Additional file 2: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

Publication date

November 2018

DOI

10.6084/m9.figshare.7378844.v1

Abstract

Figure S2. Extraction of the metagenomic DNA in triplicates experimental. (A) First biological sample - CCN51. (B) First biological sample - Catongo. (C) Second biological sample - CCN51 and (D) Second biological sample - Catongo. (DOCX 151 kb

Extracted data

We use cookies to provide a better user experience.

Data Protection

Additional file 2: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

Open link

Publication date

November 2018

DOI

10.6084/m9.figshare.7378844.v1

Abstract

Extracted data

Alexander Tyakht (2131003)
Alexander Manolov (4259773)
Alexandra Kanygina (3455015)
Dmitry Ischenko (2145547)
Boris Kovarsky (4519954)
Anna Popenko (2131006)
Alexander Pavlenko (4519966)
Anna Elizarova (5940068)
Daria Rakitina (104963)
Julia Baikova (4259746)
Valentina Ladygina (2131024)
Elena Kostryukova (3455012)
Irina Karpova (3606446)
Tatyana Semashko (6158534)
Andrei Larin (4259758)
Tatyana Grigoryeva (6158537)
Mariya Sinyagina (6158540)
Sergei Malanin (4259740)
Petr Shcherbakov (4519969)
Anastasiya Kharitonova (6158543)
Igor Khalif (4259752)
Marina Shapina (4259755)
Igor Maev (4259779)
Dmitriy Andreev (6158546)
Elena Belousova (116565)
Yulia Buzunova (6158549)
Dmitry Alexeev (1535380)
Vadim Govorun (2131033)

December 2018

Results of subspecies-level analysis of E. coli and other microbes in the metagenomes using ConStrai...

Additional file 1: of Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa

Cormac Fitzgerald (6088049)
Andrey Shkoporov (6088052)
Thomas Sutton (3860260)
Andrei Chaplin (6088055)
Vimalkumar Velayudhan (126780)
R. Ross (3461291)
Colin Hill (73239)

December 2018

Figure S1. Schematic representation of pairwise comparisons of locations of LCBs in genomes of F. pr...

Additional file 2: of Comprehensive analysis of draft genomes of two closely related pseudomonas syringae phylogroup 2b strains infecting mono- and dicotyledon host plants

Rinat Sultanov (3606350)
Georgij Arapidi (3606356)
Svetlana Vinogradova (3606353)
Vadim Govorun (2131033)
Duglas Luster (3606359)
Alexander Ignatov (1669930)

December 2016

List of Pseudomonas syringae strains selected for phylogenetic analysis (XLSX 57 kb

Additional file 5: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Table S2. Bacterial genera exclusive to the phylloplane of the genotypes CCN51 and Catongo. (DOCX 17...

Additional file 3: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Figure S3. Quantification of libraries. (A) Electrophoresis on 1% (w / v) agarose gel with the six s...

Additional file 4: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Table S1. Bacteria identified and classified according to phylum, class, order, family, and genus fo...

Additional file 2: Figure S1. of Whole genome sequencing for the molecular characterization of carbapenem-resistant Klebsiella pneumoniae strains isolated at the Italian ASST Fatebenefratelli Sacco Hospital, 2012–2014

Sara Rimoldi (4505101)
Bernardina Gentile (4505092)
Cristina Pagani (4505110)
Annamaria Di Gregorio (4505104)
Anna Anselmo (64079)
Anna Palozzi (4505095)
Antonella Fortunato (4505098)
Valentina Pittiglio (42110)
Anna Lisa Ridolfo (4505107)
Maria Rita Gismondo (4505113)
Giuliano Rizzardini (103636)
Florigio Lista (42114)

October 2017

GoeBURST diagram showing a “population snapshot” of the 68 carbapenem-resistant K. pneumoniae strain...

Additional file 11: of Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

Stefan Royaert (3552731)
Johannes Jansen (277599)
Daniela da Silva (3552740)
Samuel de Jesus Branco (3552749)
Donald Livingstone (3552746)
Guiliana Mustiga (3552752)
Jean-Philippe Marelli (3552743)
Ioná Araújo (3552755)
Ronan Corrêa (3552737)
Juan Motamayor (3552734)

February 2016

P-values of single and multiple QTLs and haplotype combinations associated with witches’ broom disea...

