Genome and metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae

Simon M Dittami; Tristan Barbeyron; Catherine Boyen; Jeanne Cambefort; Guillaume Collet; Ludovic Delage; Angélique Gobet; Agnès Groisillier; Catherine Leblanc; Gurvan Michel; Delphine Scornet; Anne Siegel; Javier E Tapia; Thierry Tonon

doi:10.3389/fgene.2014.00241

Genome and metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae

Simon M Dittami, Tristan Barbeyron, Catherine Boyen, Jeanne Cambefort, Guillaume Collet, Ludovic Delage, Angélique Gobet, Agnès Groisillier, Catherine Leblanc, Gurvan Michel, Delphine Scornet, Anne Siegel, Javier E Tapia, Thierry Tonon

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Abstract

Rhizobiales and related orders of Alphaproteobacteria comprise several genera of nodule-inducing symbiotic bacteria associated with plant roots. Here we describe the genome and the metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a member of a new candidate genus closely related to Rhizobiales and found in association with cultures of the filamentous brown algal model Ectocarpus. The "Ca. P. ectocarpi" genome encodes numerous metabolic pathways that may be relevant for this bacterium to interact with algae. Notably, it possesses a large set of glycoside hydrolases and transporters, which may serve to process and assimilate algal metabolites. It also harbors several proteins likely to be involved in the synthesis of algal hormones such as auxins and cytokinins, as well as the vitamins pyridoxine, biotin, and thiamine. As of today, "Ca. P. ectocarpi" has not been successfully cultured, and identical 16S rDNA sequences have been found exclusively associated with Ectocarpus. However, related sequences (≥97% identity) have also been detected free-living and in a Fucus vesiculosus microbiome barcoding project, indicating that the candidate genus "Phaeomarinobacter" may comprise several species, which may colonize different niches.

Original language	English
Pages (from-to)	241
Journal	Frontiers in genetics
Volume	5
DOIs	https://doi.org/10.3389/fgene.2014.00241
Publication status	Published - 25 Jul 2014

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10.3389/fgene.2014.00241

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Dittami, S. M., Barbeyron, T., Boyen, C., Cambefort, J., Collet, G., Delage, L., Gobet, A., Groisillier, A., Leblanc, C., Michel, G., Scornet, D., Siegel, A., Tapia, J. E., & Tonon, T. (2014). Genome and metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae. Frontiers in genetics, 5, 241. https://doi.org/10.3389/fgene.2014.00241

@article{8282d11b2cef4b66abe9fbc9d6dd9304,

title = "Genome and metabolic network of {"}Candidatus Phaeomarinobacter ectocarpi{"} Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae",

abstract = "Rhizobiales and related orders of Alphaproteobacteria comprise several genera of nodule-inducing symbiotic bacteria associated with plant roots. Here we describe the genome and the metabolic network of {"}Candidatus Phaeomarinobacter ectocarpi{"} Ec32, a member of a new candidate genus closely related to Rhizobiales and found in association with cultures of the filamentous brown algal model Ectocarpus. The {"}Ca. P. ectocarpi{"} genome encodes numerous metabolic pathways that may be relevant for this bacterium to interact with algae. Notably, it possesses a large set of glycoside hydrolases and transporters, which may serve to process and assimilate algal metabolites. It also harbors several proteins likely to be involved in the synthesis of algal hormones such as auxins and cytokinins, as well as the vitamins pyridoxine, biotin, and thiamine. As of today, {"}Ca. P. ectocarpi{"} has not been successfully cultured, and identical 16S rDNA sequences have been found exclusively associated with Ectocarpus. However, related sequences (≥97% identity) have also been detected free-living and in a Fucus vesiculosus microbiome barcoding project, indicating that the candidate genus {"}Phaeomarinobacter{"} may comprise several species, which may colonize different niches. ",

author = "Dittami, {Simon M} and Tristan Barbeyron and Catherine Boyen and Jeanne Cambefort and Guillaume Collet and Ludovic Delage and Ang{\'e}lique Gobet and Agn{\`e}s Groisillier and Catherine Leblanc and Gurvan Michel and Delphine Scornet and Anne Siegel and Tapia, {Javier E} and Thierry Tonon",

year = "2014",

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doi = "10.3389/fgene.2014.00241",

language = "English",

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Dittami, SM, Barbeyron, T, Boyen, C, Cambefort, J, Collet, G, Delage, L, Gobet, A, Groisillier, A, Leblanc, C, Michel, G, Scornet, D, Siegel, A, Tapia, JE & Tonon, T 2014, 'Genome and metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae', Frontiers in genetics, vol. 5, pp. 241. https://doi.org/10.3389/fgene.2014.00241

TY - JOUR

T1 - Genome and metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a new candidate genus of Alphaproteobacteria frequently associated with brown algae

AU - Dittami, Simon M

AU - Barbeyron, Tristan

AU - Boyen, Catherine

AU - Cambefort, Jeanne

AU - Collet, Guillaume

AU - Delage, Ludovic

AU - Gobet, Angélique

AU - Groisillier, Agnès

AU - Leblanc, Catherine

AU - Michel, Gurvan

AU - Scornet, Delphine

AU - Siegel, Anne

AU - Tapia, Javier E

AU - Tonon, Thierry

PY - 2014/7/25

Y1 - 2014/7/25

N2 - Rhizobiales and related orders of Alphaproteobacteria comprise several genera of nodule-inducing symbiotic bacteria associated with plant roots. Here we describe the genome and the metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a member of a new candidate genus closely related to Rhizobiales and found in association with cultures of the filamentous brown algal model Ectocarpus. The "Ca. P. ectocarpi" genome encodes numerous metabolic pathways that may be relevant for this bacterium to interact with algae. Notably, it possesses a large set of glycoside hydrolases and transporters, which may serve to process and assimilate algal metabolites. It also harbors several proteins likely to be involved in the synthesis of algal hormones such as auxins and cytokinins, as well as the vitamins pyridoxine, biotin, and thiamine. As of today, "Ca. P. ectocarpi" has not been successfully cultured, and identical 16S rDNA sequences have been found exclusively associated with Ectocarpus. However, related sequences (≥97% identity) have also been detected free-living and in a Fucus vesiculosus microbiome barcoding project, indicating that the candidate genus "Phaeomarinobacter" may comprise several species, which may colonize different niches.

AB - Rhizobiales and related orders of Alphaproteobacteria comprise several genera of nodule-inducing symbiotic bacteria associated with plant roots. Here we describe the genome and the metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a member of a new candidate genus closely related to Rhizobiales and found in association with cultures of the filamentous brown algal model Ectocarpus. The "Ca. P. ectocarpi" genome encodes numerous metabolic pathways that may be relevant for this bacterium to interact with algae. Notably, it possesses a large set of glycoside hydrolases and transporters, which may serve to process and assimilate algal metabolites. It also harbors several proteins likely to be involved in the synthesis of algal hormones such as auxins and cytokinins, as well as the vitamins pyridoxine, biotin, and thiamine. As of today, "Ca. P. ectocarpi" has not been successfully cultured, and identical 16S rDNA sequences have been found exclusively associated with Ectocarpus. However, related sequences (≥97% identity) have also been detected free-living and in a Fucus vesiculosus microbiome barcoding project, indicating that the candidate genus "Phaeomarinobacter" may comprise several species, which may colonize different niches.

U2 - 10.3389/fgene.2014.00241

DO - 10.3389/fgene.2014.00241

M3 - Article

C2 - 25120558

SN - 1664-8021

VL - 5

SP - 241

JO - Frontiers in genetics

JF - Frontiers in genetics

ER -