@article{fdi:010079696,
  title = {{G}enome structure and content of the rice root-knot nematode ({M}eloidogyne graminicola)},
  author = {{N}gan {T}hi {P}han and {O}rjuela, {J}. and {D}anchin, {E}. {G}. {J}. and {K}lopp, {C}. and {P}erfus-{B}arbeoch, {L}. and {K}ozlowski, {D}. {K}. and {K}outsovoulos, {G}. {D}. and {L}opez-{R}oques, {C}. and {B}ouchez, {O}. and {Z}ahm, {M}. and {B}esnard, {G}. and {B}ellafiore, {S}t{\'e}phane},
  editor = {},
  language = {{ENG}},
  abstract = {{D}iscovered in the 1960s, {M}eloidogyne graminicolais a root-knot nematode species considered as a major threat to rice production. {Y}et, its origin, genomic structure, and intraspecific diversity are poorly understood. {S}o far, such studies have been limited by the unavailability of a sufficiently complete and well-assembled genome. {I}n this study, using a combination of {O}xford {N}anopore {T}echnologies and {I}llumina sequencing data, we generated a highly contiguous reference genome (283 scaffolds with an {N}50 length of 294 kb, totaling 41.5 {M}b). {T}he completeness scores of our assembly are among the highest currently published for {M}eloidogyne genomes. {W}e predicted 10,284 protein-coding genes spanning 75.5% of the genome. {A}mong them, 67 are identified as possibly originating from horizontal gene transfers (mostly from bacteria), which supposedly contribute to nematode infection, nutrient processing, and plant defense manipulation. {B}esides, we detected 575 canonical transposable elements ({TE}s) belonging to seven orders and spanning 2.61% of the genome. {T}hese {TE}s might promote genomic plasticity putatively related to the evolution of {M}. graminicola parasitism. {T}his high-quality genome assembly constitutes a major improvement regarding previously available versions and represents a valuable molecular resource for future phylogenomic studies of {M}eloidogyne species. {I}n particular, this will foster comparative genomic studies to trace back the evolutionary history of {M}. graminicola and its closest relatives.},
  keywords = {cereals ; horizontal gene transfer ; pest ; reference genome ; root-knot ; nematode ; transposable element ; {VIET} {NAM} ; {LAO} {CAI} {PROVINCE}},
  booktitle = {},
  journal = {{E}cology and {E}volution},
  volume = {10},
  numero = {20},
  pages = {11006--11021},
  ISSN = {2045-7758},
  year = {2020},
  DOI = {10.1002/ece3.6680},
  URL = {https://www.documentation.ird.fr/hor/fdi:010079696},
}