Search Results - "Boutte, Julien"

Evolution on the backbone: Apocynaceae phylogenomics and new perspectives on growth forms, flowers, and fruits by Fishbein, Mark, Livshultz, Tatyana, Straub, Shannon C. K., Simões, André O., Boutte, Julien, McDonnell, Angela, Foote, Abbey

“…Premise of the Study We provide the largest phylogenetic analyses to date of Apocynaceae in terms of taxa and molecular data as a framework for analyzing the…”
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Long-read assembly of the Brassica napus reference genome Darmor-bzh by Rousseau-Gueutin, Mathieu, Belser, Caroline, Da Silva, Corinne, Richard, Gautier, Istace, Benjamin, Cruaud, Corinne, Falentin, Cyril, Boideau, Franz, Boutte, Julien, Delourme, Regine, Deniot, Gwenaëlle, Engelen, Stefan, de Carvalho, Julie Ferreira, Lemainque, Arnaud, Maillet, Loeiz, Morice, Jérôme, Wincker, Patrick, Denoeud, France, Chèvre, Anne-Marie, Aury, Jean-Marc

“…Abstract Background The combination of long reads and long-range information to produce genome assemblies is now accepted as a common standard. This strategy…”
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Evolution at the tips: Asclepias phylogenomics and new perspectives on leaf surfaces by Fishbein, Mark, Straub, Shannon C. K., Boutte, Julien, Hansen, Kimberly, Cronn, Richard C., Liston, Aaron

“…Premise of the Study Leaf surface traits, such as trichome density and wax production, mediate important ecological processes such as anti‐herbivory defense…”
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Genome Size Variation and Comparative Genomics Reveal Intraspecific Diversity in Brassica rapa by Boutte, Julien, Maillet, Loeiz, Chaussepied, Thomas, Letort, Sébastien, Aury, Jean-Marc, Belser, Caroline, Boideau, Franz, Brunet, Anael, Coriton, Olivier, Deniot, Gwenaëlle, Falentin, Cyril, Huteau, Virginie, Lodé-Taburel, Maryse, Morice, Jérôme, Trotoux, Gwenn, Chèvre, Anne-Marie, Rousseau-Gueutin, Mathieu, Ferreira de Carvalho, Julie

“…Traditionally, reference genomes in crop species rely on the assembly of one accession, thus occulting most of intraspecific diversity. However,…”
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Impact of whole genome triplication on the evolutionary history and the functional dynamics of regulatory genes involved in Brassica self-incompatibility signalling pathway by Azibi, Thanina, Hadj-Arab, Houria, Lodé, Maryse, Ferreira de Carvalho, Julie, Trotoux, Gwenn, Nègre, Sylvie, Gilet, Marie-Madeleine, Boutte, Julien, Lucas, Jérémy, Vekemans, Xavier, Chèvre, Anne-Marie, Rousseau-Gueutin, Mathieu

“…Polyploidy or whole genome duplication is a frequent and recurrent phenomenon in flowering plants that has played a major role in their diversification,…”
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Haplotype Detection from Next-Generation Sequencing in High-Ploidy-Level Species: 45S rDNA Gene Copies in the Hexaploid Spartina maritima by Boutte, Julien, Aliaga, Benoît, Lima, Oscar, Ferreira de Carvalho, Julie, Ainouche, Abdelkader, Macas, Jiri, Rousseau-Gueutin, Mathieu, Coriton, Olivier, Ainouche, Malika, Salmon, Armel

“…Gene and whole-genome duplications are widespread in plant nuclear genomes, resulting in sequence heterogeneity. Identification of duplicated genes may be…”
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Alternating between even and odd ploidy levels switches on and off the recombination control, even near the centromeres by Boideau, Franz, Huteau, Virginie, Maillet, Loeiz, Brunet, Anael, Coriton, Olivier, Deniot, Gwenaëlle, Trotoux, Gwenn, Taburel-Lodé, Maryse, Eber, Frédérique, Gilet, Marie, Baron, Cécile, Boutte, Julien, Richard, Gautier, Aury, Jean-Marc, Belser, Caroline, Labadie, Karine, Morice, Jérôme, Falentin, Cyril, Martin, Olivier, Falque, Matthieu, Chèvre, Anne-Marie, Rousseau-Gueutin, Mathieu

“…Meiotic recombination is a key biological process in plant evolution and breeding, as it generates genetic diversity in each generation through the formation…”
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NGS-Indel Coder: A pipeline to code indel characters in phylogenomic data with an example of its application in milkweeds (Asclepias) by Boutte, Julien, Fishbein, Mark, Liston, Aaron, Straub, Shannon C.K.

