Consulta: creatorFacets:"Carrier, Gregory"
Registros recuperados: 13
Data/hora: 08/06/2024 09:56:26

Use comparative proteomics on a selected microalgae provides candidates for biofuel production.
Provedor de dados: 5
Autores: Garnier, Matthieu; Carrier, Gregory; Rogniaux, Helene; Nicolau, Elodie; Bougaran, Gael; Saint-jean, Bruno; Cadoret, Jean-paul.
Microalgae are photosynthetic microorganisms that have an extraordinary diversity which biotechnological potential is just beginning to be explored. Microalgae in biotechnology are presently the focus of an unprecedented surge in interest and investment worldwide. Understanding microalgal lipid accumulation under nitrogen starvation is of major interest for feedstocks, food and biofuel production. Although studies have been performed in model species, to this day it is critical to understand through particular mechanisms of biotechnological species. Tisochrysis lutea is traditionally used for aquaculture feed and presents advantages for lipid production. The wild type strain and a lipid over-accumulating selected mutant were used to perform the first...
Tipo: Text
Ano: 2013
URL: http://archimer.ifremer.fr/doc/00176/28735/27203.pdf

A transposable element annotation pipeline and expression analysis reveal potentially active elements in the microalga Tisochrysis lutea
Provedor de dados: 5
Autores: Berthelier, Jeremy; Casse, Nathalie; Daccord, Nicolas; Jamilloux, Veronique; Saint-jean, Bruno; Carrier, Gregory.
Background Transposable elements (TEs) are mobile DNA sequences known as drivers of genome evolution. Their impacts have been widely studied in animals, plants and insects, but little is known about them in microalgae. In a previous study, we compared the genetic polymorphisms between strains of the haptophyte microalga Tisochrysis lutea and suggested the involvement of active autonomous TEs in their genome evolution. Results To identify potentially autonomous TEs, we designed a pipeline named PiRATE (Pipeline to Retrieve and Annotate Transposable Elements, download: https://doi.org/10.17882/51795), and conducted an accurate TE annotation on a new genome assembly of T. lutea. PiRATE is composed of detection, classification and annotation steps. Its...
Tipo: Text
Palavras-chave: Transposable elements; Genome assembly; Pipeline; Tool; Annotation; Algae; Haptophyte; Tisochrysis lutea.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00441/55250/56732.pdf

Draft genomes and phenotypic characterization of Tisochrysis lutea strains. Toward the production of domesticated strains with high added value
Provedor de dados: 5
Autores: Carrier, Gregory; Baroukh, Caroline; Rouxel, Catherine; Duboscq-bidot, Laetitia; Schreiber, Nathalie; Bougaran, Gael.
Tisochrysis lutea is a microalga species currently used in aquaculture as a feed for shellfish, oysters and shrimps. It also has many other potential industrial applications, such as the production of neutral lipids for biofuels or the production of ω-3 fatty acids for nutraceuticals (human food complements). To efficiently exploit the potential of this microalga, however, higher lipid productivities are needed. To this end, improvement programs need to be developed and optimized. The diversity of strains available in microalgae has not yet been exploited in such improvement programs. In this study, the intra-strain diversity was observed and exploited to increase neutral lipid productivity. New clonal strains with higher neutral lipid productivity were...
Tipo: Text
Palavras-chave: Microalgae; Genome; Improvement program; Lipids; Tisochrysis lutea.
Ano: 2018
URL: http://archimer.ifremer.fr/doc/00411/52204/52927.pdf

Comparative proteomics reveals proteins impacted by nitrogen deprivation in wild-type and high lipid-accumulating mutant strains of Tisochrysis lutea
Provedor de dados: 5
Autores: Garnier, Matthieu; Carrier, Gregory; Rogniaux, Helene; Nicolau, Elodie; Bougaran, Gael; Saint-jean, Bruno; Cadoret, Jean-paul.
Understanding microalgal lipid accumulation under nitrogen starvation is of major interest for biomass feedstock, food and biofuel production. Using a domesticated oleaginous algae Tisochrysis lutea, we performed the first comparative proteomic analysis on the wild type strain and a selected lipid over-accumulating mutant. 2-DE analysis was made on these strains cultured in two metabolic conditions, with and without nitrogen deprivation, which revealed significant differences in proteomes according to both strain and nitrogen availability. Mass spectrometry allowed us to identify 37 proteins that were differentially expressed between the two strains, and 17 proteins regulated by nitrogen starvation concomitantly with lipid accumulation. The proteins...
Tipo: Text
Palavras-chave: Microalgae; Biotechnology; Lipid; Nitrogen; Proteomic; Selection.
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00179/29012/27470.pdf

