Ancestral polyploidy in seed plants and angiosperms

No abstract is available for this paper.

• Publication year

  2011

• Venue

  Nature

• Publication date

  2011-05-05

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1038/nature09916PMID 21478875
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• agriGO: a GO analysis toolkit for the agricultural community

  2010cited by this paper
• Complex regulation of the TIR1/AFB family of auxin receptors

  2009cited by this paper
• Paleopolyploidy in the Brassicales: Analyses of the Cleome Transcriptome Elucidate the History of Genome Duplications in Arabidopsis and Other Brassicales

  2009cited by this paper
• Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates.

  2009cited by this paper
• Angiosperm genome comparisons reveal early polyploidy in the monocot lineage

  2009cited by this paper
• PLAZA: A Comparative Genomics Resource to Study Gene and Genome Evolution in Plants[W]

  2009cited by this paper
• Phytochromes differentially regulate seed germination responses to light quality and temperature cues during seed maturation.

  2009cited by this paper
• Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition.

  2009cited by this paper
• Plants with double genomes might have had a better chance to survive the Cretaceous–Tertiary extinction event

  2009cited by this paper
• trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

  2009cited by this paper
• Gene loss and silencing in Tragopogon miscellus (Asteraceae): comparison of natural and synthetic allotetraploids

  2009cited by this paper
• Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes

  2009cited by this paper
• The flowering world: a tale of duplications.

  2009cited by this paper
• Synteny and Collinearity in Plant Genomes

  2008cited by this paper
• Phylogenetic analysis of the plant-specific zinc finger-homeobox and mini zinc finger gene families.

  2008cited by this paper
• Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps.

  2008cited by this paper
• Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids1[W]

  2008cited by this paper
• The Physcomitrella Genome Reveals Evolutionary Insights into the Conquest of Land by Plants

  2008cited by this paper
• Origin and Early Evolution of Angiosperms

  2008cited by this paper
• Pollen and spores: Pattern of diversification. Edited by S. Blackmore and S. H. Barnes

  2008cited by this paper
• The Origins of Genome Architecture

  2007cited by this paper
• Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms

  2007cited by this paper
• The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

  2007cited by this paper
• The gain and loss of genes during 600 million years of vertebrate evolution

  2006cited by this paper
• Widespread genome duplications throughout the history of flowering plants.

  2006cited by this paper
• RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

  2006cited by this paper
• The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

  2006cited by this paper
• PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments

  2006cited by this paper
• Evolution of the class III HD‐Zip gene family in land plants

  2006cited by this paper
• Genome duplication and the origin of angiosperms.

  2005cited by this paper
• RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees

  2005cited by this paper
• THE AGE OF THE ANGIOSPERMS: A MOLECULAR TIMESCALE WITHOUT A CLOCK

  2005cited by this paper
• Widespread Paleopolyploidy in Model Plant Species Inferred from Age Distributions of Duplicate Genes

  2004cited by this paper
• MUSCLE: multiple sequence alignment with high accuracy and high throughput.

  2004cited by this paper
• Ferns diversified in the shadow of angiosperms

  2004cited by this paper
• OrthoMCL: identification of ortholog groups for eukaryotic genomes.

  2003cited by this paper
• Adaptive evolution in the photosensory domain of phytochrome A in early angiosperms.

  2003cited by this paper
• Multiple Sequence Alignment Using ClustalW and ClustalX

  2003cited by this paper
• R8s: Inferring Absolute Rates of Molecular Evolution, Divergence times in the Absence of a Molecular Clock

  2003cited by this paper
• Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events

  2003cited by this paper
• Detecting the undetectable: uncovering duplicated segments in Arabidopsis by comparison with rice.

  2002cited by this paper
• InterProScan - an integration platform for the signature-recognition methods in InterPro

  2001cited by this paper
• Gene Ontology: tool for the unification of biology

  2000cited by this paper
• The origins of genomic duplications in Arabidopsis.

  2000cited by this paper
• Implications of fossil conifers for the phylogenetic relationships of living families

  1999cited by this paper
• The EMMIX Algorithm for the Fitting of Normal and t-Components

  1999cited by this paper
• Phytochrome E Influences Internode Elongation and Flowering Time in Arabidopsis

  1998cited by this paper
• PAML: a program package for phylogenetic analysis by maximum likelihood

  1997cited by this paper
• The origin and early evolution of plants on land

  1997cited by this paper
• A codon-based model of nucleotide substitution for protein-coding DNA sequences.