Additional file 2: Figure S2. of Two cases of serotypeable and non-serotypeable variants of Streptococcus pneumoniae detected simultaneously during invasive disease

Kedibone Ndlangisa (3497129)
Mignon du Plessis (631320)
Mushal Allam (3497135)
Nicole Wolter (631321)
Thabo Mohale (3497132)
Linda de Gouveia (194686)
Monica Birkhead (307448)
Keith Klugman (3401714)
Anne von Gottberg (194681)

June 2016

Core genome phylogenetic tree of Case A non-serotypeable isolate and serotype 1 isolates from South ...

Additional file 1: of Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

Stefan Royaert (3552731)
Johannes Jansen (277599)
Daniela da Silva (3552740)
Samuel de Jesus Branco (3552749)
Donald Livingstone (3552746)
Guiliana Mustiga (3552752)
Jean-Philippe Marelli (3552743)
Ioná Araújo (3552755)
Ronan Corrêa (3552737)
Juan Motamayor (3552734)

February 2016

Layout of the field experiment. Individual trees were planted in 2002 in a 3 × 3 m grid. Every fifth...

Additional file 2: of Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen

Lamprinos Frantzeskakis (5258396)
Barbara Kracher (3933719)
Stefan Kusch (3449618)
Makoto Yoshikawa-Maekawa (5258402)
Saskia Bauer (5258399)
Carsten Pedersen (258350)
Pietro Spanu (3124824)
Takaki Maekawa (159781)
Paul Schulze-Lefert (159823)
Ralph Panstruga (3449621)

May 2018

Figure S1. Comparative alignment of the Bgh DH14 and RACE1 genome assemblies with a Bgh genetic map....

Additional file 2: of Genome plasticity favours double chromosomal Tn4401b-blaKPC-2 transposon insertion in the Pseudomonas aeruginosa ST235 clone

Deisy Abril (6385460)
Ricaurte Marquez-Ortiz (3706963)
Betsy Castro-Cardozo (6385463)
José Moncayo-Ortiz (6385466)
Narda Olarte Escobar (6385469)
Zayda Corredor Rozo (6385472)
Niradiz Reyes (3706978)
Catalina Tovar (3706969)
Héctor Sánchez (6385475)
Jaime Castellanos (2841758)
Yina Guaca-González (6385478)
Carmen Llanos-Uribe (6385481)
Natasha Vanegas Gómez (6385484)
Javier Escobar-Pérez (6385487)

February 2019

Figure S1. Genetic relationship by PFGE of the carbapenem-resistant P. aeruginosa isolates identifie...

Additional file 2: of Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges

Jonathan Gordon (3467585)
Pierre Lefeuvre (82164)
Aline Escalon (3292581)
Valérie Barbe (13454)
Stéphane Cruveiller (10219)
Lionel Gagnevin (488941)
Olivier Pruvost (386525)

December 2015

Pathotype-specific regions of recombination and number of introduced variant residues in genes. Info...

Additional file 2: of Isolation of novel gut bifidobacteria using a combination of metagenomic and cultivation approaches

Gabriele Lugli (3522308)
Christian Milani (133915)
Sabrina Duranti (133929)
Giulia Alessandri (6708905)
Francesca Turroni (133919)
Leonardo Mancabelli (3661636)
Danilo Tatoni (6708908)
Maria Ossiprandi (6708911)
Douwe Sinderen (4321051)
Marco Ventura (133957)

May 2019

Table S1. Metagenomic sequence data. Table S2. Predicted glycobiome of novel species. Table S3. ITS ...

Additional file 3: of Profiling grapevine trunk pathogens in planta: a case for community-targeted DNA metabarcoding

Abraham Morales-Cruz (5623118)
Rosa Figueroa-Balderas (5623121)
Jadran GarcĂa (6088274)
Eric Tran (234607)
Philippe Rolshausen (3427193)
Kendra Baumgartner (709023)
Dario Cantu (207551)

December 2018

Table S2. Table with the proportions of fungal DNA of pure cultures of six grapevine trunk pathogens...

