@article {sorokina_draft_2022,
	title = {Draft genome assembly and sequencing dataset of the marine diatom Skeletonema costatum RCC75},
	journal = {Data in Brief},
	year = {2022},
	month = {feb},
	pages = {107931},
	abstract = {Diatoms (Bacillariophyceae) are a major constituent of the phytoplankton and have a universally recognized ecological importance. Between 1,000 and 1,300 diatom genera have been described in the literature, but only 10 nuclear genomes have been published and made available to the public up to date. Skeletonema costatum is a cosmopolitan marine diatom, principally occurring in coastal regions, and is one of the most abundant members of the Skeletonema genus. Here we present a draft assembly of the Skeletonema costatum RCC75 genome, obtained from PacBio and Illumina NovaSeq data. This dataset will expand the knowledge of the Bacillariophyceae genetics and contribute to the global understanding of phytoplankton{\textquoteright}s physiological, ecological, and environmental functioning.},
	keywords = {Algal genome, BACILLARIOPHYCEAE, diatoms, genome sequencing, Illumina sequencing, PacBio sequencing, RCC75},
	issn = {2352-3409},
	doi = {10.1016/j.dib.2022.107931},
	url = {https://www.sciencedirect.com/science/article/pii/S2352340922001433},
	author = {Sorokina, Maria and Barth, Emanuel and Zulfiqar, Mahnoor and Kwantes, Michiel and Pohnert, Georg and Steinbeck, Christoph}
}
@article {lacour_photoacclimation_2022,
	title = {Photoacclimation of the polar diatom Chaetoceros neogracilis at low temperature},
	journal = {PLOS ONE},
	volume = {17},
	number = {9},
	year = {2022},
	note = {Publisher: Public Library of Science},
	month = {sep},
	pages = {e0272822},
	abstract = {Polar microalgae face two major challenges: 1- growing at temperatures (-1.7 to 5{\textdegree}C) that limit enzyme kinetics; and 2- surviving and exploiting a wide range of irradiance. The objective of this study is to understand the adaptation of an Arctic diatom to its environment by studying its ability to acclimate to changes in light and temperature. We acclimated the polar diatom Chaetoceros neogracilis to various light levels at two different temperatures and studied its growth and photosynthetic properties using semi-continuous cultures. Rubisco content was high, to compensate for low catalytic rates, but did not change detectably with growth temperature. Contrary to what is observed in temperate species, in C. neogracilis, carbon fixation rate (20 min 14C incorporation) equaled net growth rate (μ) suggesting very low or very rapid (<20 min) re-oxidation of the newly fixed carbon. The comparison of saturation irradiances for electron transport, oxygen net production and carbon fixation revealed alternative electron pathways that could provide energy and reducing power to the cell without consuming organic carbon which is a very limiting product at low temperatures. High protein contents, low re-oxidation of newly fixed carbon and the use of electron pathways alternative to carbon fixation may be important characteristics allowing efficient growth under those extreme environmental conditions.},
	keywords = {5-bisphosphate carboxylase oxygenase, Carbon fixation, diatoms, Fluorescence, Light, Photons, Photosynthesis, pigments, RCC2278, Ribulose-1},
	issn = {1932-6203},
	doi = {10.1371/journal.pone.0272822},
	url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0272822},
	author = {Lacour, Thomas and Larivi{\`e}re, Jade and Ferland, Joannie and Morin, Philippe-Isra{\"e}l and Grondin, Pierre-Luc and Donaher, Natalie and Cockshutt, Amanda and Campbell, Douglas A. and Babin, Marcel}
}
@article {croteau_shifts_2022,
	title = {Shifts in growth light optima among diatom species support their succession during the spring bloom in the Arctic},
	journal = {Journal of Ecology},
	volume = {n/a},
	number = {n/a},
	year = {2022},
	note = {_eprint: https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2745.13874},
