Involvement of the adaptor protein 3 complex in lignocellulase secretion in Neurospora crassa revealed by comparative genomic screening

Pei, Xue; Fan, Feiyu; Lin, Liangcai; Chen, Yong; Sun, Wenliang; Zhang, Shihong; Tian, Chaoguang

doi:10.1186/s13068-015-0302-3

Biotechnology for Biofuels and Bioproducts

Table 1 List of extracellular proteins produced by Neurospora crassa mutants for genes orthologous to mutation-hit targets in Trichoderma reesei RUTC30

From: Involvement of the adaptor protein 3 complex in lignocellulase secretion in Neurospora crassa revealed by comparative genomic screening

No.	Mutant (FGSC)	Orthologs in N. crassa ^a	RUT C30 targets^b	Gene product names	Protein conc. (mg/L)	Increased vs WT (%)^c
1	11701	NCU03998	jgi\|Trire2\|53811\|	Adaptor protein complex 3 Mu3A	821.38 ± 21.83	42.9
2	17965	NCU07880	jgi\|Trire2\|124172\|	Protein kinase	780.01 ± 32.87	35.64
3	19384	NCU01161	jgi\|Trire2\|68926\|	Actin polymerization protein Bzz1	773.06 ± 31.51	34.44
4	19393	NCU07492	jgi\|Trire2\|122689\|	Hypothetical protein	758.58 ± 21.01	32.21
5	15743	NCU01242	jgi\|Trire2\|69437\|	G2/mitotic-specific cyclin	759.76 ± 41.93	32.06
6	10372	NCU08807	jgi\|Trire2\|120117\|	cre-1	755.26 ± 51.79	31.22
7	11964	NCU09120	jgi\|Trire2\|76515\|	Lysine-specific histone demethylase Aof2	750.7 ± 20.09	30.6
8	15360	NCU06992	jgi\|Trire2\|31118\|	DNA repair protein Nse1	737.31 ± 37.42	28.59
9	16681	NCU04201	jgi\|Trire2\|106234\|	Signal transduction protein Syg1	729.66 ± 38.29	26.84
10	12039	NCU08441	jgi\|Trire2\|123786\|	Non-ribosomal peptide synthetase	729.27 ± 112.17	26.36
11	12276	NCU03145	jgi\|Trire2\|78301\|	Vacuolar membrane zinc transporter	723.79 ± 40.24	25.81
12	13177	NCU01838	jgi\|Trire2\|65106\|	Nitrilase	722.38 ± 13.8	25.71
13	11468	NCU04142	jgi\|Trire2\|123114\|	Heat shock protein 80	717.96 ± 59.51	24.68
14	12062	NCU07498	jgi\|Trire2\|79304\|	DNA excision repair protein Rad2	715.8 ± 57.68	24.32
15	16319	NCU02842	jgi\|Trire2\|121087\|	Hypothetical protein	712.55 ± 32.87	23.89
16	18830	NCU03811	jgi\|Trire2\|121453\|	Hypothetical protein	710.24 ± 91.52	23.16
17	19831	NCU03545	jgi\|Trire2\|82153\|	Hypothetical protein	706.55 ± 32.91	22.85
18	11956	NCU08809	jgi\|Trire2\|74765\|	Hypothetical protein	704.12 ± 19.44	22.5
19	16594	NCU03914	jgi\|Trire2\|64375\|	Glucan 1,3-beta-glucosidase	704.88 ± 64.43	22.38
20	20296	NCU08364	jgi\|Trire2\|78320\|	Choline sulfatase	702.59 ± 19.06	22.23
21	11040	NCU05411	jgi\|Trire2\|70071\|	Pathway-specific nitrogen regulator	701.46 ± 65.9	21.78
22	19539	NCU07334	jgi\|Trire2\|68425\|	Uracil permease	698.2 ± 25.84	21.72
23	18971	NCU00503	jgi\|Trire2\|71037\|	Nonselective cation channel protein	700.38 ± 66.13	21.59
24	13289	NCU00427	jgi\|Trire2\|80691\|	Hypothetical protein	698.5 ± 19.9	21.52
25	15939	NCU00754	jgi\|Trire2\|58561\|	Multidrug resistant protein	697.71 ± 79.14	21.05
