A genome survey of Moniliophthora perniciosa gives new insights into Witches' Broom Disease of cacao

Mondego, Jorge MC; Carazzolle, Marcelo F; Costa, Gustavo GL; Formighieri, Eduardo F; Parizzi, Lucas P; Rincones, Johana; Cotomacci, Carolina; Carraro, Dirce M; Cunha, Anderson F; Carrer, Helaine; Vidal, Ramon O; Estrela, Raíssa C; García, Odalys; Thomazella, Daniela PT; de Oliveira, Bruno V; Pires, Acássia BL; Rio, Maria Carolina S; Araújo, Marcos Renato R; de Moraes, Marcos H; Castro, Luis AB; Gramacho, Karina P; Gonçalves, Marilda S; Neto, José P Moura; Neto, Aristóteles Góes; Barbosa, Luciana V; Guiltinan, Mark J; Bailey, Bryan A; Meinhardt, Lyndel W; Cascardo, Julio CM; Pereira, Gonçalo AG

doi:10.1186/1471-2164-9-548

BMC Genomics

Table 5 Top 20 CDD-PFAM domains in M. perniciosa proteins

From: A genome survey of Moniliophthora perniciosa gives new insights into Witches' Broom Disease of cacao

CDD – ID^a	Domain PFAM^b	#Hits^c Domains	%Hits^d PTN	Rank^e	Norm Factor	# Hits^g Domains Norm	%Hits^h PTN Norm	Rankⁱ Norm
gnl\|CDD\|40168	pfam00067, Cytochrome P450	256	1.57%	1	1.3565	188.71427	1.15%	1
gnl\|CDD\|40170	pfam00069, Protein kinase	141	0.86%	2	1.6059	87.80184	0.54%	2
gnl\|CDD\|40184	pfam00083, Sugar (and other) transporters	89	0.54%	3	1.6902	52.65651	0.32%	3
gnl\|CDD\|40206	pfam00106, adh_short, short chain dehydrogenase	84	0.51%	4	1.7141	49.00442	0.30%	4
gnl\|CDD\|40235	pfam00135, COesterase, Carboxylesterase	57	0.35%	5	1.4738	38.67603	0.24%	5
gnl\|CDD\|40207	pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase	43	0.26%	8	1.2398	34.68221	0.21%	6
gnl\|CDD\|40813	pfam00732, GMC_oxred_N, GMC oxidoreductase	52	0.32%	6	1.5402	33.76192	0.21%	7
gnl\|CDD\|40345	pfam00248, Aldo_ket_red, Aldo/keto reductase family	41	0.25%	9	1.2881	31.83088	0.19%	8
gnl\|CDD\|41245	pfam01185, Hydrophobin, Fungal hydrophobin	26	0.16%	21	0.8460	30.73119	0.19%	9
gnl\|CDD\|40253	pfam00153, Mito_carr, Mitochondrial carrier protein	38	0.23%	12	1.3890	27.35860	0.17%	10
gnl\|CDD\|40748	pfam00665, rve, Integrase core domain	50	0.31%	7	1.8943	26.39449	0.16%	11
gnl\|CDD\|40493	pfam00400, WD40, WD domain, G-beta repeat	35	0.21%	13	1.5151	23.10130	0.14%	12
gnl\|CDD\|40179	pfam00078, RVT, Reverse transcriptase	39	0.24%	11	1.7620	22.13448	0.14%	13
gnl\|CDD\|45101	pfam05199, GMC_oxred_C, GMC oxidoreductase	28	0.17%	16	1.2741	21.97654	0.13%	14
gnl\|CDD\|40588	pfam00501, AMP-binding, AMP-binding enzyme	40	0.24%	10	1.8537	21.57819	0.13%	15
gnl\|CDD\|41412	pfam01360, Monooxygenase, Monooxygenase	25	0.15%	22	1.2253	20.40382	0.12%	16
gnl\|CDD\|40107	pfam00005, ABC_tran, ABC transporter	33	0.20%	14	1.7198	19.18851	0.12%	17
gnl\|CDD\|40367	pfam00270, DEAD, DEAD/DEAH box helicase	30	0.18%	15	1.5947	18.81230	0.12%	18
gnl\|CDD\|40419	pfam00324, AA_permease, Amino acid permease	26	0.16%	20	1.4641	17.75798	0.11%	19
gnl\|CDD\|41783	pfam01753, zf-MYND, MYND finger	25	0.15%	23	1.4288	17.49737	0.11%	20

a – Number of CDD entry
b – Number and description of
PFAM domain
c – Number of gene models containing each CDD-PFAM domain
d – Percentage of gene models containing each CDD-PFAM domain in relation to total number of M. perniciosa gene models (proteins).
e – Non-normalized CDD-PFAM ranking
f – Factor used to normalize the number of gene models containing each CDD-PFAM domain (see methods)
g – Normalized number of gene models containing a CDD-PFAM domain
h – Percentage of normalized number of gene models containing each CDD-PFAM domain in relation to total number of M. perniciosa gene models (proteins)
i – Normalized M. perniciosa CDD-PFAM ranking

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ISSN: 1471-2164

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