@article{fdi:010053685,
  title = {{M}icro-collinearity and genome evolution in the vicinity of an ethylene receptor gene of cultivated diploid and allotetraploid coffee species ({C}offea)},
  author = {{Y}u, {Q}.{Y}. and {G}uyot, {R}omain and {K}ochko, {A}lexandre de and {B}yers, {A}. and {N}avajas-{P}erez, {R}. and {L}angston, {B}.{J}. and {D}ubreuil {T}ranchant, {C}hristine and {P}aterson, {A}.{H}. and {P}oncet, {V}al{\'e}rie and {N}agai, {C}. and {M}ing, {R}.},
  editor = {},
  language = {{ENG}},
  abstract = {{A}rabica coffee ({C}offea arabica {L}.) is a self-compatible perennial allotetraploid species (2n = 4x = 44), whereas {R}obusta coffee ({C}. canephora {L}.) is a self-incompatible perennial diploid species (2n = 2x = 22). {C}. arabica (({CCEE}a)-{C}-a-{E}-a-{E}-a) is derived from a spontaneous hybridization between two closely related diploid coffee species, {C}. canephora ({CC}) and {C}. eugenioides ({EE}). {T}o investigate the patterns and degree of {DNA} sequence divergence between the {A}rabica and {R}obusta coffee genomes, we identified orthologous bacterial artificial chromosomes ({BAC}s) from {C}. arabica and {C}. canephora, and compared their sequences to trace their evolutionary history. {A}lthough a high level of sequence similarity was found between {BAC}s from {C}. arabica and {C}. canephora, numerous chromosomal rearrangements were detected, including inversions, deletions and insertions. {DNA} sequence identity between {C}. arabica and {C}. canephora orthologous {BAC}s ranged from 93.4% (between {E}-a and {C}-a) to 94.6% (between {C}-a and {C}). {A}nalysis of eight orthologous gene pairs resulted in estimated ages of divergence between 0.046 and 0.665 million years, indicating a recent origin of the allotetraploid species {C}. arabica. {A}nalysis of transposable elements revealed differential insertion events that contributed to the size increase in the {C}-a sub-genome compared to its diploid relative. {I}n particular, we showed that insertion of a {T}y1-copia {LTR} retrotransposon occurred specifically in {C}. arabica, probably shortly after allopolyploid formation. {T}he two sub-genomes of {C}. arabica, {C}-a and {E}-a, showed sufficient sequence differences, and a whole-genome shotgun approach could be suitable for sequencing the allotetraploid genome of {C}. arabica.},
  keywords = {{C}offea ; evolution ; comparative genomics ; allotetraploid ; genetic divergence ; transposable elements},
  booktitle = {},
  journal = {{P}lant {J}ournal},
  volume = {67},
  numero = {2},
  pages = {305--317},
  ISSN = {0960-7412},
  year = {2011},
  DOI = {10.1111/j.1365-313{X}.2011.04590.x},
  URL = {https://www.documentation.ird.fr/hor/fdi:010053685},
}