Additional file 2: of Genetic diversity of Escherichia coli in gut microbiota of patients with Crohnâs disease discovered using metagenomic and genomic analyses

Alexander Tyakht (2131003)
Alexander Manolov (4259773)
Alexandra Kanygina (3455015)
Dmitry Ischenko (2145547)
Boris Kovarsky (4519954)
Anna Popenko (2131006)
Alexander Pavlenko (4519966)
Anna Elizarova (5940068)
Daria Rakitina (104963)
Julia Baikova (4259746)
Valentina Ladygina (2131024)
Elena Kostryukova (3455012)
Irina Karpova (3606446)
Tatyana Semashko (6158534)
Andrei Larin (4259758)
Tatyana Grigoryeva (6158537)
Mariya Sinyagina (6158540)
Sergei Malanin (4259740)
Petr Shcherbakov (4519969)
Anastasiya Kharitonova (6158543)
Igor Khalif (4259752)
Marina Shapina (4259755)
Igor Maev (4259779)
Dmitriy Andreev (6158546)
Elena Belousova (116565)
Yulia Buzunova (6158549)
Dmitry Alexeev (1535380)
Vadim Govorun (2131033)

December 2018

Results of subspecies-level analysis of E. coli and other microbes in the metagenomes using ConStrai...

Additional file 1: of Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa

Cormac Fitzgerald (6088049)
Andrey Shkoporov (6088052)
Thomas Sutton (3860260)
Andrei Chaplin (6088055)
Vimalkumar Velayudhan (126780)
R. Ross (3461291)
Colin Hill (73239)

December 2018

Figure S1. Schematic representation of pairwise comparisons of locations of LCBs in genomes of F. pr...

Additional file 2: of Comprehensive analysis of draft genomes of two closely related pseudomonas syringae phylogroup 2b strains infecting mono- and dicotyledon host plants

Rinat Sultanov (3606350)
Georgij Arapidi (3606356)
Svetlana Vinogradova (3606353)
Vadim Govorun (2131033)
Duglas Luster (3606359)
Alexander Ignatov (1669930)

December 2016

List of Pseudomonas syringae strains selected for phylogenetic analysis (XLSX 57 kb

Additional file 5: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Table S2. Bacterial genera exclusive to the phylloplane of the genotypes CCN51 and Catongo. (DOCX 17...

Additional file 3: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Figure S3. Quantification of libraries. (A) Electrophoresis on 1% (w / v) agarose gel with the six s...

Additional file 4: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Juliano Santana (4375129)
Karina Gramacho (3531269)
Katiúcia de Souza Eduvirgens Ferreira (6005882)
Rachel Rezende (6005885)
Pedro Mangabeira (6005888)
Ricardo Dias (3582758)
Francisco Couto (57943)
Carlos Pirovani (3531266)

November 2018

Table S1. Bacteria identified and classified according to phylum, class, order, family, and genus fo...

Sara Rimoldi (4505101)
Bernardina Gentile (4505092)
Cristina Pagani (4505110)
Annamaria Di Gregorio (4505104)
Anna Anselmo (64079)
Anna Palozzi (4505095)
Antonella Fortunato (4505098)
Valentina Pittiglio (42110)
Anna Lisa Ridolfo (4505107)
Maria Rita Gismondo (4505113)
Giuliano Rizzardini (103636)
Florigio Lista (42114)

October 2017

GoeBURST diagram showing a “population snapshot” of the 68 carbapenem-resistant K. pneumoniae strain...

Additional file 11: of Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

Stefan Royaert (3552731)
Johannes Jansen (277599)
Daniela da Silva (3552740)
Samuel de Jesus Branco (3552749)
Donald Livingstone (3552746)
Guiliana Mustiga (3552752)
Jean-Philippe Marelli (3552743)
Ioná Araújo (3552755)
Ronan Corrêa (3552737)
Juan Motamayor (3552734)

February 2016

P-values of single and multiple QTLs and haplotype combinations associated with witches’ broom disea...

Additional file 2: Figure S2. of Two cases of serotypeable and non-serotypeable variants of Streptococcus pneumoniae detected simultaneously during invasive disease

Kedibone Ndlangisa (3497129)
Mignon du Plessis (631320)
Mushal Allam (3497135)
Nicole Wolter (631321)
Thabo Mohale (3497132)
Linda de Gouveia (194686)
Monica Birkhead (307448)
Keith Klugman (3401714)
Anne von Gottberg (194681)

June 2016

Core genome phylogenetic tree of Case A non-serotypeable isolate and serotype 1 isolates from South ...

