@article{RN88,
   author = {Royo-Llonch, M. and Ferrera, I. and Cornejo-Castillo, F. M. and Sanchez, P. and Salazar, G. and Stepanauskas, R. and Gonzalez, J. M. and Sieracki, M. E. and Speich, S. and Stemmann, L. and Pedros-Alio, C. and Acinas, S. G.},
   title = {Exploring Microdiversity in Novel Kordia sp. (Bacteroidetes) with Proteorhodopsin from the Tropical Indian Ocean via Single Amplified Genomes},
   journal = {Front Microbiol},
   volume = {8},
   pages = {1317},
   note = {Royo-Llonch, Marta
Ferrera, Isabel
Cornejo-Castillo, Francisco M
Sanchez, Pablo
Salazar, Guillem
Stepanauskas, Ramunas
Gonzalez, Jose M
Sieracki, Michael E
Speich, Sabrina
Stemmann, Lars
Pedros-Alio, Carlos
Acinas, Silvia G
eng
Switzerland
Front Microbiol. 2017 Jul 25;8:1317. doi: 10.3389/fmicb.2017.01317. eCollection 2017.},
   abstract = {Marine Bacteroidetes constitute a very abundant bacterioplankton group in the oceans that plays a key role in recycling particulate organic matter and includes several photoheterotrophic members containing proteorhodopsin. Relatively few marine Bacteroidetes species have been described and, moreover, they correspond to cultured isolates, which in most cases do not represent the actual abundant or ecologically relevant microorganisms in the natural environment. In this study, we explored the microdiversity of 98 Single Amplified Genomes (SAGs) retrieved from the surface waters of the underexplored North Indian Ocean, whose most closely related isolate is Kordia algicida OT-1. Using Multi Locus Sequencing Analysis (MLSA) we found no microdiversity in the tested conserved phylogenetic markers (16S rRNA and 23S rRNA genes), the fast-evolving Internal Transcribed Spacer and the functional markers proteorhodopsin and the beta-subunit of RNA polymerase. Furthermore, we carried out a Fragment Recruitment Analysis (FRA) with marine metagenomes to learn about the distribution and dynamics of this microorganism in different locations, depths and size fractions. This analysis indicated that this taxon belongs to the rare biosphere, showing its highest abundance after upwelling-induced phytoplankton blooms and sinking to the deep ocean with large organic matter particles. This uncultured Kordia lineage likely represents a novel Kordia species (Kordia sp. CFSAG39SUR) that contains the proteorhodopsin gene and has a widespread spatial and vertical distribution. The combination of SAGs and MLSA makes a valuable approach to infer putative ecological roles of uncultured abundant microorganisms.},
   keywords = {Bacteroidetes
Kordia
Mlsa
SAGs
proteorhodopsin},
   ISSN = {1664-302X (Print)
1664-302X (Linking)},
   DOI = {10.3389/fmicb.2017.01317},
   url = {https://www.ncbi.nlm.nih.gov/pubmed/28790980},
   year = {2017},
   type = {Journal Article}
}

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G."],"bibdata":{"bibtype":"article","type":"Journal Article","author":[{"propositions":[],"lastnames":["Royo-Llonch"],"firstnames":["M."],"suffixes":[]},{"propositions":[],"lastnames":["Ferrera"],"firstnames":["I."],"suffixes":[]},{"propositions":[],"lastnames":["Cornejo-Castillo"],"firstnames":["F.","M."],"suffixes":[]},{"propositions":[],"lastnames":["Sanchez"],"firstnames":["P."],"suffixes":[]},{"propositions":[],"lastnames":["Salazar"],"firstnames":["G."],"suffixes":[]},{"propositions":[],"lastnames":["Stepanauskas"],"firstnames":["R."],"suffixes":[]},{"propositions":[],"lastnames":["Gonzalez"],"firstnames":["J.","M."],"suffixes":[]},{"propositions":[],"lastnames":["Sieracki"],"firstnames":["M.","E."],"suffixes":[]},{"propositions":[],"lastnames":["Speich"],"firstnames":["S."],"suffixes":[]},{"propositions":[],"lastnames":["Stemmann"],"firstnames":["L."],"suffixes":[]},{"propositions":[],"lastnames":["Pedros-Alio"],"firstnames":["C."],"suffixes":[]},{"propositions":[],"lastnames":["Acinas"],"firstnames":["S.","G."],"suffixes":[]}],"title":"Exploring Microdiversity in Novel Kordia sp. (Bacteroidetes) with Proteorhodopsin from the Tropical Indian Ocean via Single Amplified Genomes","journal":"Front Microbiol","volume":"8","pages":"1317","note":"Royo-Llonch, Marta Ferrera, Isabel Cornejo-Castillo, Francisco M Sanchez, Pablo Salazar, Guillem Stepanauskas, Ramunas Gonzalez, Jose M Sieracki, Michael E Speich, Sabrina Stemmann, Lars Pedros-Alio, Carlos Acinas, Silvia G eng Switzerland Front Microbiol. 