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Candidatus Pelagibacter ubique HTCC1013

ABSTRACT: Candidatus Pelagibacter ubique HTCC1013

PROVIDER: PRJNA182739 | ENA |

REPOSITORIES: ENA

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Dataset's files

Source:

			Action	DRS
	AWZX01.dat.gz	Other
	AWZX01.fasta.gz	Fasta.gz
	AWZX01.master.dat	Other
	SRR191833_1.fastq.gz	Fastqsanger.gz
	SRR191833_2.fastq.gz	Fastqsanger.gz

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Transcriptional Response to Iron Limitation in Pelagibacter ubique

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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.

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Candidatus Pelagibacter ubique HTCC9022

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

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Project description:Candidatus Pelagibacter ubique HTCC7214 Genome sequencing

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Candidatus Pelagibacter ubique HIMB083

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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. Six natural seawater cultures were amended with minimal nutrients and inoculated with P. ubique. Close to maximum cell density, all carboys were supplemented with 100 nM ferrichrome (an iron-chelating siderophore) and three carboys were additionally supplemented with 1 µM FeCl3. Each of the six carboys was sampled for microarray analyses one, two, and eleven days after the ferrichrome addition.

2010-05-05 | E-GEOD-20962 | biostudies-arrayexpress

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