“…[Display omitted] •Most phylogenomic analyses only utilize single nucleotide polymorphisms, no indels.•NGS-Indel Coder was developed to detect and omit…”
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Evolutionary dynamics of transposable elements and satellite DNAs in polyploid Spartina species by Giraud, Delphine, Lima, Oscar, Huteau, Virginie, Coriton, Olivier, Boutte, Julien, Kovarik, Ales, Leitch, Andrew R., Leitch, Ilia J., Aïnouche, Malika, Salmon, Armel

“…•First repeat annotations from high-throughput genome sequencing in polyploid Spartina.•Repeat dynamics among Spartina species is correlated with phylogenetic…”
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The evolutionary fate of the chloroplast and nuclear rps16 genes as revealed through the sequencing and comparative analyses of four novel legume chloroplast genomes from Lupinus by Keller, J, Rousseau-Gueutin, M, Martin, G E, Morice, J, Boutte, J, Coissac, E, Ourari, M, Aïnouche, M, Salmon, A, Cabello-Hurtado, F, Aïnouche, A

“…The Fabaceae family is considered as a model system for understanding chloroplast genome evolution due to the presence of extensive structural rearrangements,…”
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The chloroplast genome of the hexaploid Spartina maritima (Poaceae, Chloridoideae): Comparative analyses and molecular dating by Rousseau-Gueutin, M., Bellot, S., Martin, G.E., Boutte, J., Chelaifa, H., Lima, O., Michon-Coudouel, S., Naquin, D., Salmon, A., Ainouche, K., Ainouche, M.

“…[Display omitted] •We sequenced the complete chloroplast genome of Spartina maritima.•Evolution of Poaceae plastomes including Chloridoideae was analyzed.•We…”
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Gene expression variation in natural populations of hexaploid and allododecaploid Spartina species (Poaceae) by de Carvalho, Julie Ferreira, Boutte, Julien, Bourdaud, Pierre, Chelaifa, Houda, Ainouche, Kader, Salmon, Armel, Ainouche, Malika

“…Allopolyploidy is a peculiar process entailing the cohabitation of two (or more) divergent genomes. Consequences on plant genomes are varied and can utlimately…”
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Enabling evolutionary studies at multiple scales in Apocynaceae through Hyb‐Seq by Straub, Shannon C. K., Boutte, Julien, Fishbein, Mark, Livshultz, Tatyana

“…Premise Apocynaceae is the 10th largest flowering plant family and a focus for study of plant–insect interactions, especially as mediated by secondary…”
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Evolution of DMSP (dimethylsulfoniopropionate) biosynthesis pathway: Origin and phylogenetic distribution in polyploid Spartina (Poaceae, Chloridoideae) by Rousseau, Hélène, Rousseau-Gueutin, Mathieu, Dauvergne, Xavier, Boutte, Julien, Simon, Gaëlle, Marnet, Nathalie, Bouchereau, Alain, Guiheneuf, Solène, Bazureau, Jean-Pierre, Morice, Jérôme, Ravanel, Stéphane, Cabello-Hurtado, Francisco, Ainouche, Abdelkader, Salmon, Armel, Wendel, Jonathan F., Ainouche, Malika L.

“…[Display omitted] •The ability to produce DMSP was explored in Spartina in the light of the species phylogeny and ploidy.•DMSP synthesis evolved once in a…”
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Reference Transcriptomes and Detection of Duplicated Copies in Hexaploid and Allododecaploid Spartina Species (Poaceae) by Boutte, Julien, Ferreira de Carvalho, Julie, Rousseau-Gueutin, Mathieu, Poulain, Julie, Da Silva, Corinne, Wincker, Patrick, Ainouche, Malika, Salmon, Armel

“…In this study, we report the assembly and annotation of five reference transcriptomes for the European hexaploid Spartina species (S. maritima, S. alterniflora…”
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Transcriptome de novo assembly from next-generation sequencing and comparative analyses in the hexaploid salt marsh species Spartina maritima and Spartina alterniflora (Poaceae) by Ferreira de Carvalho, J, Poulain, J, Da Silva, C, Wincker, P, Michon-Coudouel, S, Dheilly, A, Naquin, D, Boutte, J, Salmon, A, Ainouche, M

“…Spartina species have a critical ecological role in salt marshes and represent an excellent system to investigate recurrent polyploid speciation. Using the 454…”
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Exploring the genome of the salt-marsh Spartina maritima (Poaceae, Chloridoideae) through BAC end sequence analysis by Ferreira de Carvalho, J, Chelaifa, H, Boutte, J, Poulain, J, Couloux, A, Wincker, P, Bellec, A, Fourment, J, Bergès, H, Salmon, A, Ainouche, M

“…Spartina species play an important ecological role on salt marshes. Spartina maritima is an Old-World species distributed along the European and North-African…”
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