Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania.
Gene amplification of specific loci has been described in all kingdoms of life. In the protozoan parasite Leishmania, the product of amplification is usually part of extrachromosomal circular or linear amplicons that are formed at the level of direct or inverted repeated sequences. A bioinformatics...
Guardado en:
| Autores principales: | , , , , , , , , , , |
|---|---|
| Formato: | article |
| Lenguaje: | EN |
| Publicado: |
Public Library of Science (PLoS)
2014
|
| Materias: | |
| Acceso en línea: | https://doaj.org/article/a5042d92e19a405689df92d32d178972 |
| Etiquetas: |
Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
|
| id |
oai:doaj.org-article:a5042d92e19a405689df92d32d178972 |
|---|---|
| record_format |
dspace |
| spelling |
oai:doaj.org-article:a5042d92e19a405689df92d32d1789722021-11-11T05:37:09ZGenome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania.1544-91731545-788510.1371/journal.pbio.1001868https://doaj.org/article/a5042d92e19a405689df92d32d1789722014-05-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24844805/?tool=EBIhttps://doaj.org/toc/1544-9173https://doaj.org/toc/1545-7885Gene amplification of specific loci has been described in all kingdoms of life. In the protozoan parasite Leishmania, the product of amplification is usually part of extrachromosomal circular or linear amplicons that are formed at the level of direct or inverted repeated sequences. A bioinformatics screen revealed that repeated sequences are widely distributed in the Leishmania genome and the repeats are chromosome-specific, conserved among species, and generally present in low copy number. Using sensitive PCR assays, we provide evidence that the Leishmania genome is continuously being rearranged at the level of these repeated sequences, which serve as a functional platform for constitutive and stochastic amplification (and deletion) of genomic segments in the population. This process is adaptive as the copy number of advantageous extrachromosomal circular or linear elements increases upon selective pressure and is reversible when selection is removed. We also provide mechanistic insights on the formation of circular and linear amplicons through RAD51 recombinase-dependent and -independent mechanisms, respectively. The whole genome of Leishmania is thus stochastically rearranged at the level of repeated sequences, and the selection of parasite subpopulations with changes in the copy number of specific loci is used as a strategy to respond to a changing environment.Jean-Michel UbedaFrédéric RaymondAngana MukherjeeMarie PlourdeHélène GingrasGaétan RoyAndréanne LapointePhilippe LeprohonBarbara PapadopoulouJacques CorbeilMarc OuellettePublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Biology, Vol 12, Iss 5, p e1001868 (2014) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
Biology (General) QH301-705.5 |
| spellingShingle |
Biology (General) QH301-705.5 Jean-Michel Ubeda Frédéric Raymond Angana Mukherjee Marie Plourde Hélène Gingras Gaétan Roy Andréanne Lapointe Philippe Leprohon Barbara Papadopoulou Jacques Corbeil Marc Ouellette Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| description |
Gene amplification of specific loci has been described in all kingdoms of life. In the protozoan parasite Leishmania, the product of amplification is usually part of extrachromosomal circular or linear amplicons that are formed at the level of direct or inverted repeated sequences. A bioinformatics screen revealed that repeated sequences are widely distributed in the Leishmania genome and the repeats are chromosome-specific, conserved among species, and generally present in low copy number. Using sensitive PCR assays, we provide evidence that the Leishmania genome is continuously being rearranged at the level of these repeated sequences, which serve as a functional platform for constitutive and stochastic amplification (and deletion) of genomic segments in the population. This process is adaptive as the copy number of advantageous extrachromosomal circular or linear elements increases upon selective pressure and is reversible when selection is removed. We also provide mechanistic insights on the formation of circular and linear amplicons through RAD51 recombinase-dependent and -independent mechanisms, respectively. The whole genome of Leishmania is thus stochastically rearranged at the level of repeated sequences, and the selection of parasite subpopulations with changes in the copy number of specific loci is used as a strategy to respond to a changing environment. |
| format |
article |
| author |
Jean-Michel Ubeda Frédéric Raymond Angana Mukherjee Marie Plourde Hélène Gingras Gaétan Roy Andréanne Lapointe Philippe Leprohon Barbara Papadopoulou Jacques Corbeil Marc Ouellette |
| author_facet |
Jean-Michel Ubeda Frédéric Raymond Angana Mukherjee Marie Plourde Hélène Gingras Gaétan Roy Andréanne Lapointe Philippe Leprohon Barbara Papadopoulou Jacques Corbeil Marc Ouellette |
| author_sort |
Jean-Michel Ubeda |
| title |
Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| title_short |
Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| title_full |
Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| title_fullStr |
Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| title_full_unstemmed |
Genome-wide stochastic adaptive DNA amplification at direct and inverted DNA repeats in the parasite Leishmania. |
| title_sort |
genome-wide stochastic adaptive dna amplification at direct and inverted dna repeats in the parasite leishmania. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2014 |
| url |
https://doaj.org/article/a5042d92e19a405689df92d32d178972 |
| work_keys_str_mv |
AT jeanmichelubeda genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT fredericraymond genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT anganamukherjee genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT marieplourde genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT helenegingras genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT gaetanroy genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT andreannelapointe genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT philippeleprohon genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT barbarapapadopoulou genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT jacquescorbeil genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania AT marcouellette genomewidestochasticadaptivednaamplificationatdirectandinverteddnarepeatsintheparasiteleishmania |
| _version_ |
1718439521812480000 |