Additional file 7: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Additional file 6: Figure S3. of Isolation and characterization of putative functional long terminal repeat retrotransposons in the Pyrus genome

Shuang Jiang (1443706)
Danying Cai (1806787)
Yongwang Sun (3434978)
Yuanwen Teng (1806790)

January 2016

Alignment of five rt sequences from each conserved clade of copia retrotransposons and three rt sequ...

File S1: Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons of phylogenetic ancestry of genes in high linkage to the HGT genes.

Guy Leonard (98295)

February 2019

Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons o...

Additional file 3: Figure S3. of Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.)

Flavia Mascagni (4377310)
Tommaso Giordani (4377307)
Marilena Ceccarelli (4377304)
Andrea Cavallini (4377301)
Lucia Natali (4377298)

August 2017

Sequence composition of LTR-Copia-RE-related clusters. The size of the rectangle is proportional to ...

Additional file 2: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Tifenn Donnart (385234)
Mathieu PiednoĂŤl (4049131)
Dominique Higuet (385236)
Ăric Bonnivard (4049134)

May 2017

Phylogenetic relationships among fungal Copia families. Neighbor-Joining analysis of RT amino acid s...

Additional file 8: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Tifenn Donnart (385234)
Mathieu PiednoĂŤl (4049131)
Dominique Higuet (385236)
Ăric Bonnivard (4049134)

May 2017

Comparison of methods used to estimate the proportion of GalEa elements among fungal Copia retrotran...

Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Donnart, Tifenn
Piednoël, Mathieu
Higuet, Dominique
Bonnivard, Éric

January 2017

International audienceBackground: The relative scarcity of Copia retrotransposons has been recently ...

Additional file 8: of Genome-wide analysis of LTR-retrotransposons in oil palm

Thierry BeulĂŠ (3483767)
MawussĂŠ Agbessi (3483761)
Stephane Dussert (2332948)
Estelle Jaligot (537974)
Romain Guyot (166092)

October 2015

Relationship between the density (sequences per Mb) across chromosomes of predicted coding sequences...

Additional file 5: of Mobilization of retrotransposons as a cause of chromosomal diversification and rapid speciation: the case for the Antarctic teleost genus Trematomus

J. Auvinet (5186159)
P. Graça (5186168)
L. Belkadi (5186153)
L. Petit (5186171)
E. Bonnivard (5186162)
A. Dettaï (5186165)
W. Detrich (5186156)
C. Ozouf-Costaz (5186150)
D. Higuet (5186174)

May 2018

NJ bootstrap consensus tree for Copia based on the RT/RH amino acid sequences. Complement of Fig. 3....

Additional file 1: Table S1. of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Diversity and distribution of aRNH-containing repetitive elements identified in the Repbase Update v...

Additional file 7: of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Multiple amino acid sequence alignment of RT domains from diverse non-LTR-RTs constructed and used f...

Additional file 7: of Genome-wide analysis of LTR-retrotransposons in oil palm

Thierry Beulé (537978)
Mawussé Agbessi (3483800)
Stephane Dussert (2332948)
Estelle Jaligot (537974)
Romain Guyot (166092)

October 2015

Protein coding domain composition of full-length LTR retrotransposons of oil palm E. guineensis . A:...

Additional file 7: of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

Nicolás Bellora (45255)
Martín Moliné (3488867)
Márcia David-Palma (3165348)
Marco Coelho (3488864)
Chris Hittinger (821003)
José Sampaio (3488870)
Paula Gonçalves (129720)
Diego Libkind (3158151)

November 2016

Protein multiple sequence alignment used for cladogram construction (related to Fig. 3). (NEX 1505 k...

Additional file 6: of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Multiple amino acid sequence alignment of RT domains from diverse LTR-RTs constructed and used for t...

Additional file 5: of IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association

Esteban Peguero-Sanchez (3423428)
Liliana Pardo-Lopez (3423425)
Enrique Merino (10073)

December 2015

List of non-redundant organisms in the analysis. Non-redundant genomes were selected based on their ...

Additional file 6: of IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association

Esteban Peguero-Sanchez (3423428)
Liliana Pardo-Lopez (3423425)
Enrique Merino (10073)

December 2015

Phylogenetic tree. Phylogenetic tree used to select the non-redundant organisms. Bootstrap supportin...

Additional file 6: Figure S3. of Isolation and characterization of putative functional long terminal repeat retrotransposons in the Pyrus genome

Shuang Jiang (1443706)
Danying Cai (1806787)
Yongwang Sun (3434978)
Yuanwen Teng (1806790)

January 2016

Alignment of five rt sequences from each conserved clade of copia retrotransposons and three rt sequ...

File S1: Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons of phylogenetic ancestry of genes in high linkage to the HGT genes.

Guy Leonard (98295)

February 2019

Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons o...

Additional file 3: Figure S3. of Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.)