	abstract = {1. Diatoms of the Arctic Ocean annually experience extreme changes of light environment linked to photoperiodic cycles and seasonal variations of the snow and sea-ice cover extent and thickness which attenuate light penetration in the water column. Arctic diatom communities exploit this complex seasonal dynamic through a well-documented species succession during spring, beginning in sea-ice and culminating in massive phytoplankton blooms underneath sea-ice and in the marginal ice zone. The pattern of diatom taxa sequentially dominating this succession is relatively well conserved interannually, and taxonomic shifts seem to align with habitat transitions. 2. To understand whether differential photoadaptation strategies among diatom taxa explain these recurring succession sequences, we coupled lab experiments with field work in Baffin Bay at 67.5{\textdegree}N. Based on field data, we selected five diatom species typical of different ecological niches and measured their growth rates under light intensity ranges representative of their natural habitats. To characterize their photoacclimative responses, we sampled pigments and total particulate carbon, and conducted 14C-uptake photosynthesis response curves and variable fluorescence measurements. 3. We documented a gradient in species respective light intensity for maximal growth suggesting divergent light response plasticity, which for the most part align with species sequential dominance. Other photophysiological parameters supported this ecophysiological framing, although contrasts were always clear only between succession endmembers, Nitzschia frigida and Chaetoceros neogracilis. To validate that these photoacclimative responses are representative of in situ dynamics, we compared them to the chlorophyll a-specific light-limited slope (α*) and saturated rate of photosynthesis (P*M), monitored in Baffin Bay on sea-ice and planktonic communities. This complementary approach confirmed that unusual responses in α* and P*M as a function of light history intensity are similar between sentinel sympagic species N. frigida and natural ice-core communities. While no light-history-dependent trends were observed in planktonic communities, their α* and P*M values were in the range of measurements from our monospecific cultures. 4. Synthesis. Our results suggest that Arctic diatoms species photoadaptation strategy is tuned to the light environment of the habitats in which they dominate and indeed drives the seasonal taxonomic succession.},
	keywords = {Arctic Ocean, diatoms, Ecophysiology, photoacclimation, photoadaptation, primary production, RCC2046, RCC2278, seasonal species succession, spring bloom},
	issn = {1365-2745},
	doi = {10.1111/1365-2745.13874},
	url = {http://onlinelibrary.wiley.com/doi/abs/10.1111/1365-2745.13874},
	author = {Croteau, D. and Lacour, T. and Schiffrine, N. and Morin, P.-I. and Forget, M.-H. and Bruyant, F. and Ferland, J. and Lafond, A. and Campbell, D. A. and Tremblay, J.-E. and Babin, M. and Lavaud, J.}
}
@article {fenizia_cysteinolic_2021,
	title = {Cysteinolic Acid Is a Widely Distributed Compatible Solute of Marine Microalgae},
	journal = {Marine Drugs},
	volume = {19},
	number = {12},
	year = {2021},
	note = {Number: 12 Publisher: Multidisciplinary Digital Publishing Institute},
	month = {dec},
	pages = {683},
	abstract = {Phytoplankton rely on bioactive zwitterionic and highly polar small metabolites with osmoregulatory properties to compensate changes in the salinity of the surrounding seawater. Dimethylsulfoniopropionate (DMSP) is a main representative of this class of metabolites. Salinity-dependent DMSP biosynthesis and turnover contribute significantly to the global sulfur cycle. Using advanced chromatographic and mass spectrometric techniques that enable the detection of highly polar metabolites, we identified cysteinolic acid as an additional widely distributed polar metabolite in phytoplankton. Cysteinolic acid belongs to the class of marine sulfonates, metabolites that are commonly produced by algae and consumed by bacteria. It was detected in all dinoflagellates, haptophytes, diatoms and prymnesiophytes that were surveyed. We quantified the metabolite in different phytoplankton taxa and revealed that the cellular content can reach even higher concentrations than the ubiquitous DMSP. The cysteinolic acid concentration in the cells of the diatom Thalassiosira weissflogii increases significantly when grown in a medium with elevated salinity. In contrast to the compatible solute ectoine, cysteinolic acid is also found in high concentrations in axenic algae, indicating biosynthesis by the algae and not the associated bacteria. Therefore, we add this metabolite to the family of highly polar metabolites with osmoregulatory characteristics produced by phytoplankton.},
