Open AccessGenomic differentiation among two strains of the PS 1 clade isolated from geographically separated marine habitats
Author(s) -
JimenezInfante Francy,
Ngugi David K.,
Alam Intikhab,
Rashid Mamoon,
Baalawi Wail,
Kamau Allan A.,
Bajic Vladimir B.,
Stingl Ulrich
Publication year - 2014
Publication title -
fems microbiology ecology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.377
H-Index - 155
eISSN - 1574-6941
pISSN - 0168-6496
DOI - 10.1111/1574-6941.12348
Subject(s) - biology , clade , metagenomics , genome , alphaproteobacteria , gene , evolutionary biology , genetics , phylogenetics , 16s ribosomal rna
Using dilution‐to‐extinction cultivation, we isolated a strain affiliated with the PS 1 clade from surface waters of the R ed S ea. Strain RS 24 represents the second isolate of this group of marine A lphaproteobacteria after IMCC 14465 that was isolated from the E ast ( J apan) S ea. The PS 1 clade is a sister group to the OCS 116 clade, together forming a putatively novel order closely related to R hizobiales . While most genomic features and most of the genetic content are conserved between RS 24 and IMCC 14465, their average nucleotide identity (ANI) is < 81%, suggesting two distinct species of the PS 1 clade. Next to encoding two different variants of proteorhodopsin genes, they also harbor several unique genomic islands that contain genes related to degradation of aromatic compounds in IMCC 14465 and in polymer degradation in RS 24, possibly reflecting the physicochemical differences in the environment they were isolated from. No clear differences in abundance of the genomic content of either strain could be found in fragment recruitment analyses using different metagenomic datasets, in which both genomes were detectable albeit as minor part of the communities. The comparative genomic analysis of both isolates of the PS 1 clade and the fragment recruitment analysis provide first insights into the ecology of this group.