@article {akita_providing_2022,
	title = {Providing a phylogenetic framework for trait-based analyses in brown algae: Phylogenomic tree inferred from 32 nuclear protein-coding sequences},
	journal = {Molecular Phylogenetics and Evolution},
	volume = {168},
	year = {2022},
	month = {mar},
	pages = {107408},
	abstract = {In the study of the evolution of biological complexity, a reliable phylogenetic framework is needed. Many attempts have been made to resolve phylogenetic relationships between higher groups (i.e., interordinal) of brown algae (Phaeophyceae) based on molecular evidence, but most of these relationships remain unclear. Analyses based on small multi-gene data (including chloroplast, mitochondrial and nuclear sequences) have yielded inconclusive and sometimes contradictory results. To address this problem, we have analyzed 32 nuclear protein-coding sequences in 39 Phaeophycean species belonging to eight orders. The resulting nuclear-based phylogenomic trees provide virtually full support for the phylogenetic relationships within the studied taxa, with few exceptions. The relationships largely confirm phylogenetic trees based on nuclear, chloroplast and mitochondrial sequences, except for the placement of the Sphacelariales with weak bootstrap support. Our study indicates that nuclear protein-coding sequences provide significant support to conclusively resolve phylogenetic relationships among Phaeophyceae, and may be a powerful approach to fully resolve interordinal relationships with increased taxon sampling.},
	keywords = {Ectocarpales, genomics, Heterokontophytes, Phaeoexplorer, Phaeophyceae, RCC4962, RCC7086, RCC7088, RCC7090, RCC7092, RCC7094, RCC7096, RCC7098, RCC7101, RCC7104, RCC7107, RCC7108, RCC7109, RCC7112, RCC7115, RCC7116, RCC7117, RCC7120, RCC7123, RCC7124, RCC7125, RCC7127, RCC7129, RCC7131, RCC7134, RCC7137, RCC7138, RCC7139, stramenopiles},
	issn = {1055-7903},
	doi = {10.1016/j.ympev.2022.107408},
	url = {https://www.sciencedirect.com/science/article/pii/S1055790322000215},
	author = {Akita, Shingo and Vieira, Christophe and Hanyuda, Takeaki and Rousseau, Florence and Cruaud, Corinne and Couloux, Arnaud and Heesch, Svenja and Cock, J. Mark and Kawai, Hiroshi}
}
@article {Calmes2020,
	title = {Parallelisable non-invasive biomass, fitness and growth measurement of macroalgae and other protists with nephelometry},
	journal = {Algal Research},
	volume = {46},
	number = {November 2019},
	year = {2020},
	note = {Publisher: Elsevier tex.mendeley-tags: RCC149,RCC3088,RCC3510,RCC3553},
	pages = {101762},
	abstract = {With the exponential development of algal aquaculture and blue biotechnology, there is a strong demand for simple, inexpensive, high-throughput, quantitative phenotyping assays to measure the biomass, growth and fertility of algae and other marine protists. Here, we validate nephelometry, a method that relies on measuring the scattering of light by particles in suspension, as a non-invasive tool to measure in real-time the biomass of aquatic micro-organisms, such as microalgae, filamentous algae, as well as non-photosynthetic protists. Nephelometry is equally applicable to optic density and chlorophyll fluorescence measurements for the quantification of some microalgae, but outperforms other spectroscopy methods to quantify the biomass of biofilm-forming and filamentous algae, highly pigmented species and non-photosynthetic eukaryotes. Thanks to its insensitivity to the sample{\textquoteright}s pigmentation, nephelometry is also the method of choice when chlorophyll content varies between samples or time points, for example due to abiotic stress or pathogen infection. As examples, we illustrate how nephelometry can be combined with fluorometry or image analysis to monitor the quantity and time-course of spore release in fertile kelps or the progression of symptoms in diseased algal cultures.},
	keywords = {Algal cultivation, Biomass, Biotechnology, Nephelometry, Phenotyping, RCC149, RCC3088, RCC3510, rcc3553},
	issn = {22119264},
	doi = {10.1016/j.algal.2019.101762},
	url = {https://doi.org/10.1016/j.algal.2019.101762},
	author = {Calmes, Beno{\^\i}t and Strittmatter, Martina and Jacquemin, Bertrand and Perrineau, Marie Mathilde and Rousseau, C{\'e}line and Badis, Yacine and Cock, J. Mark and Destombe, Christophe and Valero, Myriam and Gachon, Claire M.M.}
}
