Whole-genome SNP phylogeny (restricted dataset), related to Figure S3

snp_table_paradoxus

Rieseberg, Loren H.
Renaut, Sébastien
Rowe, Heather C.
King, Matthew G.

May 2013

List of SNPs for H.paradoxus. Column 1 refers to the reference sequence. Column 2 to the position we...

Whole genome phylogeny and heat map of gene content.

Dane Parker (76619)
Paul J. Planet (261004)
Grace Soong (525191)
Apurva Narechania (195780)
Alice Prince (392111)

February 2014

The phylogenetic tree was constructed using whole genome alignment of gene coding regions for the...

Additional file 6 Figure S4

Carlos I Arbizu (3282000)
Shelby L Ellison (3281997)
Douglas Senalik (3282006)
Philipp W Simon (3282003)
David M Spooner (3281994)

October 2016

Additional file 6: Figure S4. Bayesian phylogenetic tree of 144 accessions of Daucus carota complex ...

Whole-genome SNP phylogeny (restricted dataset), related to Figure S3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

RAxML phylogenetic tree in newick format, obtained from the whole-genome SNP alignment of the restri...

Whole-genome SNP phylogeny (restricted dataset), related to Figure 3

Almeida, Pedro
Barbosa, Raquel
Zalar, Polona
Imanishi, Yumi
Shimizu, Kiminori
Turchetti, Benedetta
Legras, Jean-Luc
Serra, Marta
Dequin, Sylvie
Couloux, Arnaud
Guy, Julie
Bensasson, Douda
Gonçalves, Paula
Sampaio, José Paulo

August 2015

RAxML phylogenetic tree obtained from the whole-genome SNP alignment of the restricted dataset and w...

S. cerevisiae (restricted dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure 3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the restrict...

S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large da...

Core genome SNPs-based phylogenetic tree.

Hamed Heydari (407962)
Wei Yee Wee (407963)
Naline Lokanathan (407964)
Ranjeev Hari (407965)
Aini Mohamed Yusoff (407966)
Ching Yew Beh (407967)
Amir Hessam Yazdi (407968)
Guat Jah Wong (407969)
Yun Fong Ngeow (62803)
Siew Woh Choo (229018)

April 2013

All isolates were clustered into three distinct groups. Countries where the sample collection ori...

Figure 1. Maximum likelihood phylogenetic tree of ST239

Wang, Zheng
Zhou, Haokui
Wang, Hui
Chen, Hongbin
Leung, K. K.
Tsui, Stephen
Ip, Margaret

July 2014

The phylogeny was based on the SNPs of the core genomes. The tree was rooted by using MRSA FPR3757 U...

Phylogeny tree diagram for SNP data.

Redemptah Yeda (584086)
Luicer A. Ingasia (844731)
Agnes C. Cheruiyot (844732)
Charles Okudo (584084)
Lorna J. Chebon (844733)
Jelagat Cheruiyot (844734)
Hoseah M. Akala (584080)
Edwin Kamau (282162)

January 2016

Phylogeny tree constructed using SNP haplotypes of samples in H63 parasite-line. The SNP haplotyp...

SNP based phylogenetic tree.

Moses M. Muraya (766680)
Thomas Schmutzer (766681)
Chris Ulpinnis (766682)
Uwe Scholz (148683)
Thomas Altmann (8259)

July 2015

Phylogenetic tree depicting the SNP distance between 21 maize inbred lines, emphasizing the diver...

#8. Phylogenetic_tree_in Figure_S2_Andujar_et_al. 2015

Carmelo Andújar (3269007)
Paula Arribas (725956)
Filip Ruzicka (3044997)
Alexandra Crampton Platt (3299763)
Martijn J. T. N. Timmermans (565315)
Alfried P. Vogler (69119)

November 2016

Phylogenetic tree in figure S3 in Andujar et al. 2015 Mol. Ecol.: Maximum likelihood phylogenetic tr...

