Publications

This list includes publications for which the GenoToul Bioinformatics facility has been used (hardware infrastructure, Funding, or Staff members). All Sigenae's publications have used the GenoToul Bioinformatics hardware infrastructure.

2018

1. Rousset, F., Reddy Beeravolu, C., and Leblois, R. (2018). Likelihood computation and inference of demographic and mutational parameters from population genetic data under coalescent approximations. Journal de la Societe Française de Statistique 159, 142–166.

2. Schroeder, H., Sikora, M., Gopalakrishnan, S., Cassidy, L.M., Maisano Delser, P., Sandoval Velasco, M., Schraiber, J.G., Rasmussen, S., Homburger, J.R., Ávila-Arcos, M.C., Allentoft, M.E., Moreno-Mayar, J.V., Renaud, G., Gómez-Carballa, A., Laffoon, J.E., Hopkins, R.J.A., Higham, T.F.G., Carr, R.S., Schaffer, W.C., Day, J.S., Hoogland, M., Salas, A., Bustamante, C.D., Nielsen, R., Bradley, D.G., Hofman, C.L., and Willerslev, E. (2018). Origins and genetic legacies of the Caribbean Taino. Proceedings of the National Academy of Sciences 115, 2341–2346. https://doi.org/10.1073/pnas.1716839115.

3. Lima e Silva, C. de, Mariette, J., Verweij, R.A., and Gestel, C.A.M. van (2018). Assessing the toxicity of thiamethoxam, in natural LUFA 2.2 soil, through three generations of Folsomia candida. Ecotoxicology 27, 764–771. https://doi.org/10.1007/s10646-018-1922-8.

4. Mariette, J., and Villa-Vialaneix, N. (2018). Unsupervised multiple kernel learning for heterogeneous data integration. Bioinformatics 34, 1009–1015. https://doi.org/10.1093/bioinformatics/btx682.

5. Illikoud, N., Klopp, C., Roulet, A., Bouchez, O., Marsaud, N., Jaffrès, E., and Zagorec, M. (2018). One complete and three draft genome sequences of four Brochothrix thermosphacta strains, CD 337, TAP 175, BSAS1 3 and EBP 3070. Standards in Genomic Sciences 13, 22. https://doi.org/10.1186/s40793-018-0333-z.

6. Bertucci, A., Pierron, F., Gourves, P.-Y., Klopp, C., Lagarde, G., Pereto, C., Dufour, V., Gonzalez, P., Coynel, A., Budzinski, H., and Baudrimont, M. (2018). Whole-transcriptome response to wastewater treatment plant and stormwater effluents in the Asian clam, Corbicula fluminea. Ecotoxicology and Environmental Safety 165, 96–106. https://doi.org/10.1016/j.ecoenv.2018.08.090.

7. Croville, G., Le Loc’h, G., Zanchetta, C., Manno, M., Camus-Bouclainville, C., Klopp, C., Delverdier, M., Lucas, M.-N., Donnadieu, C., Delpont, M., and Guérin, J.-L. (2018). Rapid whole-genome based typing and surveillance of avipoxviruses using nanopore sequencing. Journal of Virological Methods 261, 34–39. https://doi.org/10.1016/j.jviromet.2018.08.003.

8. Cabanettes, F., and Klopp, C. (2018). D-GENIES: Dot plot large genomes in an interactive, efficient and simple way. PeerJ 6, e4958. https://doi.org/10.7717/peerj.4958.

9. Mondet, F., Rau, A., Klopp, C., Rohmer, M., Severac, D., Le Conte, Y., and Alaux, C. (2018). Transcriptome profiling of the honeybee parasite Varroa destructor provides new biological insights into the mite adult life cycle. BMC Genomics 19, 328. https://doi.org/10.1186/s12864-018-4668-z.