	keywords = {cysteinolic acid, diatoms, DMSP, ectoine, LC/MS analysis, osmoadaptation, osmoregulation, phytoplankton, RCC76, salinity},
	doi = {10.3390/md19120683},
	url = {https://www.mdpi.com/1660-3397/19/12/683},
	author = {Fenizia, Simona and Weissflog, Jerrit and Pohnert, Georg}
}
@article {Avilan2020,
	title = {ppGpp influences protein protection, growth and photosynthesis in Phaeodactylum tricornutum},
	journal = {bioRxiv},
	year = {2020},
	note = {Publisher: Cold Spring Harbor Laboratory tex.mendeley-tags: RCC2967},
	month = {mar},
	pages = {2020.03.05.978130},
	abstract = {{\textbullet} Chloroplasts retain elements of a bacterial stress response pathway that is mediated by the signalling nucleotides guanosine penta-and tetraphosphate, or (p)ppGpp. In the model flowering plant Arabidopsis, ppGpp acts as a potent regulator of plastid gene expression and influences photosynthesis, plant growth and development. However, little is known about ppGpp metabolism or its evolution in other photosynthetic eukaryotes. {\textbullet} Here, we studied the function of ppGpp in the diatom P. tricornutum using transgenic lines containing an inducible system for ppGpp accumulation. We used these lines to investigate the effects of ppGpp on growth, photosynthesis, lipid metabolism and protein expression. {\textbullet} We demonstrate that ppGpp accumulation reduces photosynthetic capacity and promotes a quiescent-like state with reduced proliferation and ageing. Strikingly, using non-targeted proteomics, we discovered that ppGpp accumulation also leads to the coordinated upregulation of a protein protection response in multiple cellular compartments. {\textbullet} Our findings highlight the importance of ppGpp as a fundamental regulator of chloroplast function across different domains of life, and lead to new questions about the molecular mechanisms and roles of (p)ppGpp signalling in photosynthetic eukaryotes.},
	keywords = {chloroplast, diatoms, lipid droplets, Phaeodactylum tricornutum, Photosynthesis, ppGpp, proteome, RCC2967},
	doi = {10.1101/2020.03.05.978130},
	url = {https://doi.org/10.1101/2020.03.05.978130},
	author = {Avilan, Luisana and Lebrun, Regine and Puppo, Carine and Citerne, Sylvie and Cuin{\'e}, Stephane and Li-Beisson, Yonghua and Menand, Benoit and Field, Ben and Gontero, Brigitte}
}
@article {Tisserand2020,
	title = {Use of organic exudates from two polar diatoms by bacterial isolates from the Arctic Ocean},
	journal = {Philosophical transactions. Series A, Mathematical, physical, and engineering sciences},
	volume = {378},
	number = {2181},
	year = {2020},
	note = {Publisher: NLM (Medline) tex.mendeley-tags: RCC2278,RCC4289},
	month = {oct},
	pages = {20190356},
	abstract = {Global warming affects primary producers in the Arctic, with potential consequences for the bacterial community composition through the consumption of microalgae-derived dissolved organic matter (DOM). To determine the degree of specificity in the use of an exudate by bacterial taxa, we used simple microalgae-bacteria model systems. We isolated 92 bacterial strains from the sea ice bottom and the water column in spring-summer in the Baffin Bay (Arctic Ocean). The isolates were grouped into 42 species belonging to Proteobacteria, Bacteroidetes, Actinobacteria and Firmicutes. Forty strains were tested for their capacity to grow on the exudate from two Arctic diatoms. Most of the strains tested (78\%) were able to grow on the exudate from the pelagic diatom Chaetoceros neogracilis, and 33\% were able to use the exudate from the sea ice diatom Fragilariopsis cylindrus. 17.5\% of the strains were not able to grow with any exudate, while 27.5\% of the strains were able to use both types of exudates. All strains belonging to Flavobacteriia (n = 10) were able to use the DOM provided by C. neogracilis, and this exudate sustained a growth capacity of up to 100 times higher than diluted Marine Broth medium, of two Pseudomonas sp. strains and one Sulfitobacter strain. The variable bioavailability of exudates to bacterial strains highlights the potential role of microalgae in shaping the bacterial community composition. This article is part of the theme issue {\textquoteright}The changing Arctic Ocean: consequences for biological communities, biogeochemical processes and ecosystem functioning{\textquoteright}.},
