Metaproteomics-guided selection of targeted enzymes for bioprospecting of mixed microbial communities

Speda, Jutta; Jonsson, Bengt-Harald; Carlsson, Uno; Karlsson, Martin

doi:10.1186/s13068-017-0815-z

Biotechnology for Biofuels and Bioproducts

Table 2 Upregulated protein spots identified as carbohydrate-active enzymes

From: Metaproteomics-guided selection of targeted enzymes for bioprospecting of mixed microbial communities

Spot no.	Method	No. of peptides	Of which unique	Score (−10lgP)	Database entry by PEAKS DB and SPIDER	Name	Category^a
1	PEAKS DB SPIDER	8	2	216.7	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
1	PEAKS DB SPIDER	9	3	246.3	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
2	PEAKS DB SPIDER	8	2	162.1	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
2	PEAKS DB SPIDER	11	4	172.5	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
3	PEAKS DB SPIDER	5	2	109.7	Gi\|489608295^b Gi\|740458809^c	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
3	PEAKS DB SPIDER	13	8	148.5	Gi\|489608295^b Gi\|740458809^c	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
4	PEAKS DB SPIDER	4	2	108.6	Gi\|489608295^b Gi\|740458809^c	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
4	PEAKS DB SPIDER	4	2	116.6	Gi\|489608295^b Gi\|740458809^c	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
5	PEAKS DB SPIDER	1	1	91.99	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
5	PEAKS DB SPIDER	1	1	91.99	Gi\|489608295^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
6	PEAKS DB SPIDER	7	5	126.8	Gi\|489614249^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
6	PEAKS DB SPIDER	8	3	133.8	Gi\|489614249^b	Cellulose 1,4-β-cellobiosidase	CAZy GH 9, NC, SP (1–27)
7	PEAKS DB SPIDER	17	4	216.7	Gi\|575088796^c	Endo 1-4-β-xylanase	CAZy GH 11, NC, SP (1–29)
7	PEAKS DB SPIDER	34	14	246.3	Gi\|575088796^c	Endo 1-4-β-xylanase	CAZy GH 11, NC, SP (1–29)
8	PEAKS DB SPIDER	4	2	121.9	Gi\|489614855^b Gi\|489609419^c	Carbohydrate-binding protein Endo 1-4-β-xylanase precursor	CAZy GH 11, NC, SP (1–29)
8	PEAKS DB SPIDER	4	4	121.9	Gi\|489614855^b Gi\|489609419^c	Carbohydrate-binding protein Endo 1-4-β-xylanase precursor	CAZy GH 11, NC, SP (1–29)
9	PEAKS DB SPIDER	5	3	97.4	Gi\|489614249^b Gi\|575088796^c	Cellulose 1,4-β-cellobiosidase Endo 1-4-β xylanase	CAZy GH 9, NC, SP (1–27) CAZy GH 11, NC, SP (1–29)
9	PEAKS DB SPIDER	6	3	106.1	Gi\|489614249^b Gi\|575088796^c	Cellulose 1,4-β-cellobiosidase Endo 1-4-β xylanase	CAZy GH 9, NC, SP (1–27) CAZy GH 11, NC, SP (1–29)
10	PEAKS DB SPIDER	8	2	149.6	Gi\|575088170^c	Cellobiose phosphorylase	CAZy GH 11, TM, SP (1–27)
10	PEAKS DB SPIDER	9	3	152.6	Gi\|575088170^c	Cellobiose phosphorylase	CAZy GH 11, TM, SP (1–27)
11	PEAKS DB SPIDER	9	2	136.7	Gi\|575088170^c Gi\|489613736^b	Cellobiose phosphorylase Glycosyl transferase	CAZy GH 94, TM
11	PEAKS DB SPIDER	9	2	139.2	Gi\|575088170^c Gi\|489613736^b	Cellobiose phosphorylase Glycosyl transferase	CAZy GH 94, TM
12	PEAKS DB SPIDER	2	1	74.76	Gi\|740457862^c	Glycosyl transferase	CAZy GH 94, TM
12	PEAKS DB SPIDER	2	1	74.76	Gi\|740457862^c	Glycosyl transferase	CAZy GH 94, TM
13	PEAKS DB SPIDER	7	2	120.6	Gi\|489616357^b	β-Glucosidase	CAZy GH 1, TM (weak), NC
13	PEAKS DB SPIDER	9	2	124.2	Gi\|489616357^b	β-Glucosidase	CAZy GH 1, TM (weak), NC
14	PEAKS DB SPIDER	14	4	243.8	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
14	PEAKS DB SPIDER	22	10	260.9	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
15	PEAKS DB SPIDER	8	4	178.1	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
15	PEAKS DB SPIDER	12	7	193.2	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
16	PEAKS DB SPIDER	9	3	166.4	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
16	PEAKS DB SPIDER	15	5	184.8	Gi\|553726407^b Gi\|489608943^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
17	PEAKS DB SPIDER	4	4	155.9	Gi:489613676^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)
17	PEAKS DB SPIDER	4	4	155.9	Gi:489613676^b	Hypothetical Ig domain protein	Carbohydrate act. enzyme domain, NC, SP (1–26)

^aIn CAZy database; GH glycoside hydrolase family no., NC non-cellulosomal, SP signal peptide, signal peptide sequence length in brackets, TM transmembrane
^b Ruminiclostridium thermocellum
^c Clostridium straminisolvens

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ISSN: 2731-3654

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