Complete Genome Sequence of   Campylobacter armoricus   CA639, Which Carries Two Plasmids, Compiled Using Oxford Nanopore and Illumina Sequencing Technologies
Provedor de dados: 5
Autores: Boukerb, Amine Mohamed; Schaeffer, Julien; Serghine, Joelle; Carrier, Gregory; Le Guyader, Soizick; Gourmelon, Michele.
As determined by a hybrid approach combining Oxford Nanopore MinION and Illumina MiniSeq sequence data, Campylobacter armoricus strain CA639 harbored a circular chromosome of 1,688,169 bp with a G+C content of 28.47% and two plasmids named pCA639-1 and pCA639-2, with lengths of 51,123 and 28,139 bp, and G+C contents of 26.5% and 28.45%, respectively.
Tipo: Text
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00600/71164/69495.pdf

Comparative Transcriptome of Wild Type and Selected Strains of the Microalgae Tisochrysis lutea Provides Insights into the Genetic Basis, Lipid Metabolism and the Life Cycle
Provedor de dados: 5
Autores: Carrier, Gregory; Garnier, Matthieu; Le Cunff, Loic; Bougaran, Gael; Probert, Ian; De Vargas, Colomban; Corre, E; Cadoret, Jean-paul; Saint-jean, Bruno.
The applied exploitation of microalgae cultures has to date almost exclusively involved the use of wild type strains, deposited over decades in dedicated culture collections. Concomitantly, the concept of improving algae with selection programs for particular specific purposes is slowly emerging. Studying since a decade an economically and ecologically important haptophyte Tisochrysis lutea (Tiso), we took advantage of the availability of wild type (Tiso-Wt) and selected (Tiso-S2M2) strains to conduct a molecular variations study. This endeavour presented substantial challenges: the genome assembly was not yet available, the life cycle unknown and genetic diversity of Tiso-Wt poorly documented. This study brings the first molecular data in order to set up...
Tipo: Text
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00175/28662/27089.pdf

Traceability, reproducibility and wiki-exploration for "a-la-carte" reconstructions of genome-scale metabolic models
Provedor de dados: 5
Autores: Aite, Meaziane; Chevallier, Marie; Frioux, Cleamence; Trottier, Camille; Got, Jeanne; Paz Cortes, Maria; Mendoza, Sebastian N.; Carrier, Gregory; Dameron, Olivier; Guillaudeux, Nicolas; Latorre, Mauricio; Loira, Nicolas; Markov, Gabriel V.; Maass, Alejandro; Siegel, Anne.
Genome-scale metabolic models have become the tool of choice for the global analysis of microorganism metabolism, and their reconstruction has attained high standards of quality and reliability. Improvements in this area have been accompanied by the development of some major platforms and databases, and an explosion of individual bioinformatics methods. Consequently, many recent model s result from "a la carte" pipelines, combining the use of platforms, individual tools and biological expertise to enhance the quality of the reconstruction. Although very useful, introducing heterogeneous tools, that hardly interact with each other, causes loss of traceability and reproducibility in the reconstruction process. This represents a real obstacle, especially when...
Tipo: Text
Ano: 2018
URL: http://archimer.ifremer.fr/doc/00448/55985/57454.pdf

Betaine lipid and neutral lipid production under nitrogen or phosphorus limitation in the marine microalga Tisochrysis lutea (Haptophyta)
Provedor de dados: 5
Autores: Huang, Bing; Marchand, Justine; Thiriet-rupert, Stanislas; Carrier, Gregory; Saint-jean, Bruno; Lukomska, Ewa; Moreau, Brigitte; Morant-manceau, Annick; Bougaran, Gael; Mimouni, Virginie.
Nitrogen (N) and phosphorus (P) limitations induce neutral lipid accumulation and membrane lipid remodeling in the domesticated oleaginous microalga Tisochrysis lutea. This study compared growth, photosynthetic activity, biochemical and transcriptional responses of T. lutea throughout batch cultures under N or P limitation compared with non-limiting nutrient condition (NP). The results show that, under N limitation, the breakdown and re-use of cellular N-containing compounds contributed to carbohydrates and further triacylglycerol (TAG) accumulation, where the accumulation of docosahexaenoic acid (DHA) in neutral lipids might mainly be derived from the recycling of membrane polar lipids. Conversely, P limitation did not hinder the photosynthetic capacity;...
Tipo: Text
Palavras-chave: Tisochrysis lutea; Phosphorus; Nitrogen; Lipid remodeling; Betaine lipid; Polyunsaturated fatty acid.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00492/60409/64776.pdf

