@article{fdi:010083301,
  title = {{A} whole genome duplication drives the genome evolution of {P}hytophthora betacei, a closely related species to {P}hytophthora infestans},
  author = {{A}yala-{U}sma, {D}. {A}. and {C}ardenas, {M}. and {G}uyot, {R}omain and {D}e {M}ares, {M}. {C}. and {B}ernal, {A}. and {M}unoz, {A}. {R}. and {R}estrepo, {S}.},
  editor = {},
  language = {{ENG}},
  abstract = {{B}ackground: {P}athogens of the genus {P}hytophthora are the etiological agents of many devastating diseases in several high-value crops and forestry species such as potato, tomato, cocoa, and oak, among many others. {P}hytophthora betacei is a recently described species that causes late blight almost exclusively in tree tomatoes, and it is closely related to {P}hytophthora infestans that causes the disease in potato crops and other {S}olanaceae. {T}his study reports the assembly and annotation of the genomes of {P}. betacei {P}8084, the first of its species, and {P}. infestans {RC}1-10, a {C}olombian strain from the {EC}-1 lineage, using long-read {SMRT} sequencing technology. {R}esults: {O}ur results show that {P}. betacei has the largest sequenced genome size of the {P}hytophthora genus so far with 270 {M}b. {A} moderate transposable element invasion and a whole genome duplication likely explain its genome size expansion when compared to {P}. infestans, whereas {P}. infestans {RC}1-10 has expanded its genome under the activity of transposable elements. {T}he high diversity and abundance (in terms of copy number) of classified and unclassified transposable elements in {P}. infestans {RC}1-10 relative to {P}. betacei bears testimony of the power of long-read technologies to discover novel repetitive elements in the genomes of organisms. {O}ur data also provides support for the phylogenetic placement of {P}. betacei as a standalone species and as a sister group of {P}. infestans. {F}inally, we found no evidence to support the idea that the genome of {P}. betacei {P}8084 follows the same gene-dense/genre-sparse architecture proposed for {P}. infestans and other filamentous plant pathogens. {C}onclusions: {T}his study provides the first genome-wide picture of {P}. betacei and expands the genomic resources available for {P}. infestans. {T}his is a contribution towards the understanding of the genome biology and evolutionary history of {P}hytophthora species belonging to the subclade 1c.},
  keywords = {},
  booktitle = {},
  journal = {{BMC} {G}enomics},
  volume = {22},
  numero = {1},
  pages = {795 [21 p.]},
  ISSN = {1471-2164},
  year = {2021},
  DOI = {10.1186/s12864-021-08079-y},
  URL = {https://www.documentation.ird.fr/hor/fdi:010083301},
}