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Candidatus pelagibacter ubique HTCC1062 requires 4-amino-5-hydroxymethyl-2-methylpyrimidine, an abundant thiamine precursor in the sea

ABSTRACT: Thiamine is often undetectable in ocean surface waters where Pelagibacter cells are numerically abundant. Despite this, Pelagibacter cells are missing de novo thiamine synthesis pathways. We show that an eogenous source of the thiamine precursor HMP is required for thiamine synthesis in Pelagibacter and that this precursor is abundant in the Sargasso sea.

ORGANISM(S): Candidatus Pelagibacter ubique HTCC1062 Candidatus Pelagibacter sp. HTCC7211 Candidatus Pelagibacter ubique HTCC1002

PROVIDER: GSE46673 | GEO | 2015/01/20

SECONDARY ACCESSION(S): PRJNA201488

REPOSITORIES: GEO

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Candidatus pelagibacter ubique HTCC1062 requires 4-amino-5-hydroxymethyl-2-methylpyrimidine, an abundant thiamine precursor in the sea

Project description:Thiamine is often undetectable in ocean surface waters where Pelagibacter cells are numerically abundant. Despite this, Pelagibacter cells are missing de novo thiamine synthesis pathways. We show that an eogenous source of the thiamine precursor HMP is required for thiamine synthesis in Pelagibacter and that this precursor is abundant in the Sargasso sea. Batch cultures of P. ubique were grown in a defined arificial seawater media. Three cultures were given no thiamine amendment, and three other cultures received an excess concentration of thiamine. Cultures were harvested for microarray analyses just prior to and after thiamine limitation for the purpose of observing differences in gene expression related to thiamine limitation.

2015-01-20 | E-GEOD-46673 | biostudies-arrayexpress

Candidatus Pelagibacter ubique HTCC1062

Project description:Candidatus pelagibacter ubique HTCC1062 requires 4-amino-5-hydroxymethyl-2-methylpyrimidine, an abundant thiamine precursor in the sea

| PRJNA201488 | ENA

Transcriptional control in Candidatus Pelagibacter ubique and other marine bacterial taxa

Project description:Bacteria respond to stimuli in the environment using transcriptional control, but this may not be the case for most marine bacteria having small, streamlined genomes. Candidatus Pelagibacter ubique, a cultivated representative of the SAR11 clade, which is the most abundant clade in the oceans 4, has a small, streamlined genome and possesses an unusually small number of transcriptional regulators. This observation leads to the hypothesis that transcriptional control is low in Pelagibacter and limits its response to environmental conditions. However, the extent of transcriptional control in Pelagibacter is unknown. Here we show that transcriptional control is extremely low in Pelagibacter and another oligotroph (SAR92) compared to two marine copiotrophic bacterial taxa, Polaribacter MED152 and Ruegeria pomeroyi. We found that ~0.1% of protein-encoding genes in Pelagibacter are under transcriptional control compared to >10% of genes in other marine bacteria. Regardless of the growth condition, the same genes were highly expressed while most genes were always expressed at very low levels. Quantitative RNA sequencing revealed that abundances of most Pelagibacter transcripts were <0.01 copies per cell whereas transcript abundances were 1 to 10 copies per cell in some other bacteria. Our results demonstrate that Pelagibacter can change growth without shifts in transcript levels, suggesting that transcriptional control plays a minimal role in the adaptive strategy for one of the most successful organisms in the biosphere.

2015-03-03 | GSE66443 | GEO

Transcriptional control in Candidatus Pelagibacter ubique and other marine bacterial taxa

2015-03-03 | E-GEOD-66443 | biostudies-arrayexpress

Transcriptional Response to Iron Limitation in Pelagibacter ubique

Project description:We investigated the gene expression responses of Candidatus Pelagibacter ubique cultures to iron limitation. Differential expression was observed for genes in iron acquisition and incorporation operons. SfuC in particular was 16 times higher in iron-limited cultures and encodes a periplasmic iron-binding protein.

2010-05-05 | GSE20962 | GEO

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