	keywords = {Arctic Ocean, bacterial diversity, bacterial isolation, biodegradation, diatoms, dissolved organic exudates, RCC2278, RCC4289},
	issn = {14712962},
	doi = {10.1098/rsta.2019.0356},
	url = {https://royalsocietypublishing.org/doi/10.1098/rsta.2019.0356},
	author = {Tisserand, Lucas and Dadaglio, La{\"e}titia and Intertaglia, Laurent and Catala, Philippe and Panagiotopoulos, Christos and Obernosterer, Ingrid and Joux, Fabien}
}
@article {Helliwell2019,
	title = {Alternative mechanisms for fast na + /ca 2+ signaling in eukaryotes via a novel class of single-domain voltage-gated channels},
	journal = {Current Biology},
	volume = {29},
	number = {9},
	year = {2019},
	note = {tex.mendeley-tags: RCC299},
	pages = {1503{\textendash}1511.e6},
	abstract = {Rapid Na + /Ca 2+ -based action potentials govern essential cellular functions in eukaryotes, from the motile responses of unicellular protists, such as Paramecium [1, 2], to complex animal neuromuscular activity [3]. A key innovation underpinning this fundamental signaling process has been the evolution of four-domain voltage-gated Na + /Ca 2+ channels (4D-Ca v s/Na v s). These channels are widely distributed across eukaryote diversity [4], albeit several eukaryotes, including land plants and fungi, have lost voltage-sensitive 4D-Ca v /Na v s [5{\textendash}7]. Because these lineages appear to lack rapid Na + /Ca 2+ -based action potentials, 4D-Ca v /Na v s are generally considered necessary for fast Na + /Ca 2+ -based signaling [7]. However, the cellular mechanisms underpinning the membrane physiology of many eukaryotes remain unexamined. Eukaryotic phytoplankton critically influence our climate as major primary producers. Several taxa, including the globally abundant diatoms, exhibit membrane excitability [8{\textendash}10]. We previously demonstrated that certain diatom genomes encode 4D-Ca v /Na v s [4] but also proteins of unknown function, resembling prokaryote single-domain, voltage-gated Na + channels (BacNa v s) [4]. Here, we show that single-domain channels are actually broadly distributed across major eukaryote phytoplankton lineages and represent three novel classes of single-domain channels, which we refer collectively to as EukCats. Functional characterization of diatom EukCatAs indicates that they are voltage-gated Na + - and Ca 2+ -permeable channels, with rapid kinetics resembling metazoan 4D-Ca v s/Na v s. In Phaeodactylum tricornutum, which lacks 4D-Ca v /Na v s, EukCatAs underpin voltage-activated Ca 2+ signaling important for membrane excitability, and mutants exhibit impaired motility. EukCatAs therefore provide alternative mechanisms for rapid Na + /Ca 2+ signaling in eukaryotes and may functionally replace 4D-Ca v s/Na v s in pennate diatoms. Marine phytoplankton thus possess unique signaling mechanisms that may be key to environmental sensing in the oceans. Diatoms exhibit fast animal-like action potentials, but many species lack 4D-Ca v /Na v channels that underpin membrane excitability in animals. Diatoms do encode novel 1D voltage-gated channels (EukCatAs). Helliwell, Chrachri et al. show that EukCatAs are fast Na + and Ca 2+ channels that provide alternative mechanisms for rapid signaling in eukaryotes.},
	keywords = {action potentials, BacNa v, calcium channel, diatoms, EukCats, gliding motility, ion selectivity, RCC299, signaling, single-domain channel, voltage-gated channel},
	issn = {09609822},
	doi = {10.1016/j.cub.2019.03.041},
	author = {Helliwell, Katherine E. and Chrachri, Abdul and Koester, Julie A. and Wharam, Susan and Verret, Frederic and Taylor, Alison R. and Wheeler, Glen L. and Brownlee, Colin}
}
@mastersthesis {VanTol2019,
	title = {Computational and experimental models of diatom-bacteria interaction},
	year = {2019},
	note = {ISBN: 9781085779104 Pages: 161 Publication title: ProQuest dissertations and theses tex.mendeley-tags: RCC80},
	type = {phd},
