Contigs directed gene annotation (ConDiGA) for accurate protein sequence database construction in metaproteomics

Microbiome

Table 2 Identification results of protein groups from the in silico mixed metaproteome data of the synthetic microbial community and the fecal sample using different databases

	BLAST			Kaiju			Kraken2			Merged databases
Species name	MD1	MD2	MD3	MD1	MD2	MD3	MD1	MD2	MD3
Bacteroides fragilis	509	428	526	152	421	523	511	540	537	486
Citrobacter freundii	938	756	670	123	410	964	58	89	977	926
Clostridium butyricum	696	682	666	158	429	662	699	699	669	640
Enterobacter asburiae	906	850	863	54	132	917	417	740	922	889
Enterococcus casseliflavus	56	107	369	66	356	384	80	237	384	360
Enterococcus faecalis	315	309	319	63	197	315	303	316	315	305
Escherichia coli	1075	948	1059	148	271	1164	174	219	1080	1030
Klebsiella aerogenes	500	434	456	355	460	506	489	515	511	467
Klebsiella pneumoniae	976	683	863	218	481	1277	109	109	970	1811
Lactobacillus acidophilus	743	747	748	542	748	748	742	748	750	720
Morganella morganii	1155	915	1153	171	718	1131	1158	1159	1147	1096
Pseudomonas aeruginosa	477	436	477	19	89	483	28	90	476	459
Target 12 species	8346	7295	8169	2069	4712	9074	4768	5461	8738	9189
Other species	1683	3277	8039	2274	4310	7851	3244	3158	6515	8090
Unannotated	7613	7070	1434	13,299	8620	717	9630	9023	2389	664
Total	17,642	17,642	17,642	17,642	17,642	17,642	17,642	17,642	17,642	17,943

The in silico mixed metagenome data were used to generated the protein sequence databases. A merged protein sequence database of the 12 species and the fecal sample was used as the reference

ISSN: 2049-2618