Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation
Compared to free (free-living) cells, biofilm cells show increased resistance and stability to high-pressure fermentation conditions, although the reasons underlying these phenomena remain unclear. Here, we investigated biofilm formation with immobilized Saccharomyces cerevisiae cells grown on fiber...
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2015-02-01
|
| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00139/full |
| _version_ | 1819264263595753472 |
|---|---|
| author | Zhenjian eLi Zhenjian eLi Yong eChen Yong eChen Dong eLiu Nan eZhao Hao eCheng Hengfei eRen Ting eGuo Huanqing eNiu Wei eZhuang Jinglan eWu Hanjie eYing Hanjie eYing Hanjie eYing |
| author_facet | Zhenjian eLi Zhenjian eLi Yong eChen Yong eChen Dong eLiu Nan eZhao Hao eCheng Hengfei eRen Ting eGuo Huanqing eNiu Wei eZhuang Jinglan eWu Hanjie eYing Hanjie eYing Hanjie eYing |
| author_sort | Zhenjian eLi |
| collection | DOAJ |
| description | Compared to free (free-living) cells, biofilm cells show increased resistance and stability to high-pressure fermentation conditions, although the reasons underlying these phenomena remain unclear. Here, we investigated biofilm formation with immobilized Saccharomyces cerevisiae cells grown on fiber surfaces during the process of ethanol fermentation. The development of biofilm colonies was visualized by fluorescent labeling and confocal microscopy. RNA from yeast cells at 3 different biofilm development periods was extracted and sequenced by high-throughput sequencing. We quantitated gene expression differences between biofilm cells and free cells and found that 2098, 1556, and 927 genes were significantly differentially expressed respectively. We also validated the expression of previously reported genes and identified novel genes and pathways under the control of this system. Statistical analysis revealed that biofilm genes show significant gene expression changes principally in the initial period of biofilm formation compared to later periods. Carbohydrate metabolism, amino acid metabolism, signal transduction, and oxidoreductase activity were needed for biofilm formation. In contrast to previous findings, we observed some differential expression performances of FLO family genes, indicating that cell aggregation in our immobilized fermentation system was possibly independent of flocculation. Cyclic AMP-protein kinase A and mitogen-activated protein kinase pathways regulated signal transduction pathways during yeast biofilm formation. We found that carbohydrate metabolism, especially glycolysis/gluconeogenesis, played a key role in the development of S. cerevisiae biofilms. This work provides an important dataset for future studies aimed at gaining insight into the regulatory mechanisms of immobilized cells in biofilms, as well as for optimizing bioprocessing applications with S. cerevisiae. |
| first_indexed | 2024-12-23T20:26:42Z |
| format | Article |
| id | doaj.art-a73cef9e50d94ec0bfbba6a78403a0a3 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-23T20:26:42Z |
| publishDate | 2015-02-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-a73cef9e50d94ec0bfbba6a78403a0a32022-12-21T17:32:21ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2015-02-01610.3389/fmicb.2015.00139125888Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentationZhenjian eLi0Zhenjian eLi1Yong eChen2Yong eChen3Dong eLiu4Nan eZhao5Hao eCheng6Hengfei eRen7Ting eGuo8Huanqing eNiu9Wei eZhuang10Jinglan eWu11Hanjie eYing12Hanjie eYing13Hanjie eYing14Nanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityNanjing Tech UniversityCompared to free (free-living) cells, biofilm cells show increased resistance and stability to high-pressure fermentation conditions, although the reasons underlying these phenomena remain unclear. Here, we investigated biofilm formation with immobilized Saccharomyces cerevisiae cells grown on fiber surfaces during the process of ethanol fermentation. The development of biofilm colonies was visualized by fluorescent labeling and confocal microscopy. RNA from yeast cells at 3 different biofilm development periods was extracted and sequenced by high-throughput sequencing. We quantitated gene expression differences between biofilm cells and free cells and found that 2098, 1556, and 927 genes were significantly differentially expressed respectively. We also validated the expression of previously reported genes and identified novel genes and pathways under the control of this system. Statistical analysis revealed that biofilm genes show significant gene expression changes principally in the initial period of biofilm formation compared to later periods. Carbohydrate metabolism, amino acid metabolism, signal transduction, and oxidoreductase activity were needed for biofilm formation. In contrast to previous findings, we observed some differential expression performances of FLO family genes, indicating that cell aggregation in our immobilized fermentation system was possibly independent of flocculation. Cyclic AMP-protein kinase A and mitogen-activated protein kinase pathways regulated signal transduction pathways during yeast biofilm formation. We found that carbohydrate metabolism, especially glycolysis/gluconeogenesis, played a key role in the development of S. cerevisiae biofilms. This work provides an important dataset for future studies aimed at gaining insight into the regulatory mechanisms of immobilized cells in biofilms, as well as for optimizing bioprocessing applications with S. cerevisiae.http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00139/fullBiofilmsSaccharomyces cerevisiaeSignaling Pathwaysbiochemical pathwaysTranscriptional profilesFLO family genes |
| spellingShingle | Zhenjian eLi Zhenjian eLi Yong eChen Yong eChen Dong eLiu Nan eZhao Hao eCheng Hengfei eRen Ting eGuo Huanqing eNiu Wei eZhuang Jinglan eWu Hanjie eYing Hanjie eYing Hanjie eYing Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation Frontiers in Microbiology Biofilms Saccharomyces cerevisiae Signaling Pathways biochemical pathways Transcriptional profiles FLO family genes |
| title | Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation |
| title_full | Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation |
| title_fullStr | Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation |
| title_full_unstemmed | Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation |
| title_short | Involvement of glycolysis/gluconeogenesis and signaling regulatory pathways in Saccharomyces cerevisiae biofilms during fermentation |
| title_sort | involvement of glycolysis gluconeogenesis and signaling regulatory pathways in saccharomyces cerevisiae biofilms during fermentation |
| topic | Biofilms Saccharomyces cerevisiae Signaling Pathways biochemical pathways Transcriptional profiles FLO family genes |
| url | http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00139/full |
| work_keys_str_mv | AT zhenjianeli involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT zhenjianeli involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT yongechen involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT yongechen involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT dongeliu involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT nanezhao involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT haoecheng involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT hengfeieren involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT tingeguo involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT huanqingeniu involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT weiezhuang involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT jinglanewu involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT hanjieeying involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT hanjieeying involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation AT hanjieeying involvementofglycolysisgluconeogenesisandsignalingregulatorypathwaysinsaccharomycescerevisiaebiofilmsduringfermentation |