	abstract = {Microbial interactions structure ecosystems and fuel biogeochemical cycling. The metabolic activities operating in the ocean are critical to the entire planet. In this work, I focused on interactions between diatoms and heterotrophic bacteria. Diatoms are a group of unicellular brown algae with frustules composed of silica. They form the base of coastal and polar marine food webs and contribute one fifth of global primary productivity. The inorganic nutrients fixed by oxygenic photosynthesis fuel secondary productivity by marine bacteria. Marine bacteria and diatoms have a range of different interaction strategies; many are still being elucidated.In Chapter 1, I studied the antagonistic effects of a flavobacterium on diatom cell division. Croceibacter atlanticus inhibits cytokinesis in many species, causing the cells to elongate, become mutlinucleated, and filled with plastids.In Chapter 2, I created a metabolic model of the diatom Thalassiosira pseudonana using the genome and physiological data from the literature. Simulations of diatom growth using Flux Balance Analysis revealed a role for nitrate and sulfate assimilation in dissipating reductants from the plastid. Changing redox and nutrient conditions causes the cell to secrete metabolites including organic carbon, nitrogen, and sulfur.In Chapter 3, I created a metabolic model of the B12-producing alphaproteobacterium Ruegeria pomeroyi. Previous work has demonstrated that R. pomeroyi will provide cobalamin to T. pseudonana in B12-starvation conditions in exchange for organic sulfur and nitrogen. I constrained the metabolic models with transcriptomic data of T. pseudonana and R. pomeroyi in co-culture and simulated their interaction.The distinct character of metabolites produced by diatoms likely fuels interactions with bacteria capable of utilizing those molecules. Bacteria influence diatom metabolism by interfering with the cell cycle, through nutrient-limitation, by altering redox conditions, and providing the cofactors required for growth. In this work, I have contributed to the literature exploring the complexity of diatom-bacteria interactions, where chemical or peptide cues, signals, and antagonists underlie the dynamics of microbial interactions. I have also created a framework for exploring more general metabolic exchanges between diatoms and bacteria. Genome-scale metabolic modeling of interactions between distinct marine microbial communities may be key to accurately predicting the character of dissolve organic matter in the ocean.},
	keywords = {Croceibacter atlanticus, diatoms, Genome-scale met, RCC80},
	url = {https://remotexs.ntu.edu.sg/user/login?url=https://search.proquest.com/docview/2305846221?accountid=12665},
	author = {van Tol, Helena M}
}
@article {Krasovec2019,
	title = {First estimation of the spontaneous mutation rate in Diatoms},
	journal = {Genome Biology and Evolution},
	volume = {1},
	year = {2019},
	note = {tex.mendeley-tags: RCC2967},
	pages = {1{\textendash}23},
	keywords = {diatoms, Mutation accumulation, mutation rate in phaeodactylum, mutation spectrum, phaeodactylum, RCC2967, running title, spontaneous mutation rate, tricornutum},
	issn = {1759-6653},
	doi = {10.1093/gbe/evz130},
	url = {https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evz130/5520952},
	author = {Krasovec, Marc and Sanchez-Brosseau, Sophie and Piganeau, Gwenael},
	editor = {Baer, Charles}
}
@article {Arsenieff2019,
	title = {First viruses infecting the marine diatom guinardia delicatula},
	journal = {Frontiers in Microbiology},
	volume = {9},
	number = {January},
	year = {2019},
	note = {tex.mendeley-tags: RCC1000,RCC2023,RCC3046,RCC3083,RCC3093,RCC3101,RCC4657,RCC4659,RCC4660,RCC4667,RCC4834,RCC5154,RCC5777,RCC5778,RCC5779,RCC5780,RCC5781,RCC5782,RCC5783,RCC5784,RCC5785,RCC5787,RCC5788,RCC5789,RCC5790,RCC5792,RCC5793,RCC5794,RCC80},
	month = {jan},
	keywords = {diatoms, genomics, host-virus dynamics, RCC1000, RCC2023, RCC3046, RCC3083, RCC3093, RCC3101, RCC4657, RCC4659, RCC4660, RCC4667, RCC4834, RCC5154, RCC5777, RCC5778, RCC5779, RCC5780, RCC5781, RCC5782, RCC5783, RCC5784, RCC5785, RCC5787, RCC5788, RCC5789, RCC5790, RCC5792, RCC5793, RCC5794, RCC80, single-stranded RNA viruses, Western English Channel},
	issn = {1664-302X},
	doi = {10.3389/fmicb.2018.03235},
	url = {https://www.frontiersin.org/article/10.3389/fmicb.2018.03235/full},
	author = {Arsenieff, Laure and Simon, Nathalie and Rigaut-jalabert, Fabienne and Le Gall, Florence and Chaffron, Samuel and Corre, Erwan and Com, Emmanuelle and Bigeard, Estelle and Baudoux, Anne-claire}
}
@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 {Parks2017,
	title = {Phylogenomics reveals an extensive history of genome duplication in diatoms (Bacillariophyta)},
	journal = {American Journal of Botany},
	volume = {105},
	number = {3},
	year = {2017},
	note = {tex.mendeley-tags: RCC205,RCC80},
	pages = {1{\textendash}18},
