@article {Crenn2018,
	title = {Bacterial epibiotic communities of ubiquitous and abundant marine diatoms are distinct in short- and long-term associations},
	journal = {Frontiers in Microbiology},
	volume = {9},
	number = {December},
	year = {2018},
	note = {tex.mendeley-tags: 2018,RCC2560,RCC2565,rcc},
	pages = {1{\textendash}12},
	abstract = {Interactions between phytoplankton and bacteria play a central role in mediatingbiogeochemical cycling and food web structure in the ocean. The cosmopolitan diatomsThalassiosiraandChaetocerosoften dominate phytoplankton communities in marinesystems. Past studies of diatom-bacterial associations have employed community-level methods and culture-based or natural diatom populations. Although bacterialassemblages attached to individual diatoms represents tight associations little is knownon their makeup or interactions. Here, we examined the epibiotic bacteria of 436Thalassiosiraand 329Chaetocerossingle cells isolated from natural samples andcollection cultures, regarded here as short- and long-term associations, respectively.Epibiotic microbiota of single diatom hosts was analyzed by cultivation and by cloning-sequencing of 16S rRNA genes obtained from whole-genome amplification products.The prevalence of epibiotic bacteria was higher in cultures and dependent of the hostspecies. Culture approaches demonstrated that both diatoms carry distinct bacterialcommunities in short- and long-term associations. Bacterial epibonts, commonlyassociated with phytoplankton, were repeatedly isolated from cells of diatom collectioncultures but were not recovered from environmental cells. Our results suggest thatin controlled laboratory culture conditions bacterial{\textendash}diatom and bacterial{\textendash}bacterialinteractions select for a simplified, but specific, epibiotic microbiota shaped and adaptedfor long-term associations.},
	keywords = {2018, Chaetoceros, diatoms, diversity, heterotrophic bacteria, interactions, microbiome, rcc, RCC2560, RCC2565, Thalassiosira, Western English Channel},
	issn = {1664-302X},
	doi = {10.3389/fmicb.2018.02879},
	url = {https://www.frontiersin.org/article/10.3389/fmicb.2018.02879/full},
	author = {Crenn, Klervi and Duffieux, Delphine and Jeanthon, Christian}
}
@article {Bendif2016,
	title = {Recent reticulate evolution in the ecologically dominant lineage of coccolithophores},
	journal = {Frontiers in Microbiology},
	volume = {7},
	number = {May},
	year = {2016},
	note = {tex.mendeley-tags: 2016,RCC4032,RCC4033,RCC4034,RCC4035,RCC4036,rcc,sbr?hyto},
	month = {may},
	keywords = {2016, coccolithophores, cyto-nuclear discordance, diversity, Emiliania, evolution, Gephyrocapsa, introgressive hybridization, rcc, RCC4032, RCC4033, RCC4034, RCC4035, RCC4036, Reticulofenestra, sbr?hyto},
	issn = {1664-302X},
	doi = {10.3389/fmicb.2016.00784},
	url = {http://journal.frontiersin.org/article/10.3389/fmicb.2016.00784 http://journal.frontiersin.org/Article/10.3389/fmicb.2016.00784/abstract},
	author = {Bendif, El Mahdi and Probert, Ian and D{\'\i}az-Rosas, Francisco and Thomas, Daniela and van den Engh, Ger and Young, Jeremy R. and von Dassow, Peter}
}
@article {Vaulot2008,
	title = {The diversity of small eukaryotic phytoplankton ({\textexclamdown}3 {\textmu}m) in marine ecosystems},
	volume = {32},
	number = {5},
	year = {2008},
	note = {Publication Title: FEMS microbiology reviews tex.mendeley-tags: 2008,rcc,sbr?hyto$_\textrmd$ipo},
	pages = {795{\textendash}820},
