This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
Bankevich, A., Nurk, S., Antipov, D., Gurevich, A.A., Dvorkin, M., Kulikov, A.S., Lesin, V.M., Nikolenko, S.I., Pham, S., Prjibelski, A.D., and Pyshkin, A.V.. 2012. SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing. Journal of Computational Biology 19: 455-477.BankevichA.NurkS.AntipovD.GurevichA.A.DvorkinM.KulikovA.S.LesinV.M.NikolenkoS.I.PhamS.PrjibelskiA.D., and PyshkinA.V.. 2012. SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing. 19: 455-477.10.1089/cmb.2012.0021Search in Google Scholar
Bernt, M., Donath, A., Jühling, F., Externbrink, F., Florentz, C., Fritzsch, G., Pütz, J., Middendorf, M., and Stadler, P.F.. 2013. MITOS: Improved de novo metazoan mitochondrial genome annotation. Molecular Phylogenetics and Evolution 69: 313-319.BerntM.DonathA.JühlingF.ExternbrinkF.FlorentzC.FritzschG.PützJ.MiddendorfM., and StadlerP.F.. 2013. MITOS: Improved de novo metazoan mitochondrial genome annotation. 69: 313-319.10.1016/j.ympev.2012.08.023Search in Google Scholar
Besnard, G., Jühling, F., Chapuis, É., Zedane, L., Lhuillier, É., Mateille, T., and Bellafiore, S.. 2014. Fast assembly of the mitochondrial genome of a plant parasitic nematode (Meloidogyne graminicola) using next generation sequencing. Comptes Rendus Biologies 337: 295-301.BesnardG.JühlingF.ChapuisÉ.ZedaneL.LhuillierÉ.MateilleT., and BellafioreS.. 2014. Fast assembly of the mitochondrial genome of a plant parasitic nematode (Meloidogyne graminicola) using next generation sequencing. 337: 295-301.10.1016/j.crvi.2014.03.003Search in Google Scholar
Borodovsky, M., and McIninch, J.. 1993. Genmark: Parallel gene recognition for both DNA strands. Computers and Chemistry 17: 123-133.BorodovskyM., and McIninchJ.. 1993. Genmark: Parallel gene recognition for both DNA strands. 17: 123-133.10.1016/0097-8485(93)85004-VSearch in Google Scholar
Dutta, T.K., Ganguly, A.K., and Gaur, H.S.. 2012. Global status of rice root-knot nematode, Meloidogyne graminicola. African Journal of Microbiology Research 32: 6016-6021.DuttaT.K.GangulyA.K., and GaurH.S.. 2012. Global status of rice root-knot nematode, Meloidogyne graminicola. 32: 6016-6021.Search in Google Scholar
Kajitani, R., Toshimoto, K., Noguchi, H., Toyoda, A., Ogura, Y., Okuno, M., Yabana, M., Harada, M., Nagayasu, E., and Maruyama, H.. 2014. Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads. Genome Research 24: 1384-1395.KajitaniR.ToshimotoK.NoguchiH.ToyodaA.OguraY.OkunoM.YabanaM.HaradaM.NagayasuE., and MaruyamaH.. 2014. Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads. 24: 1384-1395.10.1101/gr.170720.113412009124755901Search in Google Scholar
Kikuchi, T., Eves-van den Akker, S., and Jones, J.T.. 2017. Genome evolution of plant-parasitic nematodes. Annual Review of Phytopathology 55: 333-354.KikuchiT.Eves-van den AkkerS., and JonesJ.T.. 2017. Genome evolution of plant-parasitic nematodes. 55: 333-354.10.1146/annurev-phyto-080516-03543428590877Search in Google Scholar
Lapp, N.A., and Triantaphyllou, A.C.. 1972. Relative DNA content and chromosomal relationships of some Meloidogyne, Heterodera, and Meloidodera spp. (Nematoda: Heteroderidae). Journal of Nematology 4: 287-291.LappN.A., and TriantaphyllouA.C.. 1972. Relative DNA content and chromosomal relationships of some MeloidogyneHeterodera, and Meloidodera spp. (Nematoda: Heteroderidae). 4: 287-291.Search in Google Scholar
