Evaluating the Hypoxia Response of Ruffe and Flounder Gills by a Combined Proteome and Transcriptome Approach
- Publikationstyp:
- Zeitschriftenaufsatz
- Metadaten:
-
- Autoren
- Jessica Tiedke
- Janus Borner
- Hendrik Beeck
- Marcel Kwiatkowski
- Hanno Schmidt
- Ralf Thiel
- Andrej Fabrizius
- Thorsten Burmester
- Autoren-URL
- https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000359493600132&DestLinkType=FullRecord&DestApp=WOS_CPL
- DOI
- 10.1371/journal.pone.0135911
- Externe Identifier
- Clarivate Analytics Document Solution ID: CO9KD
- PubMed Identifier: 26273839
- ISSN
- 1932-6203
- Ausgabe der Veröffentlichung
- 8
- Zeitschrift
- PLOS ONE
- Artikelnummer
- ARTN e0135911
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Titel
- Evaluating the Hypoxia Response of Ruffe and Flounder Gills by a Combined Proteome and Transcriptome Approach
- Sub types
- Article
- Ausgabe der Zeitschrift
- 10
Datenquelle: Web of Science (Lite)
- Andere Metadatenquellen:
-
- Autoren
- Jessica Tiedke
- Janus Borner
- Hendrik Beeck
- Marcel Kwiatkowski
- Hanno Schmidt
- Ralf Thiel
- Andrej Fabrizius
- Thorsten Burmester
- DOI
- 10.1371/journal.pone.0135911
- Editoren
- Ken Mills
- eISSN
- 1932-6203
- Ausgabe der Veröffentlichung
- 8
- Zeitschrift
- PLOS ONE
- Sprache
- en
- Online publication date
- 2015
- Paginierung
- e0135911 - e0135911
- Status
- Published online
- Herausgeber
- Public Library of Science (PLoS)
- Herausgeber URL
- http://dx.doi.org/10.1371/journal.pone.0135911
- Datum der Datenerfassung
- 2022
- Titel
- Evaluating the Hypoxia Response of Ruffe and Flounder Gills by a Combined Proteome and Transcriptome Approach
- Ausgabe der Zeitschrift
- 10
Datenquelle: Crossref
- Abstract
- Hypoxia has gained ecological importance during the last decades, and it is the most dramatically increasing environmental factor in coastal areas and estuaries. The gills of fish are the prime target of hypoxia and other stresses. Here we have studied the impact of the exposure to hypoxia (1.5 mg O2/l for 48 h) on the protein expression of the gills of two estuarine fish species, the ruffe (Gymnocephalus cernua) and the European flounder (Platichthys flesus). First, we obtained the transcriptomes of mixed tissues (gills, heart and brain) from both species by Illumina next-generation sequencing. Then, the gill proteomes were investigated using two-dimensional gel electrophoresis and mass spectrometry. Quantification of the normalized proteome maps resulted in a total of 148 spots in the ruffe, of which 28 (18.8%) were significantly regulated (> 1.5-fold). In the flounder, 121 spots were found, of which 27 (22.3%) proteins were significantly regulated. The transcriptomes were used for the identification of these proteins, which was successful for 15 proteins of the ruffe and 14 of the flounder. The ruffe transcriptome dataset comprised 87,169,850 reads, resulting in an assembly of 72,108 contigs (N50 = 1,828 bp). 20,860 contigs (26.93%) had blastx hits with E < 1e-5 in the human sequences in the RefSeq database, representing 14,771 unique accession numbers. The flounder transcriptome with 78,943,030 reads assembled into 49,241 contigs (N50 = 2,106 bp). 20,127 contigs (40.87%) had a hit with human proteins, corresponding to 14,455 unique accession numbers. The regulation of selected genes was confirmed by quantitative real-time RT-PCR. Most of the regulated proteins that were identified by this approach function in the energy metabolism, while others are involved in the immune response, cell signalling and the cytoskeleton.
- Addresses
- Institute of Zoology, University of Hamburg, Hamburg, Germany.
