talaromyces, Cryptococcus	Ascomycota, Basidiomycota

^aCorresponding to those in Fig. 5
^bCorresponding to those in Additional file 3: Table S2
^cThose having MF_alpha and/or MF_alpha_N HMM profiles as listed in Additional file 3: Table S2
^dThose annotated as pheromones in the NCBI database but not “yeast a-mating factors”, as listed in Additional file 3: Table S2
^eThose having the genes encoding DUF3328 domain-containing proteins within 15 genes
^fThose having no genes encoding DUF3328 domain-containing proteins within 15 genes
^gOmitted types including KEPs from 2 unclassified strains from this comparison

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