Dissecting the genomic diversification of Late Embryogenesis Abundant (LEA) protein gene families in plants

M.A. Silva Artur, T. Zhao, W. Ligterink, Eric Schranz, H.W.M. Hilhorst*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Abstract

Late Embryogenesis Abundant (LEA) proteins include eight multi-gene families that are expressed in response to water loss during seed maturation and in vegetative tissues of desiccation tolerant species. To elucidate LEA proteins evolution and diversification, we performed a comprehensive synteny and phylogenetic analyses of the eight gene families across 60 complete plant genomes. Our integrated comparative genomic approach revealed that synteny conservation and diversification contributed to LEA family expansion and functional diversification in plants. We provide examples that: 1) the genomic diversification of the Dehydrin family contributed to differential evolution of amino acid sequences, protein biochemical properties, and gene expression patterns, and led to the appearance of a novel functional motif in angiosperms; 2) ancient genomic diversification contributed to the evolution of distinct intrinsically disordered regions of LEA_1 proteins; 3) recurrent tandem-duplications contributed to the large expansion of LEA_2; and, 4) dynamic synteny diversification played a role on the evolution of LEA_4 and its function on plant desiccation tolerance. Taken together, these results show that multiple evolutionary mechanisms have not only led to genomic diversification, but also to structural and functional plasticity among LEA proteins which have jointly contributed to the adaptation of plants to water-limiting environments.
Original languageEnglish
Pages (from-to)459-471
JournalGenome Biology
Volume11
Issue number2
DOIs
Publication statusPublished - 1 Feb 2019

Fingerprint

Embryonic Development
genomics
embryogenesis
protein
gene
Synteny
Proteins
genes
proteins
Desiccation
desiccation (plant physiology)
desiccation
Plant Genome
Angiosperms
seed maturation
plant adaptation
Water
family
multigene family
angiosperm

Cite this

@article{817d98d777d34641a951930ed8884ef8,
title = "Dissecting the genomic diversification of Late Embryogenesis Abundant (LEA) protein gene families in plants",
abstract = "Late Embryogenesis Abundant (LEA) proteins include eight multi-gene families that are expressed in response to water loss during seed maturation and in vegetative tissues of desiccation tolerant species. To elucidate LEA proteins evolution and diversification, we performed a comprehensive synteny and phylogenetic analyses of the eight gene families across 60 complete plant genomes. Our integrated comparative genomic approach revealed that synteny conservation and diversification contributed to LEA family expansion and functional diversification in plants. We provide examples that: 1) the genomic diversification of the Dehydrin family contributed to differential evolution of amino acid sequences, protein biochemical properties, and gene expression patterns, and led to the appearance of a novel functional motif in angiosperms; 2) ancient genomic diversification contributed to the evolution of distinct intrinsically disordered regions of LEA_1 proteins; 3) recurrent tandem-duplications contributed to the large expansion of LEA_2; and, 4) dynamic synteny diversification played a role on the evolution of LEA_4 and its function on plant desiccation tolerance. Taken together, these results show that multiple evolutionary mechanisms have not only led to genomic diversification, but also to structural and functional plasticity among LEA proteins which have jointly contributed to the adaptation of plants to water-limiting environments.",
author = "{Silva Artur}, M.A. and T. Zhao and W. Ligterink and Eric Schranz and H.W.M. Hilhorst",
year = "2019",
month = "2",
day = "1",
doi = "10.1093/gbe/evy248",
language = "English",
volume = "11",
pages = "459--471",
journal = "Genome Biology",
issn = "1474-7596",
publisher = "BioMed Central",
number = "2",

}

Dissecting the genomic diversification of Late Embryogenesis Abundant (LEA) protein gene families in plants. / Silva Artur, M.A.; Zhao, T.; Ligterink, W.; Schranz, Eric; Hilhorst, H.W.M.

In: Genome Biology, Vol. 11, No. 2, 01.02.2019, p. 459-471.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - Dissecting the genomic diversification of Late Embryogenesis Abundant (LEA) protein gene families in plants

AU - Silva Artur, M.A.

AU - Zhao, T.

AU - Ligterink, W.

AU - Schranz, Eric

AU - Hilhorst, H.W.M.

PY - 2019/2/1

Y1 - 2019/2/1

N2 - Late Embryogenesis Abundant (LEA) proteins include eight multi-gene families that are expressed in response to water loss during seed maturation and in vegetative tissues of desiccation tolerant species. To elucidate LEA proteins evolution and diversification, we performed a comprehensive synteny and phylogenetic analyses of the eight gene families across 60 complete plant genomes. Our integrated comparative genomic approach revealed that synteny conservation and diversification contributed to LEA family expansion and functional diversification in plants. We provide examples that: 1) the genomic diversification of the Dehydrin family contributed to differential evolution of amino acid sequences, protein biochemical properties, and gene expression patterns, and led to the appearance of a novel functional motif in angiosperms; 2) ancient genomic diversification contributed to the evolution of distinct intrinsically disordered regions of LEA_1 proteins; 3) recurrent tandem-duplications contributed to the large expansion of LEA_2; and, 4) dynamic synteny diversification played a role on the evolution of LEA_4 and its function on plant desiccation tolerance. Taken together, these results show that multiple evolutionary mechanisms have not only led to genomic diversification, but also to structural and functional plasticity among LEA proteins which have jointly contributed to the adaptation of plants to water-limiting environments.

AB - Late Embryogenesis Abundant (LEA) proteins include eight multi-gene families that are expressed in response to water loss during seed maturation and in vegetative tissues of desiccation tolerant species. To elucidate LEA proteins evolution and diversification, we performed a comprehensive synteny and phylogenetic analyses of the eight gene families across 60 complete plant genomes. Our integrated comparative genomic approach revealed that synteny conservation and diversification contributed to LEA family expansion and functional diversification in plants. We provide examples that: 1) the genomic diversification of the Dehydrin family contributed to differential evolution of amino acid sequences, protein biochemical properties, and gene expression patterns, and led to the appearance of a novel functional motif in angiosperms; 2) ancient genomic diversification contributed to the evolution of distinct intrinsically disordered regions of LEA_1 proteins; 3) recurrent tandem-duplications contributed to the large expansion of LEA_2; and, 4) dynamic synteny diversification played a role on the evolution of LEA_4 and its function on plant desiccation tolerance. Taken together, these results show that multiple evolutionary mechanisms have not only led to genomic diversification, but also to structural and functional plasticity among LEA proteins which have jointly contributed to the adaptation of plants to water-limiting environments.

U2 - 10.1093/gbe/evy248

DO - 10.1093/gbe/evy248

M3 - Article

VL - 11

SP - 459

EP - 471

JO - Genome Biology

JF - Genome Biology

SN - 1474-7596

IS - 2

ER -