Preprints

Preprint articles, posted in advance of peer-reviewed versions.

13) Belliardo C, Koutsovoulos G, Rancurel C, Clement M, Lipuma J, Bailly-Bechet M, Danchin EGJ Improvement of Eukaryotic Proteins Prediction from Soil Metagenomes. BioRxiv 2021 (View Online).

12) Siddique S., Radakovic Z.S., Hiltl C., Pellegrin C., Baum T.J., Beasley H., Chitambo O., Chopra D., Danchin E.G.J, Grenier E., Habash S.S., Shamim Hasan M., Helder J., Hewezi T., Holbein J., Holterman M., Janakowski S. , Koutsovoulos G.D., Kranse O.P., Lozano-Torres J.L., Maier T.R., Masonbrink R.E., Mendy B., Riemer E., Sobczak M., Sonawala U., Sterken M.G., Thorpe P., van Steenbrugge J.J.M., Zahid N., Grundler F., Eves-van den Akker S. The genome and lifestage-specific transcriptomes of a plant-parasitic nematode and its host reveal susceptibility genes involved in trans-kingdom synthesis of vitamin B5. BioRxiv 2021. (View Online).

11) Hassanaly-Goulamhoussen R., De Carvalho Augusto R., Marteu-Garello N., Péré A., Favery B., Da Rocha M., Danchin E.G.J., Abad P., Grunau C., Perfus-Barbeoch L. Chromatin Landscape Dynamics in Development of the Plant Parasitic Nematode Meloidogyne incognita. BioRxiv 2021. (View Online). -> Now published in Frontiers in Cell and Developmental Biology (Link)

10) Da Rocha M., Bournaud C., Dazenière J., Thorpe P., Pellegrin C., Bailly-Bechet M., Péré A., Grynberg P., Perfus-Barbeoch L., Eves-van den Akker S., Danchin E.G.J. Genome expression dynamics reveals parasitism regulatory landscape of the root-knot nematode Meloidogyne incognita and a promoter motif associated with effector genes. BioRxiv 2021. (View Online).-> Now published in Genes

9) Grynberg P., Coiti Togawa R., Dias de Freitas L., Antonino J.D., Rancurel C., Mota do Carmo Costa M., Grossi-de-Sa M.F., Miller R.N.G., Brasileiro A.C.M., Messenberg Guimaraes P., Danchin E.G.J. Comparative genomics reveals novel target genes towards specific control of plant-parasitic nematodes. Preprints 2020. (View Online).-> Now published in Genes

8) Simion P., Narayan J., Houtain A., Derzelle A., Baudry L., Nicolas E., Cariou M., Guiglielmoni N., Kozlowski DKL., Rodriguez Gaudray F., Terwagne M., Virgo J., Noel B., Wincker P., Danchin EGJ., Marbouty M., Hallet B., Koszul R., Limasset A., Flot J-F.,Van Doninck K. Homologous chromosomes in the asexual rotifer Adineta vaga suggest automixis. bioRxiv. 2020 (View Online). –> Now published in Science Advances

7) Kozlowski DKL , Hassanaly-Goulamhoussen R, Da Rocha M, Koutsovoulos GD, Bailly-Bechet M, Danchin  EGJ. Transposable Elements are an evolutionary force shaping genomic plasticity in the parthenogenetic root-knot nematode Meloidogyne incognita. bioRxiv. 2020 (View Online). -> Now peer-reviewed and recommended in PCI Evolutionary Biology.-> Now published in Evolutionary Applications

6) Koutsovoulos G.D., Poullet M., El Ashry A., Kozlowski D.K., Sallet E., Da Rocha M., Martin-Jimenez C., Perfus-Barbeoch L., Frey J-E, Ahrens C., Kiewnick S.*, Danchin E.G.J.* The polyploid genome of the mitotic parthenogenetic root knot nematode Meloidogyne enterolobii. bioRxiv. 2019 (View Online). *co-last authors -> Now published in Scientific Data

5) Busch A., Danchin E.G.J., Pauchet Y. Functional analyses of the horizontally acquired Phytophaga glycoside hydrolase family 45 (GH45) proteins reveal distinct functional characteristics. bioRxiv. 2018 (View Online). -> Now published in BMC Evolutionary Biology

4) G.D. Koutsovoulos, E. Marques, M.-J. Arguel, L. Duret, A.C.Z. Machado, R.M.D.G. Carneiro, D.K. Kozlowski, M. Bailly-Bechet, P. Castagnone-Sereno, E.V.S. Albuquerque*, E.G.J. Danchin*. Population genomics supports clonal reproduction and multiple gains and losses of parasitic abilities in the most devastating nematode pest. bioRxiv. 2018 (View Online). *equal contribution. -> Now peer-reviewed and recommended in PCI Evolutionary Biology-> Now published in Evolutionary Applications

3) Rancurel, C., Legrand, L., Danchin, E.G.J. Alienness: Rapid Detection of Candidate Horizontal Gene Transfers across the Tree of Life. Preprints 2017, 2017080107 (doi: 10.20944/preprints201708.0107.v1). (View Online). ->Now published in Genes

2) Schiffer PH, Danchin EGJ, Burnell AM, Schiffer AM, Creevey C, Wong S, Dix I,  O’Mahony G, Culleton BA, Rancurel C, Stier G, Martinez-Salazar EA, Marconi A, Trivedi U, Kroiher M, Thorne MAS, Schierenberg E, Wiehe T, Blaxter M. Signatures of the evolution of parthenogenesis and cryptobiosis in the genomes of panagrolaimid nematodes. bioRxiv. 2017 (View Online). -> Now published in iScience

1) Blanc-Mathieu R., Perfus-Babeoch L., Aury JM., Da Rocha M., Gouzy J., Sallet E., Martin-Jimenez C., Castagnone-Sereno P., Flot JF., Kozlowski D., Cazareth J., Couloux A., Da Silva C., Guy J., Rancurel C., Schiex T., Abad P., Wincker P., Danchin E.G.J. Peculiar hybrid genomes of devastating plant pests promote plasticity in the absence of sex and meiosis. bioRxiv. 2016 (View Online). -> Now published in PLoS Genetics