Whole genome SNP based phylogenetic analysis.

Shlomo E. Blum (723347)
Elimelech D. Heller (790770)
Shlomo Sela (790771)
Daniel Elad (790772)
Nir Edery (790773)
Gabriel Leitner (380059)

September 2015

Phylogenetic analysis of SNP extracted from whole genome alignment of the three MPEC strains (VL2...

Whole genome SNP-based phylogenetic comparisons of ST1 and ST1-like isolates in the current dataset.

Jeffrey W. Mercante (3185916)
Jason A. Caravas (4051123)
Maliha K. Ishaq (5870966)
Natalia A. Kozak-Muiznieks (5870969)
Brian H. Raphael (3185922)
Jonas M. Winchell (425093)

October 2018

A) Unrooted tree of 28 different L. pneumophila sequence types, including the ST1 clade (collapsed r...

RaxML phylogeny based on the SNPs obtained after the alignment of the core genome.

Valérie Vogel (158255)
Laurent Falquet (158258)
Sandra P. Calderon-Copete (158259)
Patrick Basset (158260)
Dominique S. Blanc (158261)

June 2012

A. In this analysis, the strain N315 was included and used as outgroup. B. Same analysis as in A ...

snp_table_paradoxus

Rieseberg, Loren H.
Renaut, Sébastien
Rowe, Heather C.
King, Matthew G.

May 2013

List of SNPs for H.paradoxus. Column 1 refers to the reference sequence. Column 2 to the position we...

Whole genome phylogeny and heat map of gene content.

Dane Parker (76619)
Paul J. Planet (261004)
Grace Soong (525191)
Apurva Narechania (195780)
Alice Prince (392111)

February 2014

The phylogenetic tree was constructed using whole genome alignment of gene coding regions for the...

Additional file 6 Figure S4

Carlos I Arbizu (3282000)
Shelby L Ellison (3281997)
Douglas Senalik (3282006)
Philipp W Simon (3282003)
David M Spooner (3281994)

October 2016

Additional file 6: Figure S4. Bayesian phylogenetic tree of 144 accessions of Daucus carota complex ...

Whole-genome SNP phylogeny (restricted dataset), related to Figure S3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

RAxML phylogenetic tree in newick format, obtained from the whole-genome SNP alignment of the restri...

Whole-genome SNP phylogeny (restricted dataset), related to Figure 3

Almeida, Pedro
Barbosa, Raquel
Zalar, Polona
Imanishi, Yumi
Shimizu, Kiminori
Turchetti, Benedetta
Legras, Jean-Luc
Serra, Marta
Dequin, Sylvie
Couloux, Arnaud
Guy, Julie
Bensasson, Douda
Gonçalves, Paula
Sampaio, José Paulo

August 2015

RAxML phylogenetic tree obtained from the whole-genome SNP alignment of the restricted dataset and w...

S. cerevisiae (restricted dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure 3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the restrict...

S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

Pedro Almeida (743373)
Raquel Barbosa (3322266)
Polona Zalar (536680)
Yumi Imanishi (2481925)
Kiminori Shimizu (276946)
Benedetta Turchetti (3322263)
Jean-Luc Legras (202388)
Marta Serra (3322269)
Sylvie Dequin (205208)
Arnaud Couloux (6018)
Julie Guy (478463)
Douda Bensasson (68342)
Paula Gonçalves (129720)
José Paulo Sampaio (218799)

November 2016

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large da...

Core genome SNPs-based phylogenetic tree.

Hamed Heydari (407962)
Wei Yee Wee (407963)
Naline Lokanathan (407964)
Ranjeev Hari (407965)
Aini Mohamed Yusoff (407966)
Ching Yew Beh (407967)
Amir Hessam Yazdi (407968)
Guat Jah Wong (407969)
Yun Fong Ngeow (62803)
Siew Woh Choo (229018)

April 2013

All isolates were clustered into three distinct groups. Countries where the sample collection ori...