  1994cited by this paper
• A Framework for the Quantitative Study of Evolutionary Trees

  1989cited by this paper
• Cases in which Parsimony or Compatibility Methods will be Positively Misleading

  1978cited by this paper
• Evolution by Gene Duplication

  1970cited by this paper
• Evolution of the Gene

  1948cited by this paper
• Supplementary Results

  year unknowncited by this paper
• Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events

  year unknowncited by this paper

• Comprehensive Analysis of Clade A PP2C Family in Poplar Unveils PtrPP2C-9 as a Negative Regulator of Osmotic Stress Tolerance through ABF3/GBF3 Network.

  2026cites this paper
• Evolutionary genomics of local adaptation, climate vulnerability, and linarin metabolism in Opisthopappus longilobus

  2026cites this paper
• Remodeling of homoeolog expression bias buffers stress response in allotetraploid cotton.

  2026cites this paper
• Persistence of an unusual triple sex chromosome system through allopolyploidization in African clawed frogs (Xenopus, subgenus Silurana).

  2026cites this paper
• Phylogenetic framework and evolution of Malvaceae s.l.

  2026cites this paper
• Stress-Associated Proteins (SAPs): Molecular Hubs Connecting Plant Stress, Development, and Metabolism.

  2026cites this paper
• Flow cytometry protocols, relative genome size and ploidy levels for 1104 species of non-apomictic angiosperms from the Eastern Alps – a community resource based on the screening of 45,000 samples

  2026cites this paper
• The role of plant polyploidy in the structure of plant-pollinator communities.

  2026cites this paper
• Polyploidy-induced epigenetic priming underlies enhanced salinity tolerance in soybean.

  2026cites this paper
• Revisiting ancient whole-genome duplications in the seed and flowering plants through the lens of dosage-sensitive genes

  2026cites this paper
• Induction of octoploid genotypes and cold tolerance assessment in Neolamarckia cadamba

  2026cites this paper
• Digitaria genome analyses indicate introgression may drive local adaptation and herbicide resistance.

  2026cites this paper
• Distinct p21 dynamics drive alternative routes to whole-genome duplication through a common CDK4/6-dependent polyploid G0 state

  2026cites this paper
• Mechanisms of differential responses to drought stress in polyploid of Malus toringo (Siebold) Siebold ex de Vriese

  2026cites this paper
• Biased retention and functional diversification of CESA superfamily genes in Medicago mediating development and abiotic stress responses

  2026influential citation
• Early evolutionary history of the seed.

  2026cites this paper
• Bioinformatic Analyses of the Ataxin-2 Family Since Algae Emphasize Its Small Isoforms, Large Chimerisms, and the Importance of Human Exon 1B as Target of Therapies to Prevent Neurodegeneration

  2026cites this paper
• Uncovering the genome evolutionary dynamics of the Mediterranean endemic palm Chamaerops humilis.

  2026cites this paper
• Discovery of additional ancient genome duplications in yeasts.

  2026cites this paper
• Insect polyploid adaptation for cell number and size varies in longstanding versus neo-polyploid lines of the wasp Nasonia vitripennis.

  2026cites this paper
• A robust 1K-core marker set for wild germplasm management and targeted pre-breeding of rice: development and applications

  2026cites this paper
• Autopolyploid establishment under gametophytic self-incompatibility: the impact of self-fertilization and pollen limitation

  2026cites this paper
• The function of OsRAD51A1 gene in meiotic stability and high seed-setting rate of tetraploid rice

  2026cites this paper
• Polyploid genome evolution across land plants: Progress and perspectives.

  2026cites this paper
• A de novo assembled chromosome-level genome of Ainsliaea gracilis Franch. (Pertyeae, Asteraceae) and its comparative phylogenomics within Asteraceae.

  2026cites this paper
• Comparative genomic analysis of the MAPKKK gene family reveals WGD-driven expansion and strong evolutionary constraints in Asteraceae

  2026cites this paper
• Polyploidization disrupts drought response and epigenetic patterns in the desert wild potato species Solanum kurtzianum.

  2026cites this paper
• Causes of delayed angiosperm diversification: The photosynthetic revolution, increased opportunity costs of anti‐herbivore defenses, selection for qualitative toxins, and acceleration of plant–herbivore coevolution

  2025cites this paper
• Synthetic allopolyploidy unveils hybridization-driven transcriptional reprogramming underlying thermal adaptation in Cucumis.

  2025cites this paper
• Atomic basis for functional evolution of plant lanosterol synthase

  2025influential citation
• Efficient creation and phenotypic differentiation mechanism of autotetraploid soybean

  2025cites this paper
• Comprehensive analysis of bamboo oligosaccharyltransferases reveals the potential role of PedDGL1-C-mediated PePRX2 glycosylation in shoot lignification

  2025cites this paper
• Incomplete lineage sorting, hybridization and polyploidization blurred phylogenetic relationships of gentians from the Qinghai-Tibetan Plateau.