Flavia Mascagni (4377310)
Tommaso Giordani (4377307)
Marilena Ceccarelli (4377304)
Andrea Cavallini (4377301)
Lucia Natali (4377298)

August 2017

Sequence composition of LTR-Copia-RE-related clusters. The size of the rectangle is proportional to ...

Additional file 2: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Tifenn Donnart (385234)
Mathieu PiednoĂŤl (4049131)
Dominique Higuet (385236)
Ăric Bonnivard (4049134)

May 2017

Phylogenetic relationships among fungal Copia families. Neighbor-Joining analysis of RT amino acid s...

Additional file 8: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Tifenn Donnart (385234)
Mathieu PiednoĂŤl (4049131)
Dominique Higuet (385236)
Ăric Bonnivard (4049134)

May 2017

Comparison of methods used to estimate the proportion of GalEa elements among fungal Copia retrotran...

Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Donnart, Tifenn
Piednoël, Mathieu
Higuet, Dominique
Bonnivard, Éric

January 2017

International audienceBackground: The relative scarcity of Copia retrotransposons has been recently ...

Additional file 8: of Genome-wide analysis of LTR-retrotransposons in oil palm

Thierry BeulĂŠ (3483767)
MawussĂŠ Agbessi (3483761)
Stephane Dussert (2332948)
Estelle Jaligot (537974)
Romain Guyot (166092)

October 2015

Relationship between the density (sequences per Mb) across chromosomes of predicted coding sequences...

Additional file 5: of Mobilization of retrotransposons as a cause of chromosomal diversification and rapid speciation: the case for the Antarctic teleost genus Trematomus

J. Auvinet (5186159)
P. Graça (5186168)
L. Belkadi (5186153)
L. Petit (5186171)
E. Bonnivard (5186162)
A. Dettaï (5186165)
W. Detrich (5186156)
C. Ozouf-Costaz (5186150)
D. Higuet (5186174)

May 2018

NJ bootstrap consensus tree for Copia based on the RT/RH amino acid sequences. Complement of Fig. 3....

Additional file 1: Table S1. of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Diversity and distribution of aRNH-containing repetitive elements identified in the Repbase Update v...

Additional file 7: of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Multiple amino acid sequence alignment of RT domains from diverse non-LTR-RTs constructed and used f...

Additional file 7: of Genome-wide analysis of LTR-retrotransposons in oil palm

Thierry Beulé (537978)
Mawussé Agbessi (3483800)
Stephane Dussert (2332948)
Estelle Jaligot (537974)
Romain Guyot (166092)

October 2015

Protein coding domain composition of full-length LTR retrotransposons of oil palm E. guineensis . A:...

Additional file 7: of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

Nicolás Bellora (45255)
Martín Moliné (3488867)
Márcia David-Palma (3165348)
Marco Coelho (3488864)
Chris Hittinger (821003)
José Sampaio (3488870)
Paula Gonçalves (129720)
Diego Libkind (3158151)

November 2016

Protein multiple sequence alignment used for cladogram construction (related to Fig. 3). (NEX 1505 k...

Additional file 6: of Convergence of retrotransposons in oomycetes and plants

Kirill Ustyantsev (3601061)
Alexandr Blinov (3484781)
Georgy Smyshlyaev (3834412)

March 2017

Multiple amino acid sequence alignment of RT domains from diverse LTR-RTs constructed and used for t...

Additional file 5: of IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association

Esteban Peguero-Sanchez (3423428)
Liliana Pardo-Lopez (3423425)
Enrique Merino (10073)

December 2015

List of non-redundant organisms in the analysis. Non-redundant genomes were selected based on their ...

Additional file 6: of IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association

Esteban Peguero-Sanchez (3423428)
Liliana Pardo-Lopez (3423425)
Enrique Merino (10073)

December 2015

Phylogenetic tree. Phylogenetic tree used to select the non-redundant organisms. Bootstrap supportin...

Additional file 6: Figure S3. of Isolation and characterization of putative functional long terminal repeat retrotransposons in the Pyrus genome

Shuang Jiang (1443706)
Danying Cai (1806787)
Yongwang Sun (3434978)
Yuanwen Teng (1806790)

January 2016

Alignment of five rt sequences from each conserved clade of copia retrotransposons and three rt sequ...

File S1: Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons of phylogenetic ancestry of genes in high linkage to the HGT genes.

Guy Leonard (98295)

February 2019

Phylogenetic data supporting seven cases of ascomycete-basidiomycete HGT and including comparisons o...

Additional file 3: Figure S3. of Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.)

Flavia Mascagni (4377310)
Tommaso Giordani (4377307)
Marilena Ceccarelli (4377304)
Andrea Cavallini (4377301)
Lucia Natali (4377298)

August 2017

Sequence composition of LTR-Copia-RE-related clusters. The size of the rectangle is proportional to ...

Additional file 7: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Abstract

Extracted data

Additional file 7: of Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi

Abstract

Extracted data

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