	keywords = {and, b, c, citation, diatoms, e, gene tree, genome duplication, j, n, nakov, paleopolyploidy, parks m, polyploidy, RCC205, RCC80, ruck, synonymous divergence, t, these authors contributed equally, to this work, wickett},
	doi = {10.1101/181115},
	author = {Parks, Matthew and Nakov, Teofil and Ruck, Elizabeth and Wickett, Norman J and Alverson, Andrew J and Rice, Ada L and Conservation, Plant and Botanic, Chicago and Glencoe, Garden}
}
@article {Kessenich2014,
	title = {Transcriptomic insights into the life history of bolidophytes , the sister lineage to diatoms},
	journal = {Journal of Phycology},
	volume = {983},
	year = {2014},
	note = {tex.mendeley-tags: RCC205},
	pages = {977{\textendash}983},
	abstract = {Diatoms are perhaps the most diverse lineage of eukaryotic algae, with their siliceous cell wall and diplontic life history often considered to have played important roles in their extraordinary diversification. The characteristic diminution of the diatom cell wall over the course of vegetative growth provides a reliable, intrinsic trigger for sexual reproduction, establishing a direct link between the evolution of their cell-wall and life- history features. It is unclear, however, whether the diplontic life cycle of diatoms represents an ancestral or derived trait. This uncertainty is based in part on our lack of understanding of the life cycle of the sister lineage to diatoms, which includes a mix of two free-living and separately classified forms: naked biflagellate unicells in the genus Bolidomonas and silicified forms in the order Parmales. These two forms might represent different life-history stages, although directly establishing such links can be difficult. We sequenced transcriptomes for Bolidomonas and two diatoms and found that \~0.1\% of the coding regions in the two diploid diatoms are heterozygous, whereas Bolidomonas is virtually devoid of heterozygous alleles, consistent with expectations for a haploid genome. These results suggest that Bolidomonas is haploid and predict that parmaleans represent the diploid phase of a haplodiplontic life cycle. These data fill an important gap in our understanding of the origin of the diplontic life history of diatoms, which may represent an evolutionarily derived, adaptive feature.},
	keywords = {Bolidomonas, CCMP1866, diatoms, diplontic, haplodiplontic, life cycle, Parmales, RCC205, RCC?o?dd, Transcriptome},
	doi = {10.1111/jpy.12222},
	url = {http://dx.doi.org/10.1111/jpy.12222},
	author = {Kessenich, Colton R and Ruck, Elizabeth C and Schurko, Andrew M and Wickett, Norman J and Alverson, Andrew J}
}
@article {Giovagnetti2012,
	title = {Growth and photophysiological responses of two picoplanktonic {\textexclamdown}i{\textquestiondown}Minutocellus species{\textexclamdown}/i{\textquestiondown}, strains RCC967 and RCC703 (Bacillariophyceae)},
	journal = {European Journal of Phycology},
	volume = {47},
	number = {4},
	year = {2012},
	note = {ISBN: 0967-0262 tex.mendeley-tags: rcc703,rcc967},
	pages = {408{\textendash}420},
	abstract = {Reaching up to 50\% of the total biomass in oligotrophic waters and armed with a set of ecological and biological properties related to their small size, picophytoplankton ({\textexclamdown}3.0 mm) are a good model to address ecophysiological questions regarding phytoplankton biodiversity. Two picoplanktonic diatoms, one isolated from an upwelling ecosystem in the Pacific Ocean (Minutocellus sp., strain RCC967), and another from oceanic waters in the Indian Ocean (Minutocellus sp., strain RCC703) were used to test hypotheses on the functional relation between ecological niche adaptation and photosynthetic regulation capacity and efficiency. Cultures were subjected to five sine light climates, each one set to peak at a different photon flux density, respectively 10, 50, 100, 250 and 500 mmol photons m(-2) s(-1). Growth rate, photosynthesis, non-photochemical fluorescence quenching, pigment composition, and particulate organic carbon and nitrogen content were followed daily for 5 days. Growth rate and physiological response curves were different in the two species, in agreement with their distinct habitats of origin. Such differences could be related to the diverse photoacclimative strategies displayed by the two species, revealing a clear adaptive divergence despite their close taxonomic relationship. Photoacclimative strategies of the two picoplanktonic diatoms are discussed in the light of functional diversity and ecosystem adaptation.},