10. Mat, A.M., Klopp, C., Payton, L., Jeziorski, C., Chalopin, M., Amzil, Z., Tran, D., Wikfors, G.H., Hégaret, H., Soudant, P., Huvet, A., and Fabioux, C. (2018). Oyster transcriptome response to alexandrium exposure is related to saxitoxin load and characterized by disrupted digestion, energy balance, and calcium and sodium signaling. Aquatic Toxicology 199, 127–137. https://doi.org/10.1016/j.aquatox.2018.03.030.

11. Angel, V.D.D., Hjerde, E., Sterck, L., Capella-Gutierrez, S., Notredame, C., Pettersson, O.V., Amselem, J., Bouri, L., Bocs, S., Klopp, C., Gibrat, J.-F., Vlasova, A., Leskosek, B.L., Soler, L., Binzer-Panchal, M., and Lantz, H. (2018). Ten steps to get started in Genome Assembly and Annotation. https://doi.org/10.12688/f1000research.13598.1.

12. Laurent, B., Moinard, M., Spataro, C., Ponts, N., Barreau, C., and Foulongne-Oriol, M. (2017). Landscape of genomic diversity and host adaptation in Fusarium graminearum. BMC Genomics 18, 203. https://doi.org/10.1186/s12864-017-3524-x.

13. Krasovec, M., Vancaester, E., Rombauts, S., Bucchini, F., Yau, S., Hemon, C., Lebredonchel, H., Grimsley, N., Moreau, H., Sanchez-Brosseau, S., Vandepoele, K., and Piganeau, G. (2018). Genome Analyses of the Microalga Picochlorum Provide Insights into the Evolution of Thermotolerance in the Green Lineage. Genome Biology and Evolution 10, 2347–2365. https://doi.org/10.1093/gbe/evy167.

14. Fomeju, B.F., Brunel, D., Bérard, A., Rivoal, J.-B., Gallois, P., Paslier, M.-C.L., and Bouverat-Bernier, J.-P. (2018). Quick and efficient approach to develop genomic resources in orphan species: Application in Lavandula angustifolia. https://doi.org/10.1101/381400.

15. Teyssier, A., Lens, L., Matthysen, E., and White, J. (2018). Dynamics of Gut Microbiota Diversity During the Early Development of an Avian Host: Evidence From a Cross-Foster Experiment. Frontiers in Microbiology 9. https://doi.org/10.3389/fmicb.2018.01524.

16. Torres, L., Welch, A.J., Zanchetta, C., Chesser, R.T., Manno, M., Donnadieu, C., Bretagnolle, V., and Pante, E. (2019). Evidence for a duplicated mitochondrial region in Audubon’s shearwater based on MinION sequencing. Mitochondrial DNA Part A 30, 256–263. https://doi.org/10.1080/24701394.2018.1484116.

17. Vitezica, Z.G., Reverter, A., Herring, W., and Legarra, A. (2018). Dominance and epistatic genetic variances for litter size in pigs using genomic models. Genetics Selection Evolution 50, 71. https://doi.org/10.1186/s12711-018-0437-3.

18. Xiang, T., Christensen, O.F., Vitezica, Z.G., and Legarra, A. (2018). Genomic Model with Correlation Between Additive and Dominance Effects. Genetics 209, 711–723. https://doi.org/10.1534/genetics.118.301015.

19. Maisano Delser, P., Corrigan, S., Duckett, D., Suwalski, A., Veuille, M., Planes, S., Naylor, G.J.P., and Mona, S. (2019). Demographic inferences after a range expansion can be biased: The test case of the blacktip reef shark (Carcharhinus melanopterus). Heredity 122, 759–769. https://doi.org/10.1038/s41437-018-0164-0.

20. Nicot, F., Jeanne, N., Roulet, A., Lefebvre, C., Carcenac, R., Manno, M., Dubois, M., Kamar, N., Lhomme, S., Abravanel, F., and Izopet, J. (2018). Diversity of hepatitis E virus genotype 3. Reviews in Medical Virology 28, e1987. https://doi.org/10.1002/rmv.1987.