	abstract = {Small cells dominate photosynthetic biomass and primary production in many marine ecosystems. Traditionally, picoplankton refers to cells {\textexclamdown} or =2 microm. Here we extend the size range of the organisms considered to 3 microm, a threshold often used operationally in field studies. While the prokaryotic component of picophytoplankton is dominated by two genera, Prochlorococcus and Synechococcus, the eukaryotic fraction is much more diverse. Since the discovery of the ubiquitous Micromonas pusilla in the early 1950s, just over 70 species that can be {\textexclamdown}3 microm have been described. In fact, most algal classes contain such species. Less than a decade ago, culture-independent approaches (in particular, cloning and sequencing, denaturing gradient gel electrophoresis, FISH) have demonstrated that the diversity of eukaryotic picoplankton is much more extensive than could be assumed from described taxa alone. These approaches revealed the importance of certain classes such as the Prasinophyceae but also unearthed novel divisions such as the recently described picobiliphytes. In the last couple of years, the first genomes of photosynthetic picoplankton have become available, providing key information on their physiological capabilities. In this paper, we discuss the range of methods that can be used to assess small phytoplankton diversity, present the species described to date, review the existing molecular data obtained on field populations, and end up by looking at the promises offered by genomics.},
	keywords = {2008, diversity, genomics, Marine ecosystems, Micro-algae, picoplankton, rcc, sbr?hyto$_\textrmd$ipo, taxonomy},
	author = {Vaulot, Daniel and Eikrem, Wenche and Viprey, Manon and Moreau, Herv{\'e}}
}
@article {Worden2006,
	title = {Picoeukaryote diversity in coastal waters of the Pacific Ocean},
	journal = {Aquatic Microbial Ecology},
	volume = {43},
	number = {2},
	year = {2006},
	note = {tex.mendeley-tags: Micromonas,RCC,rcc},
	pages = {165{\textendash}175},
	abstract = {The extraordinary molecular phylogenetic diversity of picoeukaryotes and their contributions to marine processes have been highlighted recently. Herein, picoeukaryotic diversity in the coastal Pacific Ocean is characterized for the first time, Close to full length small subunit ribosomal RNA (ssu rRNA) gene amplicons were cloned and sequenced from size fractionated samples ({\textexclamdown} 2 mu m) taken between September 2000 and October 2001. Sequences belonging to the order Mamiellales were abundant, with Micromonas pusilla-like sequences in all 5 libraries (4 operational taxonomic units, OTUs, at {\textquestiondown}= 99\% sequence similarity), Ostreococcus in 4 (1 OTU) and Bathycoccus in 2 (1 OTU). Phylogenetic reconstruction showed distinct Micromonas clades at this site (although not for other Mamiellales), supporting the idea that the designation M pusilla harbors cryptic species. In combination with picophytoplankton dynamics previously reported for the same period, the data indicates that picoplanktonic primary production at this site is likely to be dominated by prasinophytes. Furthermore, a Micromonas-clade with no cultured representatives was identified bearing highest identity to Sargasso Sea shotgun clone sequences. Comparison of the Pacific sequences with the shotgun clones showed Ostreococcus and Micromonas at 1 Sargasso site with elevated chlorophyll (chl) levels, but not at other Sargasso sites. Other Pacific clones were primarily Novel Alveolate Group II, which were highly diverse based on OTU analyses. Novel Alveolate Group 1, Ciliophora, Cercozoa-like and stramenopile sequences were also retrieved. Although picoeukaryotic diversity has been characterized in only 1 other Pacific Ocean sample (equatorial Pacific), most stramenopile and alveolate sequences corresponded to previously identified phylogenetic clades from studies conducted in other oceans and for which no cultured representatives exist.},
	keywords = {18s rdna sequences, 18S rRNA, community structure, diversity, english-channel, eukaryotic picoplankton, global dispersal, Micromonas, north-atlantic, phylogenetic analysis, picoeukaryotes, picophytoplankton, picoplankton, prasinophytes, pusilla, rcc, RIBOSOMAL-RNA GENE, sargasso sea, small subunit, vibrio-cholerae},
	doi = {10.3354/ame043165},
	author = {Worden, A Z}
}
