Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces (Q46962713)

26 December 2017

title

Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces (English)

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26 December 2017

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12

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26 December 2017

Frédéric Choulet

Frédéric Choulet

1

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Michael Pumphrey

Michael Pumphrey

14

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Arnaud Couloux

Arnaud Couloux

11

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Bikram S Gill

21

Bikram S Gill

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26 December 2017

2

Thomas Wicker

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26 December 2017

James Breen

13

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Catherine Feuillet

24

Catherine Feuillet

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26 December 2017

23

Beat Keller

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26 December 2017

Rudi Appels

22

Rudi Appels

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26 December 2017

Philippe Leroy

6

Philippe Leroy

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26 December 2017

Jizeng Jia

17

Jizeng Jia

1 reference

26 December 2017

Xiuying Kong

16

Xiuying Kong

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26 December 2017

Camille Rustenholz

3

Camille Rustenholz

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26 December 2017

Marie-Christine Le Paslier

8

Marie-Christine Le Paslier

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26 December 2017

author name string

Etienne Paux

4

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26 December 2017

Jérome Salse

5

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26 December 2017

Stéphane Schlub

7

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26 December 2017

Ghislaine Magdelenat

9

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26 December 2017

Catherine Gonthier

10

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26 December 2017

Sixin Liu

15

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26 December 2017

Marta Gut

18

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26 December 2017

Dominique Brunel

19

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26 December 2017

James A Anderson

20

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26 December 2017

publication date

25 June 2010

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26 December 2017

published in

The Plant Cell

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26 December 2017

volume

22

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26 December 2017

issue

6

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26 December 2017

page(s)

1686-1701

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26 December 2017

Insertion site-based polymorphism markers open new perspectives for genome saturation and marker-assisted selection in wheat

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29 September 2018

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Nonadditive expression of homoeologous genes is established upon polyploidization in hexaploid wheat

29 September 2018

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Low-pass shotgun sequencing of the barley genome facilitates rapid identification of genes, conserved non-coding sequences and novel repeats

29 September 2018

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29 September 2018

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A physical map of the 1-gigabase bread wheat chromosome 3B.

29 September 2018

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Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat

29 September 2018

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29 September 2018

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Transcriptional and metabolic adjustments in ADP-glucose pyrophosphorylase-deficient bt2 maize kernels

29 September 2018

1 reference

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Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution

29 September 2018

1 reference

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A unified classification system for eukaryotic transposable elements

29 September 2018

1 reference

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29 September 2018

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The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

29 September 2018

1 reference

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A GeneTrek analysis of the maize genome

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Genome-wide comparative analysis of copia retrotransposons in Triticeae, rice, and Arabidopsis reveals conserved ancient evolutionary lineages and distinct dynamics of individual copia families

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Mechanisms and rates of birth and death of dispersed duplicated genes during the evolution of a multigene family in diploid and tetraploid wheats

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B.

29 September 2018

1 reference

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Molecular characterization of a diagnostic DNA marker for domesticated tetraploid wheat provides evidence for gene flow from wild tetraploid wheat to hexaploid wheat

29 September 2018

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Gene evolution at the ends of wheat chromosomes

29 September 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Molecular characterization of Ph1 as a major chromosome pairing locus in polyploid wheat

29 September 2018

1 reference

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Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice

29 September 2018

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Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat

29 September 2018

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Structure and architecture of the maize genome.

29 September 2018

1 reference

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Structural dynamics of cereal mitochondrial genomes as revealed by complete nucleotide sequencing of the wheat mitochondrial genome

29 September 2018

1 reference

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29 September 2018

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The map-based sequence of the rice genome

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Updating of transposable element annotations from large wheat genomic sequences reveals diverse activities and gene associations.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

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29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Identification of genes preferentially expressed during wood formation in Eucalyptus

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Sequence composition, organization, and evolution of the core Triticeae genome

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Pack-MULE transposable elements mediate gene evolution in plants

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Sequence composition and genome organization of maize.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Dissecting large and complex genomes: flow sorting and BAC cloning of individual chromosomes from bread wheat

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Rapid recent growth and divergence of rice nuclear genomes

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Demarcating the gene-rich regions of the wheat genome

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Comparative DNA sequence analysis of wheat and rice genomes

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

A large rearrangement involving genes and low-copy DNA interrupts the microcollinearity between rice and barley at the Rph7 locus

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

The organization and rate of evolution of wheat genomes are correlated with recombination rates along chromosome arms

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Genes encoding plastid acetyl-CoA carboxylase and 3-phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. indica)

29 September 2018

1 reference

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The colinearity of the Sh2/A1 orthologous region in rice, sorghum and maize is interrupted and accompanied by genome expansion in the triticeae

29 September 2018

1 reference

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29 September 2018

1 reference

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29 September 2018

1 reference

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The paleontology of intergene retrotransposons of maize.

29 September 2018

1 reference

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29 September 2018

1 reference

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Base-calling of automated sequencer traces using phred. II. Error probabilities

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Base-calling of automated sequencer traces using phred. I. Accuracy assessment

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

29 September 2018

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The distribution of genes in the genomes of Gramineae.

29 September 2018

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Sequence patterns indicate an enzymatic involvement in integration of mammalian retroposons

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

29 September 2018

1 reference

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LTR-retrotransposons and MITEs: important players in the evolution of plant genomes

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2910976

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29 September 2018

1 reference

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The gene distribution of the maize genome.

29 September 2018

1 reference

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Homoeologous gene silencing in hexaploid wheat

29 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20581307

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The origin of Triticum spelta and its free-threshing hexaploid relatives

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20581307

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

CACTA transposons in Triticeae. A diverse family of high-copy repetitive elements

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20581307

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1105/TPC.110.074187

1 reference

26 December 2017

0 references

1 reference

26 December 2017