21. Perrier, J.-P., Sellem, E., Prézelin, A., Gasselin, M., Jouneau, L., Piumi, F., Al Adhami, H., Weber, M., Fritz, S., Boichard, D., Le Danvic, C., Schibler, L., Jammes, H., and Kiefer, H. (2018). A multi-scale analysis of bull sperm methylome revealed both species peculiarities and conserved tissue-specific features. BMC Genomics 19, 404. https://doi.org/10.1186/s12864-018-4764-0.

22. Pratx, L., Rancurel, C., Da Rocha, M., Danchin, E.G.J., Castagnone-Sereno, P., Abad, P., and Perfus-Barbeoch, L. (2018). Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species. BMC Genomics 19, 321. https://doi.org/10.1186/s12864-018-4686-x.

23. Coleman, R.A., Gauffre, B., Pavlova, A., Beheregaray, L.B., Kearns, J., Lyon, J., Sasaki, M., Leblois, R., Sgro, C., and Sunnucks, P. (2018). Artificial barriers prevent genetic recovery of small isolated populations of a low-mobility freshwater fish. Heredity 120, 515–532. https://doi.org/10.1038/s41437-017-0008-3.

24. Ohlmann, M., Mazel, F., Chalmandrier, L., Bec, S., Coissac, E., Gielly, L., Pansu, J., Schilling, V., Taberlet, P., Zinger, L., Chave, J., and Thuiller, W. (2018). Mapping the imprint of biotic interactions on β-diversity. Ecology Letters 21, 1660–1669. https://doi.org/10.1111/ele.13143.

25. Zinger, L., Taberlet, P., Schimann, H., Bonin, A., Boyer, F., De Barba, M., Gaucher, P., Gielly, L., Giguet-Covex, C., Iribar, A., Réjou-Méchain, M., Rayé, G., Rioux, D., Schilling, V., Tymen, B., Viers, J., Zouiten, C., Thuiller, W., Coissac, E., and Chave, J. (2019). Body size determines soil community assembly in a tropical forest. Molecular Ecology 28, 528–543. https://doi.org/10.1111/mec.14919.

26. Ledoux, J.-B., Frleta-Valić, M., Kipson, S., Antunes, A., Cebrian, E., Linares, C., Sánchez, P., Leblois, R., and Garrabou, J. (2018). Postglacial range expansion shaped the spatial genetic structure in a marine habitat-forming species: Implications for conservation plans in the Eastern Adriatic Sea. Journal of Biogeography 45, 2645–2657. https://doi.org/10.1111/jbi.13461.

27. Hivert, V., Leblois, R., Petit, E.J., Gautier, M., and Vitalis, R. (2018). Measuring Genetic Differentiation from Pool-seq Data. Genetics 210, 315–330. https://doi.org/10.1534/genetics.118.300900.

28. Pecrix, Y., Staton, S.E., Sallet, E., Lelandais-Brière, C., Moreau, S., Carrère, S., Blein, T., Jardinaud, M.-F., Latrasse, D., Zouine, M., Zahm, M., Kreplak, J., Mayjonade, B., Satgé, C., Perez, M., Cauet, S., Marande, W., Chantry-Darmon, C., Lopez-Roques, C., Bouchez, O., Bérard, A., Debellé, F., Muños, S., Bendahmane, A., Bergès, H., Niebel, A., Buitink, J., Frugier, F., Benhamed, M., Crespi, M., Gouzy, J., and Gamas, P. (2018). Whole-genome landscape of Medicago truncatula symbiotic genes. Nature Plants 4, 1017–1025. https://doi.org/10.1038/s41477-018-0286-7.

29. Brousseau, L., Fine, P.V.A., Dreyer, E., Vendramin, G.G., and Scotti, I. (2018). Genomics of microgeographic adaptation in the Amazonian hyperdominant tree Eperua falcata Aubl. (Fabaceae). https://doi.org/10.1101/312843.

