Genomic differentiation among two strains of the PS1 clade isolated from geographically separated marine habitats
AuthorsJimenez Infante, Francy M.
Ba Alawi, Wail
Bajic, Vladimir B.
KAUST DepartmentRed Sea Research Center (RSRC)
Computational Bioscience Research Center (CBRC)
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Applied Mathematics and Computational Science Program
Biological and Environmental Sciences and Engineering (BESE) Division
Marine Science Program
Marine Microbial Ecology Research Group
Computer Science Program
Online Publication Date2014-05-22
Print Publication Date2014-07
Permanent link to this recordhttp://hdl.handle.net/10754/563555
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AbstractUsing dilution-to-extinction cultivation, we isolated a strain affiliated with the PS1 clade from surface waters of the Red Sea. Strain RS24 represents the second isolate of this group of marine Alphaproteobacteria after IMCC14465 that was isolated from the East (Japan) Sea. The PS1 clade is a sister group to the OCS116 clade, together forming a putatively novel order closely related to Rhizobiales. While most genomic features and most of the genetic content are conserved between RS24 and IMCC14465, their average nucleotide identity (ANI) is < 81%, suggesting two distinct species of the PS1 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 IMCC14465 and in polymer degradation in RS24, 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 PS1 clade and the fragment recruitment analysis provide first insights into the ecology of this group. © 2014 Federation of European Microbiological Societies.
CitationJimenez-Infante, F., Ngugi, D. K., Alam, I., Rashid, M., Baalawi, W., Kamau, A. A., … Stingl, U. (2014). Genomic differentiation among two strains of the PS1 clade isolated from geographically separated marine habitats. FEMS Microbiology Ecology, 89(1), 181–197. doi:10.1111/1574-6941.12348
PublisherOxford University Press (OUP)
JournalFEMS Microbiology Ecology
RelationsIs Supplemented By:
Title: Candidatus Micropelagos thuwalensis strain:RS24 Genome sequencing and assemblyPublication Date: 2013-09-20. bioproject: PRJNA217824 Handle: 10754/666427
CollectionsArticles; Biological and Environmental Science and Engineering (BESE) Division; Red Sea Research Center (RSRC); Marine Science Program; Applied Mathematics and Computational Science Program; Computer Science Program; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division; Plankton Genomics, part of the Global Ocean Genome Project
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