The genome of Ectocarpus subulatus highlights unique mechanisms for stress tolerance in brown algae
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Gabriel V. Markov | H. Himmelbauer | A. Minoche | A. Siegel | T. Tonon | C. Boyen | J. Collén | E. Corre | S. Dittami | C. Leblanc | A. Peters | Christophe Caron | D. Jollivet | C. Cho | H. Yoon | Loraine Brillet-Guéguen | Alexandre Cormier | K. Avia | D. Marie | Cécile Hervé | A. Gobet | C. Frioux | M. Aite | Xi Liu | H. Kleinjan | M. Perrineau | Noé Pontoizeau | Sylvie Doubleau | A. Siméon | Delage | Agnieszka P. Lipinska | Groisillier | Trottier | Misharl Monsoor | Irene González-Navarrete | 6. Ludovic | 7. Agnès | 9. Pierre | Pericard | 10 Camille
[1] K. Mikami,et al. Parthenosporophytes of the brown alga Ectocarpus siliculosus exhibit sex-dependent differences in thermotolerance as well as fatty acid and sterol composition. , 2018, Marine environmental research.
[2] Olivier Dameron,et al. Traceability, reproducibility and wiki-exploration for “à-la-carte” reconstructions of genome-scale metabolic models , 2018, PLoS Comput. Biol..
[3] C. Boyen,et al. Exploring the Cultivable Ectocarpus Microbiome , 2017, Front. Microbiol..
[4] E. Corre,et al. Detection of bacterial contaminants and hybrid sequences in the genome of the kelp Saccharina japonica using Taxoblast , 2017, PeerJ.
[5] Susana M. Coelho,et al. Re-annotation, improved large-scale assembly and establishment of a catalogue of noncoding loci for the genome of the model brown alga Ectocarpus. , 2017, The New phytologist.
[6] T. Tonon,et al. Mannitol biosynthesis in algae: more widespread and diverse than previously thought. , 2017, The New phytologist.
[7] Jérémie Bourdon,et al. Meneco, a Topology-Based Gap-Filling Tool Applicable to Degraded Genome-Wide Metabolic Networks , 2017, PLoS Comput. Biol..
[8] M. Long,et al. LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans , 2016, Genome research.
[9] J. West,et al. Parallel evolution of highly conserved plastid genome architecture in red seaweeds and seed plants , 2016, BMC Biology.
[10] N. Satoh,et al. A draft genome of the brown alga, Cladosiphon okamuranus, S-strain: a platform for future studies of ‘mozuku’ biology , 2016, DNA research : an international journal for rapid publication of reports on genes and genomes.
[11] I. Nasir,et al. Genomics of Salinity Tolerance in Plants , 2016 .
[12] Sudhir Kumar,et al. MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. , 2016, Molecular biology and evolution.
[13] Monika S. Doblin,et al. Arabinogalactan proteins have deep roots in eukaryotes: identification of genes and epitopes in brown algae and their role in Fucus serratus embryo development. , 2016, The New phytologist.
[14] Dennis J. McHugh,et al. A guide to the seaweed industry , 2016 .
[15] O. De Clerck,et al. Molecular evolution of candidate male reproductive genes in the brown algal model Ectocarpus , 2016, BMC Evolutionary Biology.
[16] V. Volkov. Salinity tolerance in plants. Quantitative approach to ion transport starting from halophytes and stepping to genetic and protein engineering for manipulating ion fluxes , 2015, Front. Plant Sci..
[17] S. Kelly,et al. OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy , 2015, Genome Biology.
[18] Anat Kreimer,et al. NetCooperate: a network-based tool for inferring host-microbe and microbe-microbe cooperation , 2015, BMC Bioinformatics.
[19] J. Qi,et al. Saccharina genomes provide novel insight into kelp biology , 2015, Nature Communications.
[20] David James Sherman,et al. Pantograph: A template-based method for genome-scale metabolic model reconstruction , 2015, J. Bioinform. Comput. Biol..
[21] T. Tonon,et al. Monoclonal Antibodies Directed to Fucoidan Preparations from Brown Algae , 2015, PloS one.
[22] Jun Wang,et al. The draft genome of Tibetan hulless barley reveals adaptive patterns to the high stressful Tibetan Plateau , 2015, Proceedings of the National Academy of Sciences.
[23] A. Roychoudhury,et al. Reactive oxygen species (ROS) and response of antioxidants as ROS-scavengers during environmental stress in plants , 2014, Front. Environ. Sci..