30. Ogiyama, Y., Schuettengruber, B., Papadopoulos, G.L., Chang, J.-M., and Cavalli, G. (2018). Polycomb-Dependent Chromatin Looping Contributes to Gene Silencing during Drosophila Development. Molecular Cell 71, 73–88.e5. https://doi.org/10.1016/j.molcel.2018.05.032.

31. Brousseau, L., Nidelet, S., and Streiff, R. (2018). New WGS data and annotation of the heterosomal vs. Autosomal localization of Ostrinia scapulalis (Lepidoptera, Crambidae) nuclear genomic scaffolds. Data in Brief 20, 644–648. https://doi.org/10.1016/j.dib.2018.08.011.

32. Charrier, N.P., Couton, M., Voordouw, M.J., Rais, O., Durand-Hermouet, A., Hervet, C., Plantard, O., and Rispe, C. (2018). Whole body transcriptomes and new insights into the biology of the tick Ixodes ricinus. Parasites & Vectors 11, 364. https://doi.org/10.1186/s13071-018-2932-3.

33. Viricel, C., Givry, S. de, Schiex, T., and Barbe, S. (2018). Cost function network-based design of protein–protein interactions: Predicting changes in binding affinity. Bioinformatics 34, 2581–2589. https://doi.org/10.1093/bioinformatics/bty092.

34. Raymond, O., Gouzy, J., Just, J., Badouin, H., Verdenaud, M., Lemainque, A., Vergne, P., Moja, S., Choisne, N., Pont, C., Carrère, S., Caissard, J.-C., Couloux, A., Cottret, L., Aury, J.-M., Szécsi, J., Latrasse, D., Madoui, M.-A., François, L., Fu, X., Yang, S.-H., Dubois, A., Piola, F., Larrieu, A., Perez, M., Labadie, K., Perrier, L., Govetto, B., Labrousse, Y., Villand, P., Bardoux, C., Boltz, V., Lopez-Roques, C., Heitzler, P., Vernoux, T., Vandenbussche, M., Quesneville, H., Boualem, A., Bendahmane, A., Liu, C., Le Bris, M., Salse, J., Baudino, S., Benhamed, M., Wincker, P., and Bendahmane, M. (2018). The Rosa genome provides new insights into the domestication of modern roses. Nature Genetics 50, 772–777. https://doi.org/10.1038/s41588-018-0110-3.

35. Laurent, B., Palaiokostas, C., Spataro, C., Moinard, M., Zehraoui, E., Houston, R.D., and Foulongne-Oriol, M. (2018). High-resolution mapping of the recombination landscape of the phytopathogen Fusarium graminearum suggests two-speed genome evolution. Molecular Plant Pathology 19, 341–354. https://doi.org/10.1111/mpp.12524.

36. Segura, A., Auffret, P., Bibbal, D., Bertoni, M., Durand, A., Jubelin, G., Kérourédan, M., Brugère, H., Bertin, Y., and Forano, E. (2018). Factors Involved in the Persistence of a Shiga Toxin-Producing Escherichia coli O157:H7 Strain in Bovine Feces and Gastro-Intestinal Content. Frontiers in Microbiology 9. https://doi.org/10.3389/fmicb.2018.00375.

37. Teyssier, A., Rouffaer, L.O., Saleh Hudin, N., Strubbe, D., Matthysen, E., Lens, L., and White, J. (2018). Inside the guts of the city: Urban-induced alterations of the gut microbiota in a wild passerine. Science of The Total Environment 612, 1276–1286. https://doi.org/10.1016/j.scitotenv.2017.09.035.

38. Keller, J., Imperial, J., Ruiz-Argüeso, T., Privet, K., Lima, O., Michon-Coudouel, S., Biget, M., Salmon, A., Aïnouche, A., and Cabello-Hurtado, F. (2018). RNA sequencing and analysis of three lupinus nodulomes provide new insights into specific host-symbiont relationships with compatible and incompatible bradyrhizobium strains. Plant Science 266, 102–116. https://doi.org/10.1016/j.plantsci.2017.10.015.

