Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms
Gene duplications are an important factor in plant evolution and lineage specific expanded (LSE) genes are of particular interest. Receptor-like kinases (RLK) expanded massively in land plants and Leucine-Rich Repeat (LRR)-RLKs constitute the largest RLK family. Based on the phylogeny of 7,554 LRR-RLK genes from 31 fully sequenced flowering plant genomes, the complex evolutionary dynamics of this family was characterized in depth. We studied the involvement of selection during the expansion of this family among angiosperms. LRR-RLK subgroups harbor extremely contrasted rates of duplication, retention or loss and LSE copies are predominantly found in subgroups involved in environmental interactions. Expansion rates also differ significantly depending on the time when rounds of expansion or loss occurred on the angiosperm phylogenetic tree. Finally, using a dN/dS-based test in a phylogenetic framework, we searched for selection footprints on LSE and single-copy LRR-RLK genes. Selective constraint appeared to be globally relaxed at LSE genes and codons under positive selection were detected in 50% of them. Moreover, the LRR domains - and specifically four amino acids in them - were found to be the main targets of positive selection. Here, we provide an extensive overview of the expansion and evolution of this very large gene family.
Main Authors: | , , , , |
---|---|
Format: | article biblioteca |
Language: | eng |
Subjects: | F30 - Génétique et amélioration des plantes, F60 - Physiologie et biochimie végétale, F70 - Taxonomie végétale et phytogéographie, phylogénie, évolution, gène, séquence nucléotidique, génome, http://aims.fao.org/aos/agrovoc/c_13325, http://aims.fao.org/aos/agrovoc/c_2745, http://aims.fao.org/aos/agrovoc/c_3214, http://aims.fao.org/aos/agrovoc/c_27583, http://aims.fao.org/aos/agrovoc/c_3224, |
Online Access: | http://agritrop.cirad.fr/579776/ http://agritrop.cirad.fr/579776/7/579716_v_e.pdf |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
id |
dig-cirad-fr-579776 |
---|---|
record_format |
koha |
spelling |
dig-cirad-fr-5797762024-01-29T05:34:43Z http://agritrop.cirad.fr/579776/ http://agritrop.cirad.fr/579776/ Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms. Fischer Iris, Diévart Anne, Droc Gaëtan, Dufayard Jean François, Chantret Nathalie. 2016. Plant Physiology, 170 (3) : 1595-1610.https://doi.org/10.1104/pp.15.01470 <https://doi.org/10.1104/pp.15.01470> Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms Fischer, Iris Diévart, Anne Droc, Gaëtan Dufayard, Jean François Chantret, Nathalie eng 2016 Plant Physiology F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 Gene duplications are an important factor in plant evolution and lineage specific expanded (LSE) genes are of particular interest. Receptor-like kinases (RLK) expanded massively in land plants and Leucine-Rich Repeat (LRR)-RLKs constitute the largest RLK family. Based on the phylogeny of 7,554 LRR-RLK genes from 31 fully sequenced flowering plant genomes, the complex evolutionary dynamics of this family was characterized in depth. We studied the involvement of selection during the expansion of this family among angiosperms. LRR-RLK subgroups harbor extremely contrasted rates of duplication, retention or loss and LSE copies are predominantly found in subgroups involved in environmental interactions. Expansion rates also differ significantly depending on the time when rounds of expansion or loss occurred on the angiosperm phylogenetic tree. Finally, using a dN/dS-based test in a phylogenetic framework, we searched for selection footprints on LSE and single-copy LRR-RLK genes. Selective constraint appeared to be globally relaxed at LSE genes and codons under positive selection were detected in 50% of them. Moreover, the LRR domains - and specifically four amino acids in them - were found to be the main targets of positive selection. Here, we provide an extensive overview of the expansion and evolution of this very large gene family. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/579776/7/579716_v_e.pdf text Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html https://doi.org/10.1104/pp.15.01470 10.1104/pp.15.01470 info:eu-repo/semantics/altIdentifier/doi/10.1104/pp.15.01470 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1104/pp.15.01470 |
institution |
CIRAD FR |
collection |
DSpace |
country |
Francia |
countrycode |
FR |
component |
Bibliográfico |
access |
En linea |
databasecode |
dig-cirad-fr |
tag |
biblioteca |
region |
Europa del Oeste |
libraryname |
Biblioteca del CIRAD Francia |
language |
eng |
topic |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 |
spellingShingle |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 Fischer, Iris Diévart, Anne Droc, Gaëtan Dufayard, Jean François Chantret, Nathalie Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
description |
Gene duplications are an important factor in plant evolution and lineage specific expanded (LSE) genes are of particular interest. Receptor-like kinases (RLK) expanded massively in land plants and Leucine-Rich Repeat (LRR)-RLKs constitute the largest RLK family. Based on the phylogeny of 7,554 LRR-RLK genes from 31 fully sequenced flowering plant genomes, the complex evolutionary dynamics of this family was characterized in depth. We studied the involvement of selection during the expansion of this family among angiosperms. LRR-RLK subgroups harbor extremely contrasted rates of duplication, retention or loss and LSE copies are predominantly found in subgroups involved in environmental interactions. Expansion rates also differ significantly depending on the time when rounds of expansion or loss occurred on the angiosperm phylogenetic tree. Finally, using a dN/dS-based test in a phylogenetic framework, we searched for selection footprints on LSE and single-copy LRR-RLK genes. Selective constraint appeared to be globally relaxed at LSE genes and codons under positive selection were detected in 50% of them. Moreover, the LRR domains - and specifically four amino acids in them - were found to be the main targets of positive selection. Here, we provide an extensive overview of the expansion and evolution of this very large gene family. |
format |
article |
topic_facet |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale F70 - Taxonomie végétale et phytogéographie phylogénie évolution gène séquence nucléotidique génome http://aims.fao.org/aos/agrovoc/c_13325 http://aims.fao.org/aos/agrovoc/c_2745 http://aims.fao.org/aos/agrovoc/c_3214 http://aims.fao.org/aos/agrovoc/c_27583 http://aims.fao.org/aos/agrovoc/c_3224 |
author |
Fischer, Iris Diévart, Anne Droc, Gaëtan Dufayard, Jean François Chantret, Nathalie |
author_facet |
Fischer, Iris Diévart, Anne Droc, Gaëtan Dufayard, Jean François Chantret, Nathalie |
author_sort |
Fischer, Iris |
title |
Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
title_short |
Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
title_full |
Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
title_fullStr |
Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
title_full_unstemmed |
Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms |
title_sort |
evolutionary dynamics of the leucine-rich repeats receptor-like kinase (lrr-rlk) subfamily in angiosperms |
url |
http://agritrop.cirad.fr/579776/ http://agritrop.cirad.fr/579776/7/579716_v_e.pdf |
work_keys_str_mv |
AT fischeriris evolutionarydynamicsoftheleucinerichrepeatsreceptorlikekinaselrrrlksubfamilyinangiosperms AT dievartanne evolutionarydynamicsoftheleucinerichrepeatsreceptorlikekinaselrrrlksubfamilyinangiosperms AT drocgaetan evolutionarydynamicsoftheleucinerichrepeatsreceptorlikekinaselrrrlksubfamilyinangiosperms AT dufayardjeanfrancois evolutionarydynamicsoftheleucinerichrepeatsreceptorlikekinaselrrrlksubfamilyinangiosperms AT chantretnathalie evolutionarydynamicsoftheleucinerichrepeatsreceptorlikekinaselrrrlksubfamilyinangiosperms |
_version_ |
1792499009135312896 |