[24] Zhi-Guo Liu,et al. The complex jujube genome provides insights into fruit tree biology , 2014, Nature Communications.
[25] L. Delage,et al. The Vanadium Iodoperoxidase from the Marine Flavobacteriaceae Species Zobellia galactanivorans Reveals Novel Molecular and Evolutionary Features of Halide Specificity in the Vanadium Haloperoxidase Enzyme Family , 2014, Applied and Environmental Microbiology.
[26] T. Tonon,et al. A metabolic approach to study algal–bacterial interactions in changing environments , 2014, Molecular ecology.
[27] S. Pan,et al. Genomic insights into salt adaptation in a desert poplar , 2013, Nature Communications.
[28] Monica C Munoz-Torres,et al. Web Apollo: a web-based genomic annotation editing platform , 2013, Genome Biology.
[29] H. Lokstein,et al. Chlorophyll-binding Proteins , 2013 .
[30] Marc Lohse,et al. OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets , 2013, Nucleic Acids Res..
[31] David W. Cheung,et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler , 2012, GigaScience.
[32] Simon M Dittami,et al. Genomes of extremophile crucifers: new platforms for comparative genomics and beyond , 2012, Genome Biology.
[33] Jun Wang,et al. Insights into salt tolerance from the genome of Thellungiella salsuginea , 2012, Proceedings of the National Academy of Sciences.
[34] T. Tonon,et al. Towards deciphering dynamic changes and evolutionary mechanisms involved in the adaptation to low salinities in Ectocarpus (brown algae). , 2012, The Plant journal : for cell and molecular biology.
[35] H. Bohnert,et al. The genome of the extremophile crucifer Thellungiella parvula , 2011, Nature Genetics.
[36] D. Tautz,et al. The evolutionary origin of orphan genes , 2011, Nature Reviews Genetics.
[37] N. Friedman,et al. Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.
[38] B. S. Manjunath,et al. The iPlant Collaborative: Cyberinfrastructure for Plant Biology , 2011, Front. Plant Sci..
[39] J. Poulain,et al. In Silico Survey of the Mitochondrial Protein Uptake and Maturation Systems in the Brown Alga Ectocarpus siliculosus , 2011, PloS one.
[40] B. Kloareg,et al. Evolution and diversity of plant cell walls: from algae to flowering plants. , 2011, Annual review of plant biology.
[41] Richard M. Clark,et al. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change , 2011, Nature Genetics.
[42] W. Pirovano,et al. Scaffolding pre-assembled contigs using SSPACE , 2011, Bioinform..
[43] T. Flutre,et al. Considering Transposable Element Diversification in De Novo Annotation Approaches , 2011, PloS one.
[44] T. Tonon,et al. The cell wall polysaccharide metabolism of the brown alga Ectocarpus siliculosus. Insights into the evolution of extracellular matrix polysaccharides in Eukaryotes. , 2010, The New phytologist.
[45] Susana M. Coelho,et al. A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence. , 2010, The New phytologist.
[46] B. Green,et al. Photoprotection in the diatom Thalassiosira pseudonana: role of LI818-like proteins in response to high light stress. , 2010, Biochimica et biophysica acta.
[47] Corinne Da Silva,et al. The Ectocarpus genome and the independent evolution of multicellularity in brown algae , 2010, Nature.
[48] Federico Abascal,et al. TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations , 2010, Nucleic Acids Res..
[49] C. Jubin,et al. Plastid genomes of two brown algae, Ectocarpus siliculosus and Fucus vesiculosus: further insights on the evolution of red-algal derived plastids , 2009, BMC Evolutionary Biology.
[50] Dominique Lavenier,et al. PLAST: parallel local alignment search tool for database comparison , 2009, BMC Bioinformatics.
[51] S. Gribaldo,et al. Phylogenomics of Sterol Synthesis: Insights into the Origin, Evolution, and Diversity of a Key Eukaryotic Feature , 2009, Genome biology and evolution.
[52] T. Bosch,et al. More than just orphans: are taxonomically-restricted genes important in evolution? , 2009, Trends in genetics : TIG.
[53] P. Rouzé,et al. Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress , 2009, Genome Biology.
[54] J. Archibald. The Puzzle of Plastid Evolution , 2009, Current Biology.
[55] Geoffrey J. Barton,et al. Jalview Version 2—a multiple sequence alignment editor and analysis workbench , 2009, Bioinform..