39. Gaulin, E., Pel, M.J.C., Camborde, L., San-Clemente, H., Courbier, S., Dupouy, M.-A., Lengellé, J., Veyssiere, M., Le Ru, A., Grandjean, F., Cordaux, R., Moumen, B., Gilbert, C., Cano, L.M., Aury, J.-M., Guy, J., Wincker, P., Bouchez, O., Klopp, C., and Dumas, B. (2018). Genomics analysis of Aphanomyces spp. Identifies a new class of oomycete effector associated with host adaptation. BMC Biology 16, 43. https://doi.org/10.1186/s12915-018-0508-5.

40. Szabo, Q., Jost, D., Chang, J.-M., Cattoni, D.I., Papadopoulos, G.L., Bonev, B., Sexton, T., Gurgo, J., Jacquier, C., Nollmann, M., Bantignies, F., and Cavalli, G. (2018). TADs are 3D structural units of higher-order chromosome organization in Drosophila. Science Advances 4, eaar8082. https://doi.org/10.1126/sciadv.aar8082.

41. Choque, E., Klopp, C., Valiere, S., Raynal, J., and Mathieu, F. (2018). Whole-genome sequencing of Aspergillus tubingensis G131 and overview of its secondary metabolism potential. BMC Genomics 19, 200. https://doi.org/10.1186/s12864-018-4574-4.

42. David, M., Lebrun, C., Duguet, T., Talmont, F., Beech, R., Orlowski, S., André, F., Prichard, R.K., and Lespine, A. (2018). Structural model, functional modulation by ivermectin and tissue localization of Haemonchus contortus P-glycoprotein-13. International Journal for Parasitology: Drugs and Drug Resistance 8, 145–157. https://doi.org/10.1016/j.ijpddr.2018.02.001.

43. Bigot, D., Atyame, C.M., Weill, M., Justy, F., Herniou, E.A., and Gayral, P. (2018). Discovery of Culex pipiens associated tunisia virus: A new ssRNA(+) virus representing a new insect associated virus family. Virus Evolution 4, vex040. https://doi.org/10.1093/ve/vex040.

44. Brener-Raffalli, K., Clerissi, C., Vidal-Dupiol, J., Adjeroud, M., Bonhomme, F., Pratlong, M., Aurelle, D., Mitta, G., and Toulza, E. (2018). Thermal regime and host clade, rather than geography, drive Symbiodinium and bacterial assemblages in the scleractinian coral Pocillopora damicornis sensu lato. Microbiome 6, 39. https://doi.org/10.1186/s40168-018-0423-6.

45. Leblois, R., Gautier, M., Rohfritsch, A., Foucaud, J., Burban, C., Galan, M., Loiseau, A., Sauné, L., Branco, M., Gharbi, K., Vitalis, R., and Kerdelhué, C. (2018). Deciphering the demographic history of allochronic differentiation in the pine processionary moth Thaumetopoea pityocampa. Molecular Ecology 27, 264–278. https://doi.org/10.1111/mec.14411.

46. Clemente, F., Gautier, M., and Vitalis, R. (2018). Inferring sex-specific demographic history from SNP data. PLOS Genetics 14, e1007191. https://doi.org/10.1371/journal.pgen.1007191.

47. De Cocker, P., Bessiere, Y., Hernandez-Raquet, G., Dubos, S., Mozo, I., Gaval, G., Caligaris, M., Barillon, B., Vlaeminck, S.E., and Sperandio, M. (2018). Enrichment and adaptation yield high anammox conversion rates under low temperatures. Bioresource Technology 250, 505–512. https://doi.org/10.1016/j.biortech.2017.11.079.

48. Gauthier, J., Gayral, P., Le Ru, B.P., Jancek, S., Dupas, S., Kaiser, L., Gyapay, G., and Herniou, E.A. (2018). Genetic footprints of adaptive divergence in the bracovirus of Cotesia sesamiae identified by targeted resequencing. Molecular Ecology 27, 2109–2123. https://doi.org/10.1111/mec.14574.

