Contrasting patterns of evolution following whole genome versus tandem duplication events in Populus (Q39996455)

16 September 2017

Contrasting patterns of evolution following whole genome versus tandem duplication events in Populus (English)

1 reference

16 September 2017

whole genome sequencing

1 reference

Eli Rodgers-Melnick

1

1 reference

16 September 2017

Shrinivasrao P Mane

2

1 reference

16 September 2017

Palitha Dharmawardhana

3

1 reference

16 September 2017

Gancho T Slavov

4

1 reference

16 September 2017

Oswald R Crasta

5

1 reference

16 September 2017

Steven H Strauss

6

1 reference

16 September 2017

Amy M Brunner

7

1 reference

16 September 2017

Stephen P Difazio

8

1 reference

16 September 2017

5 October 2011

1 reference

16 September 2017

1 reference

16 September 2017

22

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16 September 2017

1

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16 September 2017

95-105

1 reference

describes a project that uses

16 September 2017

SQL

1 reference

26 June 2022

https://europepmc.org/article/PMC/PMC3246211

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Ancestral polyploidy in seed plants and angiosperms

1 reference

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The evolution of a high copy gene array in Arabidopsis

22 September 2017

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Transposed genes in Arabidopsis are often associated with flanking repeats

22 September 2017

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Insights from the comparison of plant genome sequences

22 September 2017

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Functional bias in molecular evolution rate of Arabidopsis thaliana

22 September 2017

1 reference

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Diversification in the genetic architecture of gene expression and transcriptional networks in organ differentiation of Populus.

22 September 2017

1 reference

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Genome-wide transcriptome analysis of the transition from primary to secondary stem development in Populus trichocarpa

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

High-density linkage mapping and evolution of paralogs and orthologs in Salix and Populus

22 September 2017

1 reference

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Genome sequence of the palaeopolyploid soybean

22 September 2017

1 reference

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The B73 Maize Genome: Complexity, Diversity, and Dynamics

22 September 2017

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The gene balance hypothesis: implications for gene regulation, quantitative traits and evolution

22 September 2017

1 reference

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Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

On the road to diploidization? Homoeolog loss in independently formed populations of the allopolyploid Tragopogon miscellus (Asteraceae)

22 September 2017

1 reference

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Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus).

22 September 2017

1 reference

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Plant receptor-like serine threonine kinases: roles in signaling and plant defense

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Genome-wide identification of NBS resistance genes in Populus trichocarpa

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Genomic changes in resynthesized Brassica napus and their effect on gene expression and phenotype

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Consequences of genome duplication

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The limits of subfunctionalization

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Accelerated gene evolution and subfunctionalization in the pseudotetraploid frog Xenopus laevis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

PAML 4: phylogenetic analysis by maximum likelihood

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The gene balance hypothesis: from classical genetics to modern genomics

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Current topics in genome evolution: molecular mechanisms of new gene formation

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

NMPP: a user-customized NimbleGen microarray data processing pipeline

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Mechanisms of genomic rearrangements and gene expression changes in plant polyploids

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Buffering of crucial functions by paleologous duplicated genes may contribute cyclicality to angiosperm genome duplication

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

InterProScan: protein domains identifier

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

EST data suggest that poplar is an ancient polyploid

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Computational identification of 69 retroposons in Arabidopsis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Modeling gene and genome duplications in eukaryotes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Dosage balance in gene regulation: biological implications

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Evolving disease resistance genes.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Characterization of an S-locus receptor protein kinase-like gene from peach.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance gene

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Preferential duplication of conserved proteins in eukaryotic genomes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Fitness costs of R-gene-mediated resistance in Arabidopsis thaliana.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Subfunctionalization of duplicate mitf genes associated with differential degeneration of alternative exons in fish

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The probability of preservation of a newly arisen gene duplicate

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The leucine-rich repeat as a protein recognition motif

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The evolutionary fate and consequences of duplicate genes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

The probability of duplicate gene preservation by subfunctionalization

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Rare germinal unequal crossing-over leading to recombinant gene formation and gene duplication in Arabidopsis thaliana

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Preservation of duplicate genes by complementary, degenerative mutations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Numbers of genes in the NBS and RLK families vary by more than four-fold within a plant species and are regulated by multiple factors

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Protein coevolution and isoexpression in yeast macromolecular complexes

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Recent insights into R gene evolution

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Polyploidy-associated genomic instability in Arabidopsis thaliana.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Evolutionary history and stress regulation of plant receptor-like kinase/pelle genes.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Comparative analysis of the transcriptomes of Populus trichocarpa and Arabidopsis thaliana suggests extensive evolution of gene expression regulation in angiosperms

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

All duplicates are not equal: the difference between small-scale and genome duplication

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Patterns of gene duplication in the plant SKP1 gene family in angiosperms: evidence for multiple mechanisms of rapid gene birth

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

A B-lectin receptor kinase gene conferring rice blast resistance

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Do disparate mechanisms of duplication add similar genes to the genome?

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Comparative analysis of the receptor-like kinase family in Arabidopsis and rice

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Highly expressed genes in yeast evolve slowly.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Synteny and Collinearity in Plant Genomes

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

Genome-wide transcription analyses in rice using tiling microarrays

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3246211

2 December 2018

Identifiers

DOI

10.1101/GR.125146.111

1 reference

16 September 2017

1 reference

16 September 2017

PubMed publication ID

21974993

1 reference