[56] Brandi L. Cantarel,et al. The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics , 2008, Nucleic Acids Res..
[57] T. Tonon,et al. Normalisation genes for expression analyses in the brown alga model Ectocarpus siliculosus , 2008, BMC Molecular Biology.
[58] Thomas Schiex,et al. Genome Annotation in Plants and Fungi: EuGene as a Model Platform , 2008 .
[59] Stefan Kurtz,et al. LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons , 2008, BMC Bioinformatics.
[60] Susana M. Coelho,et al. Development and physiology of the brown alga Ectocarpus siliculosus: two centuries of research. , 2007, The New phytologist.
[61] B. Koop,et al. Bursts and horizontal evolution of DNA transposons in the speciation of pseudotetraploid salmonids , 2007, BMC Genomics.
[62] Ziheng Yang. PAML 4: phylogenetic analysis by maximum likelihood. , 2007, Molecular biology and evolution.
[63] U. Fascio,et al. The cell wall sensor Wsc1p is involved in reorganization of actin cytoskeleton in response to hypo‐osmotic shock in Saccharomyces cerevisiae , 2004, Yeast.
[64] F. Blattner,et al. Mauve: multiple alignment of conserved genomic sequence with rearrangements. , 2004, Genome research.
[65] Daniel C. Desrosiers,et al. The ankyrin repeat as molecular architecture for protein recognition , 2004, Protein science : a publication of the Protein Society.
[66] Debashish Bhattacharya,et al. A molecular timeline for the origin of photosynthetic eukaryotes. , 2004, Molecular biology and evolution.
[67] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[68] O. Gascuel,et al. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. , 2003, Systematic biology.
[69] K. Katoh,et al. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. , 2002, Nucleic acids research.
[70] W. Swanson,et al. The rapid evolution of reproductive proteins , 2002, Nature Reviews Genetics.
[71] S. Franzblau,et al. Inhibition of Mycobacterium tuberculosis growth by saringosterol from Lessonia nigrescens. , 2001, Journal of natural products.
[72] W. Peters. Some don't like it hot , 2001 .
[73] J. Collén,et al. REACTIVE OXYGEN METABOLISM IN INTERTIDAL FUCUS SPP. (PHAEOPHYCEAE) , 1999 .
[74] R. Ballester,et al. A family of genes required for maintenance of cell wall integrity and for the stress response in Saccharomyces cerevisiae. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[75] J. West,et al. Ectocarpus siliculosus (Dillwyn) Lyngb. from Hopkins River Falls, Victoria- the first record of a freshwater brown alga in Australia , 1996, Muelleria: An Australian Journal of Botany.
[76] I. Davison,et al. STRESS TOLERANCE IN INTERTIDAL SEAWEEDS , 1996 .
[77] A. Bacic,et al. Analysis of the structural heterogeneity of laminarin by electrospray-ionisation-mass spectrometry. , 1996, Carbohydrate research.
[78] Richard C. Starr,et al. UTEX—THE CULTURE COLLECTION OF ALGAE AT THE UNIVERSITY OF TEXAS AT AUSTIN 1993 LIST OF CULTURES 1 , 1993 .
[79] R. Quatrano,et al. Structure of the cell walls of marine algae and ecophysiological functions of the matrix polysaccharides. , 1988 .
[80] J. Bolton. Ecoclinal variation in Ectocarpus siliculosus (Phaeophyceae) with respect to temperature growth optima and survival limits , 1983 .
[81] P. Robbins,et al. alpha-D-Mannosidases of rat liver Golgi membranes. Mannosidase II is the GlcNAcMAN5-cleaving enzyme in glycoprotein biosynthesis and mannosidases Ia and IB are the enzymes converting Man9 precursors to Man5 intermediates. , 1982, The Journal of biological chemistry.
[82] Peter D. Karp,et al. Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology , 2016, Briefings Bioinform..
[83] A. Amtmann. Learning from evolution: Thellungiella generates new knowledge on essential and critical components of abiotic stress tolerance in plants. , 2009, Molecular plant.
[84] R. Knippers,et al. Viruses in marine brown algae. , 1998, Advances in virus research.
[85] M. Robles,et al. University of Birmingham High throughput functional annotation and data mining with the Blast2GO suite , 2022 .
[86] Andreas Wilke,et al. phylogenetic and functional analysis of metagenomes , 2022 .