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1 to 10 of 16 Results
Apr 26, 2021 - Parasitic transcriptome regulation in M. incognita
Danchin, Etienne; Péré, Arthur; Eves-van den Akker, Sebastian; Bournaud, Caroline, 2021, "Enriched GO terms in predicted dorsal gland effectors", https://doi.org/10.15454/2O77EF, Portail Data INRAE, V1, UNF:6:V3kqvCFEYcsZ8EHNP3r6Ow== [fileUNF]
By cross referencing the list of M. incognita proteins having a predicted signal peptide for secretion and no predicted transmembrane region with the list of proteins encoded by genes with Mel-DOG motifs in their upstream regions, we could predict 457 candidate dorsal gland (DG)...
Apr 26, 2021 - Parasitic transcriptome regulation in M. incognita
Danchin, Etienne, 2021, "Ancestral reconstruction of the origin of M. incognita effectors in the Meloidogyne genus", https://doi.org/10.15454/OJMRDD, Portail Data INRAE, V1, UNF:6:K4noZaEQBBmM7ZCn8ESQNQ== [fileUNF]
Based on the mapping of non-redundant known M. incognita subventral (SvG) and dorsal (DG) gland effectors on the genomes of five Meloidogyne species ancestral numbers were deduced across their phylogeny using parsimony inference with Mesquite (Maddison & Maddison, 2014). In the g...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne; Grynberg, Pirsicila; Togawa, Roberto, 2020, "PPN-specific candidate effectors expressed in endophytic phases of M. incognita parasitic life cycle", https://doi.org/10.15454/WBZZ5M, Portail Data INRAE, V1, UNF:6:Q6V0cPfaBNCHOg5KABL/1g== [fileUNF]
Annotated list of M. incognita candidate effector proteins that fulfil these criteria: - the proteins are PPN-specific according to orhtofinder and return no significant hit over than in other PPN against the NCBI's nr. - the protein does not belong to a multigene family - the co...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Orthofinder results: raw and annotated orthogroups and list of unassigned proteins", https://doi.org/10.15454/ZAYJBC, Portail Data INRAE, V1, UNF:6:8NY/0IDimU6RMU86NxPleg== [fileUNF]
Raw and annotated Orthofinder results on 61 nematode and 2 tardigrade (used as outgroup) species. The annotated list of species with description of the abbreviated names is available at https://doi.org/10.15454/IIAQOW Four files are provided and described below: 1- Orthogroups.Ge...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne, 2020, "M. incognita predicted secreted proteins", https://doi.org/10.15454/JCYZDI, Portail Data INRAE, V1
To identify putative secreted proteins in the M. incognita protein set (Blanc-Mathieu et al. 2017), we searched for predicted signal peptides (SP) for secretion using SignalP v4 (Petersen, Brunak, von Heijne, & Nielsen, 2011). This program improves the differentiation between tra...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Global statistics of the orthofinder analysis", https://doi.org/10.15454/ZGUP7N, Portail Data INRAE, V1
General statistics of the orhofinder analysis on the 63 species (including 61 nematodes). Number of orthogroups, of genes in orthogroups etc...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Orthofinder rooted species tree", https://doi.org/10.15454/MBMOQC, Portail Data INRAE, V1
Rooted phylogenomics species tree performed by Orthofinder on the 63 species, in Newick format. An annotated version of the tree in PDF format, produced with iTOL is also available.
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne; Grynberg, Priscila; Togawa, Roberto, 2020, "Annotated list of species used in this study", https://doi.org/10.15454/IIAQOW, Portail Data INRAE, V1
Annotated list of the 63 species used in the Orthofinder comparative analysis of nematodes (61 species) and two tardigrade species as out-groups. Description: Lines 1-64, definition of columns - Abbrev Species: abbreviated species name. Species identifiers used in all the Orthofi...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne, 2020, "M. incognita candidate effector proteins", https://doi.org/10.15454/CSTXU2, Portail Data INRAE, V1
Accession numbers of M. incognita candidate effectors. These proteins are predicted to be secreted based on the presence of a signal peptide for secretion and absence of transmembrane domains. Furthermore at least one motif known to be enriched in effector proteins is present in...
Aug 18, 2020 - Genes specific to phytoparasitic nematodes INRAE/EMBRAPA
Danchin, Etienne, 2020, "MERCI effector-enriched motifs in the 100 first amino acids of M. incognita proteins", https://doi.org/10.15454/LMY6LV, Portail Data INRAE, V1
MERCI effector-enriched motifs in the 100 first amino acids of M. incognita proteins M. incognita proteins with at least one of the 4 motifs identified as enriched in the known effector proteins as described in (Vens, Rosso, Danchin, Bioinformatics, 2011)
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