- Autoren
- Jessica Tiedke
- Janus Borner
- Hendrik Beeck
- Marcel Kwiatkowski
- Hanno Schmidt
- Ralf Thiel
- Andrej Fabrizius
- Thorsten Burmester
- DOI
- 10.1371/journal.pone.0135911
- eISSN
- 1932-6203
- Externe Identifier
- PubMed Identifier: 26273839
- PubMed Central ID: PMC4537130
- Open access
- true
- ISSN
- 1932-6203
- Ausgabe der Veröffentlichung
- 8
- Zeitschrift
- PloS one
- Schlüsselwörter
- Gills
- Animals
- Flounder
- Fish Proteins
- Proteome
- Proteomics
- Databases, Genetic
- Transcriptome
- Hypoxia
- Sprache
- eng
- Medium
- Electronic-eCollection
- Online publication date
- 2015
- Open access status
- Open Access
- Paginierung
- e0135911
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Publisher licence
- CC BY
- Datum der Datenerfassung
- 2015
- Titel
- Evaluating the Hypoxia Response of Ruffe and Flounder Gills by a Combined Proteome and Transcriptome Approach.
- Sub types
- Research Support, Non-U.S. Gov't
- research-article
- Journal Article
- Ausgabe der Zeitschrift
- 10
Files
https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0135911&type=printable https://europepmc.org/articles/PMC4537130?pdf=render
Datenquelle: Europe PubMed Central
- Abstract
- Hypoxia has gained ecological importance during the last decades, and it is the most dramatically increasing environmental factor in coastal areas and estuaries. The gills of fish are the prime target of hypoxia and other stresses. Here we have studied the impact of the exposure to hypoxia (1.5 mg O2/l for 48 h) on the protein expression of the gills of two estuarine fish species, the ruffe (Gymnocephalus cernua) and the European flounder (Platichthys flesus). First, we obtained the transcriptomes of mixed tissues (gills, heart and brain) from both species by Illumina next-generation sequencing. Then, the gill proteomes were investigated using two-dimensional gel electrophoresis and mass spectrometry. Quantification of the normalized proteome maps resulted in a total of 148 spots in the ruffe, of which 28 (18.8%) were significantly regulated (> 1.5-fold). In the flounder, 121 spots were found, of which 27 (22.3%) proteins were significantly regulated. The transcriptomes were used for the identification of these proteins, which was successful for 15 proteins of the ruffe and 14 of the flounder. The ruffe transcriptome dataset comprised 87,169,850 reads, resulting in an assembly of 72,108 contigs (N50 = 1,828 bp). 20,860 contigs (26.93%) had blastx hits with E < 1e-5 in the human sequences in the RefSeq database, representing 14,771 unique accession numbers. The flounder transcriptome with 78,943,030 reads assembled into 49,241 contigs (N50 = 2,106 bp). 20,127 contigs (40.87%) had a hit with human proteins, corresponding to 14,455 unique accession numbers. The regulation of selected genes was confirmed by quantitative real-time RT-PCR. Most of the regulated proteins that were identified by this approach function in the energy metabolism, while others are involved in the immune response, cell signalling and the cytoskeleton.
- Date of acceptance
- 2015
- Autoren
- Jessica Tiedke
- Janus Borner
- Hendrik Beeck
- Marcel Kwiatkowski
- Hanno Schmidt
- Ralf Thiel
- Andrej Fabrizius
- Thorsten Burmester
- Autoren-URL
- https://www.ncbi.nlm.nih.gov/pubmed/26273839
- DOI
- 10.1371/journal.pone.0135911
- eISSN
- 1932-6203
- Externe Identifier
- PubMed Central ID: PMC4537130
- Ausgabe der Veröffentlichung
- 8
- Zeitschrift
- PLoS One
- Schlüsselwörter
- Animals
- Databases, Genetic
- Fish Proteins
- Flounder
- Gills
- Hypoxia
- Proteome
- Proteomics
- Transcriptome
- Sprache
- eng
- Country
- United States
- Paginierung
- e0135911
- PII
- PONE-D-15-11051
- Datum der Veröffentlichung
- 2015
- Status
- Published online
- Datum, an dem der Datensatz öffentlich gemacht wurde
- 2016
- Titel
- Evaluating the Hypoxia Response of Ruffe and Flounder Gills by a Combined Proteome and Transcriptome Approach.
- Sub types
- Journal Article
- Research Support, Non-U.S. Gov't
- Ausgabe der Zeitschrift
- 10
Datenquelle: PubMed
- Beziehungen:
- Eigentum von