Data/hora: 11/06/2024 14:41:35

Provedor de dados: | 5
País: | France
Título: | Development of a targeted metagenomic approach to study a genomic region involved in light harvesting in marine Synechococcus
Autores: | Humily, Florian; Farrant, Gregory K.; Marie, Dominique; Partensky, Frederic; Mazard, Sophie; Perennou, Morgan; Labadie, Karine; Aury, Jean-marc; Wincker, Patrick; Segui, Audrey Nicolas; Scanlan, David J.; Garczarek, Laurence.
Data: | 2014-05
Ano: | 2014
Palavras-chave: | Marine cyanobacteria; Phycobilisomes; Whole-genome amplification; Flow cytometry cell sorting; Fosmid library.
Resumo: | Synechococcus, one of the most abundant cyanobacteria in marine ecosystems, displays a broad pigment diversity. However, the in situ distribution of pigment types remains largely unknown. In this study, we combined flow cytometry cell sorting, whole-genome amplification, and fosmid library construction to target a genomic region involved in light-harvesting complex (phycobilisome) biosynthesis and regulation. Synechococcus community composition and relative contamination by heterotrophic bacteria were assessed at each step of the pipeline using terminal restriction fragment length polymorphism targeting the petB and 16S rRNA genes, respectively. This approach allowed us to control biases inherent to each method and select reliable WGA products to construct a fosmid library from a natural sample collected off Roscoff (France). Sequencing of 25 fosmids containing the targeted region led to the assembly of whole or partial phycobilisome regions. Most contigs were assigned to clades I and IV consistent with the known dominance of these clades in temperate coastal waters. However, one of the fosmids contained genes distantly related to their orthologs in reference genomes, suggesting that it belonged to a novel phylogenetic clade. Altogether, this study provides novel insights into Synechococcus community structure and pigment type diversity at a representative coastal station of the English Channel.
Tipo: | Text
Idioma: | Inglês

Identificador:

https://archimer.ifremer.fr/doc/00374/48495/48843.pdf

DOI:10.1111/1574-6941.12285

https://archimer.ifremer.fr/doc/00374/48495/

Editor: | Wiley-blackwell

Relação:

info:eu-repo/grantAgreement/EC/FP7/287589/EU//MICRO B3

info:eu-repo/grantAgreement/EC/FP7/311975/EU//MACUMBA

Formato: | application/pdf
Fonte: | Fems Microbiology Ecology (0168-6496) (Wiley-blackwell), 2014-05 , Vol. 88 , N. 2 , P. 231-249

Fonte:

2014 Federation of European Microbiological Societies. Published by John Wiley &amp; Sons Ltd. All rights reserved

info:eu-repo/semantics/openAccess

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