	keywords = {carbon, diatoms, elemental stoichiometry, fluctuating light, marine-phytoplankton, non-photochemical fluorescence quenching, phaeodactylum-tricornutum, photoacclimation, photoprotection, photoregulation, Photosynthesis, picoeukaryotes, planktonic diatoms, rcc703, rcc967, RCC?o?dd, violaxanthin cycle, Xanthophyll cycle, xanthophyll-cycle activity},
	doi = {10.1080/09670262.2012.733030},
	author = {Giovagnetti, V and Cataldo, M L and Conversano, F and Brunet, C}
}
@article {Descles2008,
	title = {New tools for labeling silica in living diatoms},
	journal = {New Phytologist},
	volume = {177},
	number = {3},
	year = {2008},
	note = {ISBN: 0028-646X tex.mendeley-tags: rcc},
	pages = {822{\textendash}829},
	abstract = {Silicon biomineralization is a widespread mechanism found in several kingdoms that concerns both unicellular and multicellular organisms. As a result of genomic and molecular tools, diatoms have emerged as a good model for biomineralization studies and have provided most of the current knowledge on this process. However, the number of techniques available to study its dynamics at the cellular level is still rather limited. Here, new probes were developed specifically to label the pre-existing or the newly synthesized silica frustule of several diatoms species. It is shown that the LysoTracker Yellow HCK-123, which can be used to visualize silica frustules with common filter sets, presents an enhanced signal-to-noise ratio and allows details of the frustules to be imaged without of the use of ionophores. It is also demonstrated that methoxysilane derivatives can be coupled to fluorescein-5-isothiocyanate (FITC) to preferentially label the silica components of living cells. The coupling of labeling procedures might help to address the challenging question of the process of frustule exocytosis.},
	keywords = {3D-imaging, BACILLARIOPHYCEAE, BIOLOGY, biomineralization, DEPOSITION, diatoms, exocytosis, FLUORESCENT, nanopattern, pH, phaeodactylum-tricornutum, PLANTS, rcc, THALASSIOSIRA-PSEUDONANA, ultrastructure, VESICLE},
	doi = {10.1111/j.1469-8137.2007.02303.x},
	author = {Descles, J and Vartanian, M and El Harrak, A and Quinet, M and Bremond, N and Sapriel, G and Bibette, J and Lopez, P J}
}
@article {Guillou1999,
	title = {Bolidomonas: a new genus with two species belonging to a new algal class, the Bolidophyceae (Heterokonta)},
	journal = {Journal of Phycology},
	volume = {35},
	year = {1999},
	note = {tex.mendeley-tags: 1999,rcc,sbr?hyto},
	pages = {368{\textendash}381},
	abstract = {A new algal class, the Bolidophyceae (Heterokonta), is described from one genus, Bolidomonas, gen, nov., and two species, Bolidomonas pacifica, sp, nov and Bolidomonas mediterranea, sp, nov., isolated from the equatorial Pacific Ocean and the Mediterranean Sea, respectively. Both species are approximately 1.2 mu m in diameter and have two unequal flagella; the longer flagellum bears tubular hairs, whereas the shorter is smooth. The flagellar basal apparatus is restricted to two basal bodies, and there is no transitional helix. Cells are naked, devoid of walls or siliceous structures. The internal cellular organization is simple with a single plastid containing a ring genophore and a girdle lamella, one mitochondrion with tubular cristae, and one Golgi apparatus close to the basal bodies. The Mediterranean and the Pacific species differ in the insertion angle between their flagella and their pattern of swimming, these differences possibly being linked to each other. Analyses of the SSU rDNA gene place the two strains as a sister group to the diatoms, Moreover, pigment analyses confirm this position, as fucoxanthin is found as the major carotenoid in both lineages. These data strongly suggest that the ancestral heterokont that gave rise to the diatom lineage was probably a biflagellated unicell.},
	keywords = {10$_\textrmb$est, 1999, Bolidophyceae, CELL-CYCLE, CHRYSOPHYCEAE, diatoms, DIVINYL-CHLOROPHYLL, FINE-STRUCTURE, FLAGELLAR APPARATUS, Heterokonta, Marine, marine picoeukaryotes, oligotrophic ocean, rcc, RNA, SBR$_\textrmP$hyto, sbr?hyto, SEQUENCE, sp-nov, stramenopiles, ultrastructure},
	doi = {10.1046/j.1529-8817.1999.3520368.x},
	author = {Guillou, L and Chr{\'e}tiennot-Dinet, M.-J. and Medlin, L K and Claustre, H and Loiseaux-de Go{\"e}r, S and Vaulot, D}
}