49. Brucato, N., Fernandes, V., Mazières, S., Kusuma, P., Cox, M.P., Ng’ang’a, J.W., Omar, M., Simeone-Senelle, M.-C., Frassati, C., Alshamali, F., Fin, B., Boland, A., Deleuze, J.-F., Stoneking, M., Adelaar, A., Crowther, A., Boivin, N., Pereira, L., Bailly, P., Chiaroni, J., and Ricaut, F.-X. (2018). The Comoros Show the Earliest Austronesian Gene Flow into the Swahili Corridor. The American Journal of Human Genetics 102, 58–68. https://doi.org/10.1016/j.ajhg.2017.11.011.

50. Bruxaux, J., Gabrielli, M., Ashari, H., Prŷs-Jones, R., Joseph, L., Milá, B., Besnard, G., and Thébaud, C. (2018). Recovering the evolutionary history of crowned pigeons (Columbidae: Goura): Implications for the biogeography and conservation of New Guinean lowland birds. Molecular Phylogenetics and Evolution 120, 248–258. https://doi.org/10.1016/j.ympev.2017.11.022.

51. Vannier, N., Mony, C., Bittebiere, A.-K., Michon-Coudouel, S., Biget, M., and Vandenkoornhuyse, P. (2018). A microorganisms’ journey between plant generations. Microbiome 6, 79. https://doi.org/10.1186/s40168-018-0459-7.

52. Rahimova, R., Fontanel, S., Lionne, C., Jordheim, L.P., Peyrottes, S., and Chaloin, L. (2018). Identification of allosteric inhibitors of the ecto-5’-nucleotidase (CD73) targeting the dimer interface. PLOS Computational Biology 14, e1005943. https://doi.org/10.1371/journal.pcbi.1005943.

53. Coleman, R.A., Gauffre, B., Pavlova, A., Beheregaray, L.B., Kearns, J., Lyon, J., Sasaki, M., Leblois, R., Sgro, C., and Sunnucks, P. (2018). Artificial barriers prevent genetic recovery of small isolated populations of a low-mobility freshwater fish. Heredity 120, 515–532. https://doi.org/10.1038/s41437-017-0008-3.

54. Darnaud, M., Santos, A.D., Gonzalez, P., Augui, S., Lacoste, C., Desterke, C., Hertogh, G.D., Valentino, E., Braun, E., Zheng, J., Boisgard, R., Neut, C., Dubuquoy, L., Chiappini, F., Samuel, D., Lepage, P., Guerrieri, F., Doré, J., Bréchot, C., Moniaux, N., and Faivre, J. (2018). Enteric Delivery of Regenerating Family Member 3 alpha Alters the Intestinal Microbiota and Controls Inflammation in Mice With Colitis. Gastroenterology 154, 1009–1023.e14. https://doi.org/10.1053/j.gastro.2017.11.003.

55. Lopez, D., Ribeiro, S., Label, P., Fumanal, B., Venisse, J.-S., Kohler, A., Oliveira, R.R. de, Labutti, K., Lipzen, A., Lail, K., Bauer, D., Ohm, R.A., Barry, K.W., Spatafora, J., Grigoriev, I.V., Martin, F.M., and Pujade-Renaud, V. (2018). Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors. Frontiers in Microbiology 9. https://doi.org/10.3389/fmicb.2018.00276.

56. Derelle, E., Yau, S., Moreau, H., and Grimsley, N.H. (2018). Prasinovirus Attack of Ostreococcus Is Furtive by Day but Savage by Night. Journal of Virology 92, 10.1128/jvi.01703–17. https://doi.org/10.1128/jvi.01703-17.

57. Chikhi, L., Rodríguez, W., Grusea, S., Santos, P., Boitard, S., and Mazet, O. (2018). The IICR (inverse instantaneous coalescence rate) as a summary of genomic diversity: Insights into demographic inference and model choice. Heredity 120, 13–24. https://doi.org/10.1038/s41437-017-0005-6.