  2025cites this paper
• How much can reticulate evolution entangle plant systematics? Revisiting subfamilial classification of the Malvatheca clade (Malvaceae) on the basis of phylogenomics

  2025cites this paper
• Chromosome-level genome assembly and population genomics analysis of Camellia rubituberculata provide insights into adaptation to karst habitats

  2025cites this paper
• Chromosome-scale genome assembly of Sauvagesia rhodoleuca (Ochnaceae) provides insights into its genome evolution and demographic history

  2025cites this paper
• Comparative analysis of plastid genomes from allopolyploid Tragopogon miscellus and its diploid parents

  2025cites this paper
• Evolution and Regulatory Diversification of Plastid F1FO-ATP Synthase.

  2025cites this paper
• Reticulate allopolyploidy and subsequent dysploidy drive evolution and diversification in the cotton family

  2025cites this paper
• Development of an efficient CRISPR-mediated genome editing platform in the diploid-polyploid model system Tragopogon (Asteraceae).

  2025cites this paper
• Resolving reticulate evolutionary histories of polyploid species of Azorella (Apiaceae) endemic to New Zealand.

  2025cites this paper
• Deconvolution of Single Homeologous Polymorphism (SHP) drives phylogenetic analysis of allopolyploids

  2025cites this paper
• Unraveling evolutionary pathways: allopolyploidization and introgression in polyploid Prunus (Rosaceae).

  2025cites this paper
• Genome-Wide Identification and Functional Analysis of the PEBP Gene Family in Begonia semperflorens ‘Super Olympia’ Reveal Its Potential Role in Regulating Flowering

  2025cites this paper
• Genome-Wide Identification, Evolutionary Expansion, and Expression Analyses of Aux/IAA Gene Family in Castanea mollissima During Seed Kernel Development

  2025cites this paper
• Evaluation of the Ecological Dynamics of the Seagrass Posidonia oceanica in a Turkish Mediterranean Site Considering the Plant Growth

  2025cites this paper
• Near-complete genome assembly of allotetraploid Erianthus rockii reveals unique chromosome evolution and lineage-divergence trajectories in the Saccharum complex

  2025cites this paper
• Comprehensive analysis of calcium-dependent protein kinase genes reveals the potential role of PeCDPK32 in lignin biosynthesis of Phyllostachys edulis

  2025cites this paper
• Bridging micro and macroevolution: insights from chromosomal dynamics in plants

  2025cites this paper
• The near-complete genome assembly of Ampelopsis grossedentata provides insights into its origin, evolution, and the regulation of flavonoid biosynthesis

  2025cites this paper
• Development of a homeolog-specific gene editing system in an evolutionary model for the study of polyploidy in nature

  2025cites this paper
• Heritable Knock-on Consequences of Transient Heterozygous Chromosomal Translocation on Phenotype, Transcriptome, and Metabolome in a Synthetic Hexaploid Wheat.

  2025cites this paper
• Genome imbalance modulates the expression of long non-coding RNAs in maize.

  2025cites this paper
• Discovery of additional ancient genome duplications in yeasts

  2025cites this paper
• Phylogenomic discordance is driven mainly by pervasive ancient hybridization and incomplete lineage sorting during the early divergence of major angiosperm lineages

  2025cites this paper
• The Association Between DNA Methylation and Three-Dimensional Genome During Whole Genome Doubling in Arabidopsis thaliana

  2025cites this paper
• Subgenomic divergence and functional innovation following whole-genome duplication in Maleae species of Rosaceae.

  2025cites this paper
• Evolution and diversification of Ca2+/H+ exchangers: insights into karst-plant adaption to high-calcium environment

  2025cites this paper
• Unveiling the functional fate of duplicated genes through expression profiling and structural analysis

  2025cites this paper
• Evolutionary trajectory of the NPF6.3(NRT1.1/CHL1)-centered nitrate signaling regulatory network in plant roots

  2025influential citation
• Transcript isoforms and alternative splicing in polyploid Brassica napus under heat and cold stress

  2025cites this paper
• Genome-Wide Identification, Phylogenetic Classification, and Expression Profiling of the HSF Gene Family in Rosa hybrida Under Heat and Drought Stress

  2025cites this paper
• LGRPv2: A high‐value platform for the advancement of Fabaceae genomics

  2025cites this paper
• Empowering plant epigenetics to breed resilience of crops: From nucleolar dominance to transgenerational epigenetic inheritance

  2025cites this paper
• The subordinate role of pseudogenization to recombinative deletion following polyploidization in angiosperms

  2025cites this paper
• Resolving taxonomic uncertainty and exploring evolutionary relationships in the Cymopterus terebinthinus (Apiaceae) species complex

  2025cites this paper
• Chromosome Ordinal Number-Related Genomic Stability Revealed Among Oryza and Other Poaceae Plants

  2025cites this paper
• Subgenome Dominance in Allotetraploid Actinidia valvata Regulates RNA m6A Modification for Waterlogging Tolerance

  2025cites this paper
• Exceptional and enigmatic southern African Oxalis – A review

  2025cites this paper
• Whole Genome Duplication in the Genomics Era: The Hidden Gems in Invertebrates?

