Genomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein.

2.50
Hdl Handle:
http://hdl.handle.net/10033/295199
Title:
Genomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein.
Authors:
Riedel, Thomas; Gómez-Consarnau, Laura; Tomasch, Jürgen; Martin, Madeleine; Jarek, Michael; González, José M; Spring, Stefan; Rohlfs, Meike; Brinkhoff, Thorsten; Cypionka, Heribert; Göker, Markus; Fiebig, Anne; Klein, Johannes; Goesmann, Alexander; Fuhrman, Jed A; Wagner-Döbler, Irene
Abstract:
Proteorhodopsin (PR) photoheterotrophy in the marine flavobacterium Dokdonia sp. PRO95 has previously been investigated, showing no growth stimulation in the light at intermediate carbon concentrations. Here we report the genome sequence of strain PRO95 and compare it to two other PR encoding Dokdonia genomes: that of strain 4H-3-7-5 which shows the most similar genome, and that of strain MED134 which grows better in the light under oligotrophic conditions. Our genome analysis revealed that the PRO95 genome as well as the 4H-3-7-5 genome encode a protein related to xanthorhodopsins. The genomic environment and phylogenetic distribution of this gene suggest that it may have frequently been recruited by lateral gene transfer. Expression analyses by RT-PCR and direct mRNA-sequencing showed that both rhodopsins and the complete β-carotene pathway necessary for retinal production are transcribed in PRO95. Proton translocation measurements showed enhanced proton pump activity in response to light, supporting that one or both rhodopsins are functional. Genomic information and carbon source respiration data were used to develop a defined cultivation medium for PRO95, but reproducible growth always required small amounts of yeast extract. Although PRO95 contains and expresses two rhodopsin genes, light did not stimulate its growth as determined by cell numbers in a nutrient poor seawater medium that mimics its natural environment, confirming previous experiments at intermediate carbon concentrations. Starvation or stress conditions might be needed to observe the physiological effect of light induced energy acquisition.
Affiliation:
Helmholtz-Centre for Infection Research, Braunschweig, Germany. Thomas.Riedel@helmholtz-hzi.de
Citation:
Genomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein. 2013, 8 (3):e57487 PLoS ONE
Journal:
PloS one
Issue Date:
2013
URI:
http://hdl.handle.net/10033/295199
DOI:
10.1371/journal.pone.0057487
PubMed ID:
23526944
Type:
Article
Language:
en
ISSN:
1932-6203
Appears in Collections:
collections of the research group microbial communication (KOM)

Full metadata record

DC FieldValue Language
dc.contributor.authorRiedel, Thomasen_GB
dc.contributor.authorGómez-Consarnau, Lauraen_GB
dc.contributor.authorTomasch, Jürgenen_GB
dc.contributor.authorMartin, Madeleineen_GB
dc.contributor.authorJarek, Michaelen_GB
dc.contributor.authorGonzález, José Men_GB
dc.contributor.authorSpring, Stefanen_GB
dc.contributor.authorRohlfs, Meikeen_GB
dc.contributor.authorBrinkhoff, Thorstenen_GB
dc.contributor.authorCypionka, Heriberten_GB
dc.contributor.authorGöker, Markusen_GB
dc.contributor.authorFiebig, Anneen_GB
dc.contributor.authorKlein, Johannesen_GB
dc.contributor.authorGoesmann, Alexanderen_GB
dc.contributor.authorFuhrman, Jed Aen_GB
dc.contributor.authorWagner-Döbler, Ireneen_GB
dc.date.accessioned2013-07-04T08:47:54Z-
dc.date.available2013-07-04T08:47:54Z-
dc.date.issued2013-
dc.identifier.citationGenomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein. 2013, 8 (3):e57487 PLoS ONEen_GB
dc.identifier.issn1932-6203-
dc.identifier.pmid23526944-
dc.identifier.doi10.1371/journal.pone.0057487-
dc.identifier.urihttp://hdl.handle.net/10033/295199-
dc.description.abstractProteorhodopsin (PR) photoheterotrophy in the marine flavobacterium Dokdonia sp. PRO95 has previously been investigated, showing no growth stimulation in the light at intermediate carbon concentrations. Here we report the genome sequence of strain PRO95 and compare it to two other PR encoding Dokdonia genomes: that of strain 4H-3-7-5 which shows the most similar genome, and that of strain MED134 which grows better in the light under oligotrophic conditions. Our genome analysis revealed that the PRO95 genome as well as the 4H-3-7-5 genome encode a protein related to xanthorhodopsins. The genomic environment and phylogenetic distribution of this gene suggest that it may have frequently been recruited by lateral gene transfer. Expression analyses by RT-PCR and direct mRNA-sequencing showed that both rhodopsins and the complete β-carotene pathway necessary for retinal production are transcribed in PRO95. Proton translocation measurements showed enhanced proton pump activity in response to light, supporting that one or both rhodopsins are functional. Genomic information and carbon source respiration data were used to develop a defined cultivation medium for PRO95, but reproducible growth always required small amounts of yeast extract. Although PRO95 contains and expresses two rhodopsin genes, light did not stimulate its growth as determined by cell numbers in a nutrient poor seawater medium that mimics its natural environment, confirming previous experiments at intermediate carbon concentrations. Starvation or stress conditions might be needed to observe the physiological effect of light induced energy acquisition.en_GB
dc.language.isoenen
dc.rightsArchived with thanks to PloS oneen_GB
dc.titleGenomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein.en
dc.typeArticleen
dc.contributor.departmentHelmholtz-Centre for Infection Research, Braunschweig, Germany. Thomas.Riedel@helmholtz-hzi.deen_GB
dc.identifier.journalPloS oneen_GB

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