58. Fumey, J., Hinaux, H., Noirot, C., Thermes, C., Rétaux, S., and Casane, D. (2018). Evidence for late Pleistocene origin of Astyanax mexicanus cavefish. BMC Evolutionary Biology 18, 43. https://doi.org/10.1186/s12862-018-1156-7.

59. Plomion, C., Aury, J.-M., Amselem, J., Leroy, T., Murat, F., Duplessis, S., Faye, S., Francillonne, N., Labadie, K., Le Provost, G., Lesur, I., Bartholomé, J., Faivre-Rampant, P., Kohler, A., Leplé, J.-C., Chantret, N., Chen, J., Diévart, A., Alaeitabar, T., Barbe, V., Belser, C., Bergès, H., Bodénès, C., Bogeat-Triboulot, M.-B., Bouffaud, M.-L., Brachi, B., Chancerel, E., Cohen, D., Couloux, A., Da Silva, C., Dossat, C., Ehrenmann, F., Gaspin, C., Grima-Pettenati, J., Guichoux, E., Hecker, A., Herrmann, S., Hugueney, P., Hummel, I., Klopp, C., Lalanne, C., Lascoux, M., Lasserre, E., Lemainque, A., Desprez-Loustau, M.-L., Luyten, I., Madoui, M.-A., Mangenot, S., Marchal, C., Maumus, F., Mercier, J., Michotey, C., Panaud, O., Picault, N., Rouhier, N., Rué, O., Rustenholz, C., Salin, F., Soler, M., Tarkka, M., Velt, A., Zanne, A.E., Martin, F., Wincker, P., Quesneville, H., Kremer, A., and Salse, J. (2018). Oak genome reveals facets of long lifespan. Nature Plants 4, 440–452. https://doi.org/10.1038/s41477-018-0172-3.

60. Escudié, F., Auer, L., Bernard, M., Mariadassou, M., Cauquil, L., Vidal, K., Maman, S., Hernandez-Raquet, G., Combes, S., and Pascal, G. (2018). FROGS: Find, Rapidly, OTUs with Galaxy Solution. Bioinformatics 34, 1287–1294. https://doi.org/10.1093/bioinformatics/btx791.

61. Laguerre, S., González, I., Nouaille, S., Moisan, A., Villa-Vialaneix, N., Gaspin, C., Bouvier, M., Carpousis, A.J., Cocaign-Bousquet, M., and Girbal, L. (2018). Large-Scale Measurement of mRNA Degradation in Escherichia coli: To Delay or Not to Delay. In Methods in Enzymology High-Density Sequencing Applications in Microbial Molecular Genetics., A. J. Carpousis, ed. (Academic Press), pp. 47–66. https://doi.org/10.1016/bs.mie.2018.07.003.

62. Medina, C., Rocha, M. da, Magliano, M., Raptopoulo, A., Marteu, N., Lebrigand, K., Abad, P., Favery, B., and Jaubert-Possamai, S. (2018). Characterization of siRNAs clusters in Arabidopsis thaliana galls induced by the root-knot nematode Meloidogyne incognita. BMC Genomics 19, 943. https://doi.org/10.1186/s12864-018-5296-3.

63. Krasovec, M., Sanchez-Brosseau, S., Grimsley, N., and Piganeau, G. (2018). Spontaneous mutation rate as a source of diversity for improving desirable traits in cultured microalgae. Algal Research 35, 85–90. https://doi.org/10.1016/j.algal.2018.08.003.

64. Cruaud, A., Groussier, G., Genson, G., Sauné, L., Polaszek, A., and Rasplus, J.-Y. (2018). Pushing the limits of whole genome amplification: Successful sequencing of RADseq library from a single microhymenopteran (Chalcidoidea, Trichogramma). PeerJ 6, e5640. https://doi.org/10.7717/peerj.5640.

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