@article{fdi:010061149,
  title = {{BAC}-end sequences analysis provides first insights into coffee ({C}offea canephora {P}.) genome composition and evolution},
  author = {{D}ereeper, {A}lexis and {G}uyot, {R}omain and {D}ubreuil {T}ranchant, {C}hristine and {A}nthony, {F}ran{\c{c}}ois and {A}rgout, {X}. and de {B}ellis, {F}. and {C}ombes, {M}arie-{C}hristine and {G}avory, {F}. and {K}ochko, {A}lexandre de and {K}udrna, {D}. and {L}eroy, {T}. and {P}oulain, {J}. and {R}ondeau, {M}. and {S}ong, {X}. and {W}ing, {R}. and {L}ashermes, {P}hilippe},
  editor = {},
  language = {{ENG}},
  abstract = {{C}offee is one of the world's most important agricultural commodities. {C}offee belongs to the {R}ubiaceae family in the euasterid {I} clade of dicotyledonous plants, to which the {S}olanaceae family also belongs. {T}wo bacterial artificial chromosome ({BAC}) libraries of a homozygous doubled haploid plant of {C}offea canephora were constructed using two enzymes, {H}ind{III} and {B}st{YI}. {A} total of 134,827 high quality {BAC}-end sequences ({BES}s) were generated from the 73,728 clones of the two libraries, and 131,412 {BES}s were conserved for further analysis after elimination of chloroplast and mitochondrial sequences. {T}his corresponded to almost 13 % of the estimated size of the {C}. canephora genome. 6.7 % of {BES}s contained simple sequence repeats, the most abundant (47.8 %) being mononucleotide motifs. {T}hese sequences allow the development of numerous useful marker sites. {P}otential transposable elements ({TE}s) represented 11.9 % of the full length {BES}s. {A} difference was observed between the {B}st{YI} and {H}ind{III} libraries (14.9 vs. 8.8 %). {A}nalysis of {BES}s against known coding sequences of {TE}s indicated that 11.9 % of the genome corresponded to known repeat sequences, like for other flowering plants. {T}he number of genes in the coffee genome was estimated at 41,973 which is probably overestimated. {C}omparative genome mapping revealed that microsynteny was higher between coffee and grapevine than between coffee and tomato or {A}rabidopsis. {BES}s constitute valuable resources for the first genome wide survey of coffee and provide new insights into the composition and evolution of the coffee genome.},
  keywords = {{C}omparative genomics ; {C}offea ; {G}enome ; {BAC} library ; {T}ransposable elements ; {M}icrosatellites},
  booktitle = {},
  journal = {{P}lant {M}olecular {B}iology},
  volume = {83},
  numero = {3},
  pages = {177--189},
  ISSN = {0167-4412},
  year = {2013},
  DOI = {10.1007/s11103-013-0077-5},
  URL = {https://www.documentation.ird.fr/hor/fdi:010061149},
}