Laslett, D., and Canbäck, B.. 2008. ARWEN, a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences. Bioinformatics 24: 172-175.LaslettD., and CanbäckB.. 2008. ARWEN, a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences. 24: 172-175.10.1093/bioinformatics/btm57318033792Search in Google Scholar
Li, L., Stoeckert, C.J., and Roos, D.S.. 2003. OrthoMCL: Identification of ortholog groups for eukaryotic genomes. Genome Research 13: 2178-2189.LiL.StoeckertC.J., and RoosD.S.. 2003. OrthoMCL: Identification of ortholog groups for eukaryotic genomes. 13: 2178-2189.10.1101/gr.122450340372512952885Search in Google Scholar
Mantelin, S., Bellafiore, S., and Kyndt, T.. 2016. Meloidogyne graminicola: A major threat to rice agriculture. Molecular Plant Pathology 18: 3-15.MantelinS.BellafioreS., and KyndtT.. 2016. Meloidogyne graminicola: A major threat to rice agriculture. 18: 3-15.10.1111/mpp.12394663825226950515Search in Google Scholar
Netscher, C., and Erlan, X.. 1993. A root-knot nematode, Meloidogyne graminicola, parasitic on rice in Indonesia. Afro-Asian. Journal of Nematology 3: 90-95.NetscherC., and ErlanX.. 1993. A root-knot nematode, Meloidogyne graminicola, parasitic on rice in Indonesia. Afro-Asian. 3: 90-95.Search in Google Scholar
Parra, G., Bradnam, K., and Korf, I.. 2007. CEGMA: A pipeline to accurately annotate core genes in eukaryotic genomes. Bioinformatics 23: 1061-1067.ParraG.BradnamK., and KorfI.. 2007. CEGMA: A pipeline to accurately annotate core genes in eukaryotic genomes. 23: 1061-1067.10.1093/bioinformatics/btm07117332020Search in Google Scholar
Patel, R.K., and Jain, M.. 2012. NGS QC Toolkit: A toolkit for quality control of next generation sequencing data. PLOS ONE 7: e30619.PatelR.K., and JainM.. 2012. NGS QC Toolkit: A toolkit for quality control of next generation sequencing data. 7: e30619.10.1371/journal.pone.0030619Search in Google Scholar
Prot, J.C., Villammeva, L.M., and Gergon, E.B.. 1994. The potential of increased nitrogen supply to mitigate growth and yield reductions of upland rice cultivar UPL RiI-5 caused by Meloidogyne graminicola. Fundamental and Applied Nematology 17: 445-454.ProtJ.C.VillammevaL.M., and GergonE.B.. 1994. The potential of increased nitrogen supply to mitigate growth and yield reductions of upland rice cultivar UPL RiI-5 caused by Meloidogyne graminicola. 17: 445-454.Search in Google Scholar
Pryszcz, L.P., and Gabaldón, T.. 2016. Redundans: An assembly pipeline for highly heterozygous genomes. Nucleic Acids Research 44: e113.PryszczL.P., and GabaldónT.. 2016. Redundans: An assembly pipeline for highly heterozygous genomes. 44: e113.10.1093/nar/gkw294Search in Google Scholar
Rice, P., Longden, I., and Bleasby, A.. 2000. EMBOSS: The European molecular biology open software suite. Trends in Genetics 16: 276-277.RiceP.LongdenI., and BleasbyA.. 2000. EMBOSS: The European molecular biology open software suite. 16: 276-277.10.1016/S0168-9525(00)02024-2Search in Google Scholar
Sun, L., Zhuo, K., Lin, B., Wang, H., and Liao, J.. 2014. The complete mitochondrial genome of Meloidogyne graminicola (Tylenchina): A unique gene arrangement and its phylogenetic implications. PLOS ONE 9: e98558.SunL.ZhuoK.LinB.WangH., and LiaoJ.. 2014. The complete mitochondrial genome of Meloidogyne graminicola (Tylenchina): A unique gene arrangement and its phylogenetic implications. 9: e98558.10.1371/journal.pone.0098558404375524892428Search in Google Scholar