Use of a lipid rich strain reveals mechanisms of nitrogen limitation and carbon partitioning in the haptophyte Tisochrysis lutea
Provedor de dados: 5
Autores: Garnier, Matthieu; Bougaran, Gael; Pavlovic, Marija; Berard, Jean-baptiste; Carrier, Gregory; Charrier, Aurelie; Le Grand, Fabienne; Lukomska, Ewa; Rouxel, Catherine; Schreiber, Nathalie; Cadoret, Jean-paul; Rogniaux, Helene; Saint-jean, Bruno.
Haptophytes are a diverse monophyletic group with a worldwide distribution, known to be significantly involved in global climate regulation in their role as a carbon sink. Because nitrogen is a major limiting macronutrient for phytoplankton in oceans and for cultures of microalgae, understanding the involvement of nitrogen availability in haptophyte carbon partitioning is of global and biotechnological importance. Here, we made an ecophysiological study coupled with comprehensive large scale proteomic analysis to examine differences of behavior in reaction to nitrogen availability changes between a wild type strain of Tisochrysis lutea (WTc1) and a mutant strain (2Xc1) known to accumulate more storage lipids. Strains were grown in chemostats and studied...
Tipo: Text
Palavras-chave: Algae; Isochrysis; Lipids; Nitrogen; Reverse genomic: proteomic.
Ano: 2016
URL: https://archimer.ifremer.fr/doc/00356/46702/46904.pdf

PiRATE: a Pipeline to Retrieve and Annotate Transposable Elements
Provedor de dados: 5
Autores: Berthelier, Jeremy; Carrier, Gregory.
Tipo: Text
Ano: 2017
URL: http://archimer.ifremer.fr/doc/00412/52373/53662.pdf

Transcription factors in microalgae: genome-wide prediction and comparative analysis
Provedor de dados: 5
Autores: Thiriet-rupert, Stanislas; Carrier, Gregory; Chenais, Benoit; Trottier, Camille; Bougaran, Gael; Cadoret, Jean-paul; Schoefs, Benoit; Saint-jean, Bruno.
Background: Studying transcription factors, which are some of the key players in gene expression, is of outstanding interest for the investigation of the evolutionary history of organisms through lineage-specific features. In this study we performed the first genome-wide TF identification and comparison between haptophytes and other algal lineages. Results: For TF identification and classification, we created a comprehensive pipeline using a combination of BLAST, HMMER and InterProScan software. The accuracy evaluation of the pipeline shows its applicability for every alga, plant and cyanobacterium, with very good PPV and sensitivity. This pipeline allowed us to identify and classified the transcription factor complement of the three haptophytes...
Tipo: Text
Palavras-chave: Algae; Endosymbiotic gene transfer; Haptophytes; Prediction pipeline; Stramenopiles; Tisochrysis lutea; Transcription factors.
Ano: 2016
URL: https://archimer.ifremer.fr/doc/00333/44403/44072.pdf

High-affinity nitrate/nitrite transporter genes (Nrt2) in Tisochrysis lutea: identification and expression analyses reveal some interesting specificities of Haptophyta microalgae
Provedor de dados: 5
Autores: Charrier, Aurelie Georgette; Berard, Jean-baptiste; Bougaran, Gael; Carrier, Gregory; Lukomska, Ewa; Schreiber, Nathalie; Fournier, Flora; Charrier, Aurelie; Rouxel, Catherine; Garnier, Matthieu; Cadoret, Jean-paul; Saint-jean, Bruno.
Microalgae have a diversity of industrial applications such as feed, food ingredients, depuration processes and energy. However, microalgal production costs could be substantially improved by controlling nutrient intake. Accordingly, a better understanding of microalgal nitrogen metabolism is essential. Using in silico analysis from transcriptomic data concerning the microalgae Tisochrysis lutea, four genes encoding putative high-affinity nitrate/nitrite transporters (TlNrt2) were identified. Unlike most of the land plants and microalgae, cloning of genomic sequences and their alignment with complementary DNA (cDNA) sequences did not reveal the presence of introns in all TlNrt2 genes. The deduced TlNRT2 protein sequences showed similarities to NRT2...
Tipo: Text
Ano: 2015
URL: https://archimer.ifremer.fr/doc/00253/36467/35044.pdf

Identification of transcription factors involved in the phenotype of a domesticated oleaginous microalgae strain of Tisochrysis lutea
Provedor de dados: 5
Autores: Thiriet-rupert, Stanislas; Carrier, Gregory; Trottier, Camille; Eveillard, D.; Schoefs, B.; Bougaran, Gael; Cadoret, Jean-paul; Chenais, B.; Saint-jean, Bruno.
Microalgae are an outstanding source of high value products with applications in food, feed or biofuel production. Among these promising organisms, the haptophyte Tisochrysis lutea is commonly used as a feed for shellfish and shrimps in aquaculture. Its capacity to produce high amounts of docosahexanoic acid and storage lipids is also of economic interest for nutrition and energy production. Consequently, understanding its lipid accumulation under nitrogen deprivation is of major interest. Here, we aimed to identify Transcription Factors (TFs) involved in the establishment of the mutant phenotype of the 2Xc1 strain of T. lutea, which accumulates double the quantity of storage lipids under nitrogen deprivation than the wild type strain (WTc1). Strains were...
Tipo: Text
Palavras-chave: Algae; Carbohydrates; Gene co-expression network; Lipids; Transcription factor; Tisochrysis lutea.
Ano: 2018
URL: http://archimer.ifremer.fr/doc/00418/52973/53901.pdf