26	13436	NCU05089	jgi\|Trire2\|64882\|	MFS monocarboxylate transporter	692.03 ± 30.99	20.33
27	16570	NCU04886	jgi\|Trire2\|28409\|	MFS multidrug transporter	693.08 ± 69.06	20.3
28	16331	NCU03068	jgi\|Trire2\|58790\|	Glycerol-3-phosphate phosphatase 1	690.98 ± 32.01	20.14
29	20407	NCU11050	jgi\|Trire2\|75105\|	DUF455 domain-containing protein	689.63 ± 40.55	19.86
30	11084	NCU09549	jgi\|Trire2\|26255\|	C6 zinc finger domain-containing protein	683.56 ± 79.47	18.58
31	18230	NCU09887	jgi\|Trire2\|67030\|	Drp1p	678.63 ± 42.93	17.93
32	19296	NCU07276	jgi\|Trire2\|67732\|	ABC bile acid transporter	677.02 ± 69.64	17.5
33	15452	NCU06309	jgi\|Trire2\|22841\|	Hypothetical protein	674.61 ± 18.59	17.36
34	15930	NCU00648	jgi\|Trire2\|59952\|	Choline transporter	675.67 ± 114.38	17.02
35	13757	NCU01420	jgi\|Trire2\|54157\|	Hypothetical protein	672.9 ± 36.3	16.97
36	15627	NCU04626	jgi\|Trire2\|28731\|	G-protein coupled receptor	667.67 ± 37.79	16.05
37	15627	NCU04626	jgi\|Trire2\|123806\|	G-protein coupled receptor	667.67 ± 37.79	16.05
38	16748	NCU00799	jgi\|Trire2\|40758\|	Homocysteine S-methyltransferase	669.17 ± 128.93	15.8
39	14141	NCU08499	jgi\|Trire2\|58161\|	GTPase-activating protein GYP5	663.7 ± 13.31	15.49
40	13568	NCU04521	jgi\|Trire2\|54511\|	Hypothetical protein	665.59 ± 127.62	15.19
41	20195	NCU06578	jgi\|Trire2\|104161\|	KapG	662.02 ± 104.79	14.69
42	19233	NCU01997	jgi\|Trire2\|74570\|	ABC transporter	662.83 ± 141.67	14.63
43	12060	NCU07381	jgi\|Trire2\|3027\|	DNA cross-link repair protein pso2/snm1	659.15 ± 93.95	14.25
44	18123	NCU07703	jgi\|Trire2\|55887\|	Hypothetical protein	655.25 ± 49.89	13.82
45	13910	NCU05195	jgi\|Trire2\|75072\|	Hypothetical protein	653.76 ± 52.14	13.55
46	11279	NCU03125	jgi\|Trire2\|79405\|	NIMA-interacting protein TinC	651.64 ± 26.12	13.32
47	12569	NCU00321	jgi\|Trire2\|67024\|	Hypothetical protein	652.72 ± 75.61	13.23
48	19403	NCU07564	jgi\|Trire2\|78465\|	Siderophore iron transporter mirC	648.04 ± 5.97	12.87
49	15566	NCU01961	jgi\|Trire2\|59147\|	DNA lyase Apn2	647.69 ± 69.51	12.39
50	19712	NCU00497	jgi\|Trire2\|58391\|	Hypothetical protein	643.14 ± 129.41	11.27
51	11150	NCU00278	jgi\|Trire2\|73912\|	Hypothetical protein	643.22 ± 144.06	11.2
52	11459	NCU00340	jgi\|Trire2\|36543\|	Transcription factor steA	637.2 ± 73.32	10.54
53	13984	NCU05837	jgi\|Trire2\|65104\|	Vacuolar protein sorting-associated protein 13a	635.14 ± 16.93	10.5
54	19183	NCU05477	jgi\|Trire2\|102776\|	Hypothetical protein	632.43 ± 18.1	10.02
55	11061	NCU08443	jgi\|Trire2\|77513\|	Transcription factor ace3	635.36 ± 137.21	9.87
56	13086	NCU00541	jgi\|Trire2\|80592\|	Hypothetical protein	627.2 ± 73.28	8.8
57	16803	NCU04809	jgi\|Trire2\|82037\|	MFS phospholipid transporter	630.47 ± 248.43	8.4
58	15478	NCU08642	jgi\|Trire2\|78268\|	Cyclic nucleotide-binding domain-containing protein	624.52 ± 83.42	8.28
59	15647	NCU00025	jgi\|Trire2\|82499\|	Integral membrane protein	623.56 ± 73.21	8.17
