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Advantages of label free method in comparison with 2DE proteomic analysis of Butyrivibrio fibrisolvens 3071 grown on different carbon sources

SYSNO ASEP	0563989
Document Type	J - Journal Article
R&D Document Type	Journal Article
Subsidiary J	Článek ve WOS
Title	Advantages of label free method in comparison with 2DE proteomic analysis of Butyrivibrio fibrisolvens 3071 grown on different carbon sources
Author(s)	Sechovcová, Hana (UZFG-Y)_ORCID Rudl Kulhavá, Lucie (FGU-C)_{ORCID, RID} Fliegerová, Kateřina (UZFG-Y)_{RID, ORCID} Killer, Jiří (UZFG-Y)_{RID, ORCID} Kopečný, Jan (UZFG-Y)_{RID, ORCID}
Source Title	Italian Journal of Animal Science - ISSN 1594-4077 Roč. 21, č. 1 (2022), s. 1508-1519
Number of pages	12 s.
Publication form	Online - E
Language	eng - English
Country	IT - Italy
Keywords	butyrivibrio fibrisolvens ; label-free ; 2DE ; proteomics ; rumen
Subject RIV	EE - Microbiology, Virology
OECD category	Microbiology
R&D Projects	EF15_003/0000460 GA MŠMT - Ministry of Education, Youth and Sports (MEYS)
Method of publishing	Open access
Institutional support	UZFG-Y - RVO:67985904 ; FGU-C - RVO:67985823
UT WOS	000868161000001
EID SCOPUS	85148463551
DOI	10.1080/1828051X.2022.2129477
Annotation	The aim of this study was the comparison of label-free method with 2DE to other analytical method of bacterium Butyrivibrio fibrisolvens extracellular protein samples. Label-free quantification (LF) method performed in this work was compared with previously obtained results of proteomic analysis using two-dimensional electrophoresis (2DE) and nano-liquid chromatography coupled with mass spectroscopy (nLC/MS). B. fibrisolvens as an important plant fibre degrader was cultivated on four different carbon sources (including xylan, xylose, glucose, and a mixture of xylan with glucose). The impact of growth substrate on protein profile was assessed by six pair-wise comparisons evaluating the significantly differently abundant extracellular proteins. Gel-free and gel-based methods resulted in substantially dissimilar results. The LC-MS/MS approach detected substrate-dependent differences in transport and binding membrane proteins (TBP) and nucleotidase, while the 2DE approach detected substrate effect on proteins included in protein synthesis and butyrate synthesis. On the other hand, both methods observed differentially regulated proteins involved in the glycolytic pathway, however, the only shared enzyme (protein detected both by 2DE and LC-MS/MS approach) was fructose-bisphosphate aldolase. The LC-MS/MS approach detected a high abundance of separated peptides. However, it cannot be easily considered as supreme to 2DE analysis. Both methods differ in sample preparation, their advantages and limitations. The study findings indicate these methods can complement each other and together they elucidate better the metabolic functions of B. fibrisolvens.
Workplace	Institute of Animal Physiology and Genetics
Contact	Jana Zásmětová, knihovna@iapg.cas.cz, Tel.: 315 639 554
Year of Publishing	2023
Electronic address	https://www.tandfonline.com/doi/full/10.1080/1828051X.2022.2129477

Number of the records: 1