Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton.
Actinobacteria within the acI lineage are often numerically dominating in freshwater ecosystems, where they can account for >50% of total bacteria in the surface water. However, they remain uncultured to date. We thus set out to use single-cell genomics to gain insights into their genetic make-up, with the aim of learning about their physiology and ecological niche. A representative from the highly abundant acI-B1 group was selected for shotgun genomic sequencing. We obtained a draft genomic sequence in 75 larger contigs (sum=1.16 Mb), with an unusually low genomic G+C mol% (∼42%). Actinobacteria core gene analysis suggests an almost complete genome recovery. We found that the acI-B1 cell had a small genome, with a rather low percentage of genes having no predicted functions (∼15%) as compared with other cultured and genome-sequenced microbial species. Our metabolic reconstruction hints at a facultative aerobe microorganism with many transporters and enzymes for pentoses utilization (for example, xylose). We also found an actinorhodopsin gene that may contribute to energy conservation under unfavorable conditions. This project reveals the metabolic potential of a member of the global abundant freshwater Actinobacteria.
Jena School for Microbial Communication (JSMC) and Microbial Ecology Group at Friedrich Schiller University Jena, Jena, Germany.
Sarahi L
SL
Garcia
Katherine D
KD
McMahon
Manuel
M
Martinez-Garcia
Abhishek
A
Srivastava
Alexander
A
Sczyrba
Ramunas
R
Stepanauskas
Hans-Peter
HP
Grossart
Tanja
T
Woyke
Falk
F
Warnecke
D039903:Actinobacteria / Q000235:genetics / Q000378:metabolism*; D004269:DNA, Bacterial / Q000235:genetics; D017753:Ecosystem; D005618:Fresh Water / Q000382:microbiology*; D016680:Genome, Bacterial; D026901:Membrane Transport Proteins / Q000235:genetics / Q000378:metabolism; D010802:Phylogeny; D010933:Plankton / Q000235:genetics / Q000378:metabolism*; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA
D004269:DNA, Bacterial; D026901:Membrane Transport Proteins; D012336:RNA, Ribosomal, 16S