60	16280	NCU04108	jgi\|Trire2\|105874\|	Isoamyl alcohol oxidase	616.8 ± 25.92	7.26
61	15869	NCU00335	jgi\|Trire2\|5140\|	Pre-mRNA-splicing factor cwc15	612.18 ± 15.31	6.51
62	13160	NCU01633	jgi\|Trire2\|62380\|	Hexose transporter HXT13	611.29 ± 19.85	6.33
63	19733	NCU06832	jgi\|Trire2\|112231\|	Kinesin	609.8 ± 45.91	5.93
64	12341	NCU09864	jgi\|Trire2\|56726\|	2-Oxoisovalerate dehydrogenase alpha subunit	608.18 ± 4.15	5.88
65	11030	NCU07788	jgi\|Trire2\|52368\|	Fungal specific transcription factor	606.86 ± 36.13	5.47
66	12282	NCU06647	jgi\|Trire2\|5403\|	Enoyl-CoA hydratase/isomerase	605.74 ± 7.76	5.43
67	12018	NCU02751	jgi\|Trire2\|120806\|	Serine/threonine-protein kinase	605.22 ± 59.32	5.05
68	11677	NCU01868	jgi\|Trire2\|59388\|	MFS maltose permease MalP	595.74 ± 3.43	3.71
69	18917	NCU05459	jgi\|Trire2\|65773\|	Mitochondrial AAA ATPase	595.8 ± 64.3	3.39
70	19405	NCU07574	jgi\|Trire2\|22294\|	Hypothetical protein	591.48 ± 5.41	2.96
71	17946	NCU04755	jgi\|Trire2\|45456\|	Protein kinase domain-containing protein ppk32	581.14 ± 12.76	1.12
72	17081	NCU01044	jgi\|Trire2\|63464\|	Hypothetical protein	580.08 ± 10.41	0.95
73	19059	NCU08307	jgi\|Trire2\|56077\|	Hypothetical protein	579.21 ± 100.55	0.3
74	17389	NCU02337	jgi\|Trire2\|80332\|	Mitochondrial carrier protein	576.12 ± 32.03	0.14
75	2489	#####	#####	Wild type	575.45 ± 36.81	0
76	16836	NCU04847	jgi\|Trire2\|52520\|	cyclin	573.97 ± 15.22	−0.13
77	20073	NCU06341	jgi\|Trire2\|44956\|	MFS transporter	573.58 ± 9.57	−0.17
78	19245	NCU02220	jgi\|Trire2\|64866\|	hypothetical protein	563.98 ± 19.59	−1.9
79	12078	NCU00523	jgi\|Trire2\|50268\|	NAD-dependent deacetylase sirtuin-2	551.74 ± 23.25	−4.05
80	12072	NCU04203	jgi\|Trire2\|121351\|	Glucosidase II alpha subunit	508.03 ± 35.04	−11.73
81	13475	NCU07119	jgi\|Trire2\|60458\|	Nonribosomal peptide synthase 2	503.65 ± 12.98	−12.37
82	19165	NCU05213	jgi\|Trire2\|75074\|	Hypothetical protein	449.4 ± 86.39	−22.22
83	18185	NCU08452	jgi\|Trire2\|110570\|	Hypothetical protein	439.95 ± 23.92	−23.52
84	16956	NCU02152	jgi\|Trire2\|3400\|	RRM domain-containing protein	430.62 ± 18.69	−25.11
85	11357	NCU03184	jgi\|Trire2\|4921\|	C2H2 conidiation transcription factor FlbC	419.08 ± 52.77	−27.31
86	20306	NCU08380	jgi\|Trire2\|122050\|	Plasma membrane phosphatase	416.5 ± 18.07	−27.57
87	11360	NCU03244	jgi\|Trire2\|62053\|	WD repeat protein	346.47 ± 27.22	−39.81

^a N. crassa orthologs: locus selected according to the N. crassa database (v7) (https://www.broadinstitute.org/annotation/genome/neurospora/MultiHome.html).
^bRUTC30 targets: locus selected according to the T. reesei genome sequence web site (http://genome.jgi-psf.org/Trire2/Trire2.home.html).
^cThe increased percentage of secreted protein relative to the WT. Strains more than 25% increased or decreased compared with the WT are shown in italics.

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