2017 Jul 25;8:1317. doi: 10.3389/fmicb.2017.01317. eCollection 2017.","abstract":"Marine Bacteroidetes constitute a very abundant bacterioplankton group in the oceans that plays a key role in recycling particulate organic matter and includes several photoheterotrophic members containing proteorhodopsin. Relatively few marine Bacteroidetes species have been described and, moreover, they correspond to cultured isolates, which in most cases do not represent the actual abundant or ecologically relevant microorganisms in the natural environment. In this study, we explored the microdiversity of 98 Single Amplified Genomes (SAGs) retrieved from the surface waters of the underexplored North Indian Ocean, whose most closely related isolate is Kordia algicida OT-1. Using Multi Locus Sequencing Analysis (MLSA) we found no microdiversity in the tested conserved phylogenetic markers (16S rRNA and 23S rRNA genes), the fast-evolving Internal Transcribed Spacer and the functional markers proteorhodopsin and the beta-subunit of RNA polymerase. Furthermore, we carried out a Fragment Recruitment Analysis (FRA) with marine metagenomes to learn about the distribution and dynamics of this microorganism in different locations, depths and size fractions. This analysis indicated that this taxon belongs to the rare biosphere, showing its highest abundance after upwelling-induced phytoplankton blooms and sinking to the deep ocean with large organic matter particles. This uncultured Kordia lineage likely represents a novel Kordia species (Kordia sp. CFSAG39SUR) that contains the proteorhodopsin gene and has a widespread spatial and vertical distribution. The combination of SAGs and MLSA makes a valuable approach to infer putative ecological roles of uncultured abundant microorganisms.","keywords":"Bacteroidetes Kordia Mlsa SAGs proteorhodopsin","issn":"1664-302X (Print) 1664-302X (Linking)","doi":"10.3389/fmicb.2017.01317","url":"https://www.ncbi.nlm.nih.gov/pubmed/28790980","year":"2017","bibtex":"@article{RN88,\r\n author = {Royo-Llonch, M. and Ferrera, I. and Cornejo-Castillo, F. M. and Sanchez, P. and Salazar, G. and Stepanauskas, R. and Gonzalez, J. M. and Sieracki, M. E. and Speich, S. and Stemmann, L. and Pedros-Alio, C. and Acinas, S. G.},\r\n title = {Exploring Microdiversity in Novel Kordia sp. (Bacteroidetes) with Proteorhodopsin from the Tropical Indian Ocean via Single Amplified Genomes},\r\n journal = {Front Microbiol},\r\n volume = {8},\r\n pages = {1317},\r\n note = {Royo-Llonch, Marta\r\nFerrera, Isabel\r\nCornejo-Castillo, Francisco M\r\nSanchez, Pablo\r\nSalazar, Guillem\r\nStepanauskas, Ramunas\r\nGonzalez, Jose M\r\nSieracki, Michael E\r\nSpeich, Sabrina\r\nStemmann, Lars\r\nPedros-Alio, Carlos\r\nAcinas, Silvia G\r\neng\r\nSwitzerland\r\nFront Microbiol. 2017 Jul 25;8:1317. doi: 10.3389/fmicb.2017.01317. eCollection 2017.},\r\n abstract = {Marine Bacteroidetes constitute a very abundant bacterioplankton group in the oceans that plays a key role in recycling particulate organic matter and includes several photoheterotrophic members containing proteorhodopsin. Relatively few marine Bacteroidetes species have been described and, moreover, they correspond to cultured isolates, which in most cases do not represent the actual abundant or ecologically relevant microorganisms in the natural environment. In this study, we explored the microdiversity of 98 Single Amplified Genomes (SAGs) retrieved from the surface waters of the underexplored North Indian Ocean, whose most closely related isolate is Kordia algicida OT-1. Using Multi Locus Sequencing Analysis (MLSA) we found no microdiversity in the tested conserved phylogenetic markers (16S rRNA and 23S rRNA genes), the fast-evolving Internal Transcribed Spacer and the functional markers proteorhodopsin and the beta-subunit of RNA polymerase. Furthermore, we carried out a Fragment Recruitment Analysis (FRA) with marine metagenomes to learn about the distribution and dynamics of this microorganism in different locations, depths and size fractions. This analysis indicated that this taxon belongs to the rare biosphere, showing its highest abundance after upwelling-induced phytoplankton blooms and sinking to the deep ocean with large organic matter particles. This uncultured Kordia lineage likely represents a novel Kordia species (Kordia sp. CFSAG39SUR) that contains the proteorhodopsin gene and has a widespread spatial and vertical distribution. The combination of SAGs and MLSA makes a valuable approach to infer putative ecological roles of uncultured abundant microorganisms.},\r\n keywords = {Bacteroidetes\r\nKordia\r\nMlsa\r\nSAGs\r\nproteorhodopsin},\r\n ISSN = {1664-302X (Print)\r\n1664-302X (Linking)},\r\n DOI = {10.3389/fmicb.2017.01317},\r\n url = {https://www.ncbi.nlm.nih.gov/pubmed/28790980},\r\n year = {2017},\r\n type = {Journal Article}\r\n}\r\n\r\n","author_short":["Royo-Llonch, M.","Ferrera, I.","Cornejo-Castillo, F. M.","Sanchez, P.","Salazar, G.","Stepanauskas, R.","Gonzalez, J. M.","Sieracki, M. 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