Figure 1. Maximum likelihood phylogenetic tree of ST239

Wang, Zheng
Zhou, Haokui
Wang, Hui
Chen, Hongbin
Leung, K. K.
Tsui, Stephen
Ip, Margaret

July 2014

The phylogeny was based on the SNPs of the core genomes. The tree was rooted by using MRSA FPR3757 U...

Phylogeny tree diagram for SNP data.

Redemptah Yeda (584086)
Luicer A. Ingasia (844731)
Agnes C. Cheruiyot (844732)
Charles Okudo (584084)
Lorna J. Chebon (844733)
Jelagat Cheruiyot (844734)
Hoseah M. Akala (584080)
Edwin Kamau (282162)

January 2016

Phylogeny tree constructed using SNP haplotypes of samples in H63 parasite-line. The SNP haplotyp...

SNP based phylogenetic tree.

Moses M. Muraya (766680)
Thomas Schmutzer (766681)
Chris Ulpinnis (766682)
Uwe Scholz (148683)
Thomas Altmann (8259)

July 2015

Phylogenetic tree depicting the SNP distance between 21 maize inbred lines, emphasizing the diver...

#8. Phylogenetic_tree_in Figure_S2_Andujar_et_al. 2015

Carmelo Andújar (3269007)
Paula Arribas (725956)
Filip Ruzicka (3044997)
Alexandra Crampton Platt (3299763)
Martijn J. T. N. Timmermans (565315)
Alfried P. Vogler (69119)

November 2016

Phylogenetic tree in figure S3 in Andujar et al. 2015 Mol. Ecol.: Maximum likelihood phylogenetic tr...

Whole genome SNP based phylogenetic analysis.

Shlomo E. Blum (723347)
Elimelech D. Heller (790770)
Shlomo Sela (790771)
Daniel Elad (790772)
Nir Edery (790773)
Gabriel Leitner (380059)

September 2015

Phylogenetic analysis of SNP extracted from whole genome alignment of the three MPEC strains (VL2...

Whole genome SNP-based phylogenetic comparisons of ST1 and ST1-like isolates in the current dataset.

Jeffrey W. Mercante (3185916)
Jason A. Caravas (4051123)
Maliha K. Ishaq (5870966)
Natalia A. Kozak-Muiznieks (5870969)
Brian H. Raphael (3185922)
Jonas M. Winchell (425093)

October 2018

A) Unrooted tree of 28 different L. pneumophila sequence types, including the ST1 clade (collapsed r...

RaxML phylogeny based on the SNPs obtained after the alignment of the core genome.

Valérie Vogel (158255)
Laurent Falquet (158258)
Sandra P. Calderon-Copete (158259)
Patrick Basset (158260)
Dominique S. Blanc (158261)

June 2012

A. In this analysis, the strain N315 was included and used as outgroup. B. Same analysis as in A ...

snp_table_paradoxus

Rieseberg, Loren H.
Renaut, Sébastien
Rowe, Heather C.
King, Matthew G.

May 2013

List of SNPs for H.paradoxus. Column 1 refers to the reference sequence. Column 2 to the position we...

Whole genome phylogeny and heat map of gene content.

Dane Parker (76619)
Paul J. Planet (261004)
Grace Soong (525191)
Apurva Narechania (195780)
Alice Prince (392111)

February 2014

The phylogenetic tree was constructed using whole genome alignment of gene coding regions for the...

Additional file 6 Figure S4

Carlos I Arbizu (3282000)
Shelby L Ellison (3281997)
Douglas Senalik (3282006)
Philipp W Simon (3282003)
David M Spooner (3281994)

October 2016

Additional file 6: Figure S4. Bayesian phylogenetic tree of 144 accessions of Daucus carota complex ...

Whole-genome SNP phylogeny (restricted dataset), related to Figure S3

Abstract

Extracted data

Whole-genome SNP phylogeny (restricted dataset), related to Figure S3

Abstract

Extracted data

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