Probing the texture of the rare biosphere: We have bracketed the dimensions of the rare biosphere in two marine bacterial samples by comparing a deep (1 million sequences per sample) pyrosequencing analysis of the two samples and the cultures isolated from one of them.

The relatively recent development of high-throughput sequencing (HTS) techniques has revealed a wealth of novel sequences found in very low abundance: the rare biosphere. Today, most studies of diversity of microorganisms are carried out almost exclusively with HTS techniques. However, culturing seems indispensable for diversity studies especially if the aim is exploring the rare biosphere. We have carried out a deep (1 million sequences per sample) pyrosequencing analysis of two marine bacterial samples and isolated a culture collection from one of them. We have shown that the collectors curves of the pyrosequencing data were close to reaching an asymptote and estimated the total sample richness and sequencing effort necessary to obtain given fractions of the total richness experimentally. Comparing the pyrosequencing data and the isolate sequences we found that isolation retrieves some of the rarest taxa and that the composition of rare taxa follows an annual succession. We have also shown that increasing the number of tags sequenced would slowly uncover the isolated bacteria however, even if the whole bacterial diversity were found by sequencing, culturing would still be essential for the study of marine bacterial communities, especially if the target is the rare biosphere.

Identifier
Source https://data.blue-cloud.org/search-details?step=~0129502E05C6DDDC8C6ECCADA77DF24A5B866B559D3
Metadata Access https://data.blue-cloud.org/api/collections/9502E05C6DDDC8C6ECCADA77DF24A5B866B559D3
Provenance
Instrument 454 GS FLX Titanium; LS454
Publisher Blue-Cloud Data Discovery & Access service; ELIXIR-ENA
Contributor nstitute of Marine Sciences (ICM);Spanish Research Council. Barcelona;ICM
Publication Year 2024
OpenAccess true
Contact blue-cloud-support(at)maris.nl
Representation
Discipline Marine Science
Spatial Coverage (2.783W, 40.867S, 2.783E, 40.867N)
Temporal Point 2011-09-15T00:00:00Z