  2025cites this paper
• Karyotype alterations, meiotic abnormalities, and reduced pollen viability in triploid cytotypes of Passiflora foetida (Passifloraceae) derived from endosperm cultures

  2025cites this paper
• Plant long noncoding RNAs: why do we not know more?

  2025cites this paper
• Ancient allopolyploidy and specific subgenomic evolution drove the radiation of poplars and willows

  2025cites this paper
• Tribe Paniceae Cereals with Different Ploidy Levels: Setaria italica, Panicum miliaceum, and Echinochloa esculenta

  2025cites this paper
• Rapid formation of stable autotetraploid rice from genome-doubled F1 hybrids of japonica–indica subspecies

  2025cites this paper
• Regulation of transcriptional homeostasis by DNA methylation upon genome duplication in pak choi

  2025cites this paper
• Whole-Genome Sequence of Potamopyrgus antipodarum—A Model System for the Maintenance of Sexual Reproduction—Reveals a Recent Whole-Genome Duplication

  2025influential citation
• The genomic insights of intertidal adaptation in Bryopsis corticulans.

  2025cites this paper
• Polyploidy in potatoes: challenges and possibilities for climate resilience.

  2025cites this paper
• Using reciprocally retained gene families to detect whole-genome multiplications in plants

  2025cites this paper
• Evolutionary history of magnoliid genomes and benzylisoquinoline alkaloid biosynthesis

  2025cites this paper
• A Comprehensive Analysis of the Multiple AP2/ERF Regulatory Network Unveils Putative Components of the Fatty Acid Pathway for Environmental Adaptation

  2025cites this paper
• The mechanism of tetraploidization in tree peony, and its implications for speciation and evolution of genus Paeonia L.

  2025cites this paper
• Natural autopolyploids: Understanding their formation and establishment.

  2025cites this paper
• How vacuolar sugar transporters evolve and control cellular sugar homeostasis, organ development and crop yield

  2025cites this paper
• Uncovering the reciprocal effects of plant polyploidy and the microbiome: implications for understanding of polyploid success

  2025cites this paper
• Evolutionary Dynamics of Plant TRM6/TRM61 Complexes

  2025cites this paper
• Biosystematic studies on the genus Polygonatum (Asparagaceae) VII. Plastome phylogeny and karyotype evolution

  2025cites this paper
• Genome-wide distribution, phylogenetic relationships, and structural insights of vacuolar iron transporters in Archaeplastida

  2025influential citation
• Haplotype-resolved genome assembly of Rosa laevigata reveals molecular mechanisms of secondary metabolite synthesis and adaptation evolution

  2025cites this paper
• Characterization of Polyploid Embryoid Lines Induced via Unfertilized Ovule Culture of Loquat (Eriobotrya japonica Lindl.)

  2025cites this paper
• Analysis of the Rehmannia chingii genome identifies RcCYP72H7 as an epoxidase in iridoid glycoside biosynthesis

  2025cites this paper
• Genetic variation for adaptive evolution in response to changed environments in plants.

  2025cites this paper
• Comprehensive analysis of ZmGAox gene family in maize (Zea mays L.) reveals novel structural features and evolutionary patterns under positive selection

  2025cites this paper
• Construction of five sets of synthetic allotetraploids of diploid Aegilops species, and phenotypic consequences of allopolyploidy and additional chromosomal variation

  2025cites this paper
• Genomic Patterns of Loss of Distyly and Polyploidization in Primroses

  2025cites this paper
• The Evolution of Plant Hormones: From Metabolic Byproducts to Regulatory Hubs

  2025cites this paper
• Two Melanthiaceae genomes with dramatic size difference provide insights into giant genome evolution and maintenance

  2025cites this paper
• S-RNase-based self-incompatibility in angiosperms: Degradation, condensation, and evolution

  2025cites this paper
• Comprehensive Genomic Dataset of Chinese Lizardtail Herb and Comparative Genomic Analysis Provide Insights Into Its Paleo‐Polyploidization Event

  2025cites this paper