Additional file 1: of Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

Stefan Royaert (3552731)
Johannes Jansen (277599)
Daniela da Silva (3552740)
Samuel de Jesus Branco (3552749)
Donald Livingstone (3552746)
Guiliana Mustiga (3552752)
Jean-Philippe Marelli (3552743)
Ioná Araújo (3552755)
Ronan Corrêa (3552737)
Juan Motamayor (3552734)

February 2016

Layout of the field experiment. Individual trees were planted in 2002 in a 3 × 3 m grid. Every fifth...

Additional file 2: of Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen

Lamprinos Frantzeskakis (5258396)
Barbara Kracher (3933719)
Stefan Kusch (3449618)
Makoto Yoshikawa-Maekawa (5258402)
Saskia Bauer (5258399)
Carsten Pedersen (258350)
Pietro Spanu (3124824)
Takaki Maekawa (159781)
Paul Schulze-Lefert (159823)
Ralph Panstruga (3449621)

May 2018

Figure S1. Comparative alignment of the Bgh DH14 and RACE1 genome assemblies with a Bgh genetic map....

Additional file 2: of Genome plasticity favours double chromosomal Tn4401b-blaKPC-2 transposon insertion in the Pseudomonas aeruginosa ST235 clone

Deisy Abril (6385460)
Ricaurte Marquez-Ortiz (3706963)
Betsy Castro-Cardozo (6385463)
José Moncayo-Ortiz (6385466)
Narda Olarte Escobar (6385469)
Zayda Corredor Rozo (6385472)
Niradiz Reyes (3706978)
Catalina Tovar (3706969)
Héctor Sánchez (6385475)
Jaime Castellanos (2841758)
Yina Guaca-González (6385478)
Carmen Llanos-Uribe (6385481)
Natasha Vanegas Gómez (6385484)
Javier Escobar-Pérez (6385487)

February 2019

Figure S1. Genetic relationship by PFGE of the carbapenem-resistant P. aeruginosa isolates identifie...

Additional file 2: of Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges

Jonathan Gordon (3467585)
Pierre Lefeuvre (82164)
Aline Escalon (3292581)
Valérie Barbe (13454)
Stéphane Cruveiller (10219)
Lionel Gagnevin (488941)
Olivier Pruvost (386525)

December 2015

Pathotype-specific regions of recombination and number of introduced variant residues in genes. Info...

Additional file 2: of Isolation of novel gut bifidobacteria using a combination of metagenomic and cultivation approaches

Gabriele Lugli (3522308)
Christian Milani (133915)
Sabrina Duranti (133929)
Giulia Alessandri (6708905)
Francesca Turroni (133919)
Leonardo Mancabelli (3661636)
Danilo Tatoni (6708908)
Maria Ossiprandi (6708911)
Douwe Sinderen (4321051)
Marco Ventura (133957)

May 2019

Table S1. Metagenomic sequence data. Table S2. Predicted glycobiome of novel species. Table S3. ITS ...

Additional file 3: of Profiling grapevine trunk pathogens in planta: a case for community-targeted DNA metabarcoding

Abraham Morales-Cruz (5623118)
Rosa Figueroa-Balderas (5623121)
Jadran GarcĂa (6088274)
Eric Tran (234607)
Philippe Rolshausen (3427193)
Kendra Baumgartner (709023)
Dario Cantu (207551)

December 2018

Table S2. Table with the proportions of fungal DNA of pure cultures of six grapevine trunk pathogens...

Additional file 2: of Genetic diversity of Escherichia coli in gut microbiota of patients with Crohnâs disease discovered using metagenomic and genomic analyses

Alexander Tyakht (2131003)
Alexander Manolov (4259773)
Alexandra Kanygina (3455015)
Dmitry Ischenko (2145547)
Boris Kovarsky (4519954)
Anna Popenko (2131006)
Alexander Pavlenko (4519966)
Anna Elizarova (5940068)
Daria Rakitina (104963)
Julia Baikova (4259746)
Valentina Ladygina (2131024)
Elena Kostryukova (3455012)
Irina Karpova (3606446)
Tatyana Semashko (6158534)
Andrei Larin (4259758)
Tatyana Grigoryeva (6158537)
Mariya Sinyagina (6158540)
Sergei Malanin (4259740)
Petr Shcherbakov (4519969)
Anastasiya Kharitonova (6158543)
Igor Khalif (4259752)
Marina Shapina (4259755)
Igor Maev (4259779)
Dmitriy Andreev (6158546)
Elena Belousova (116565)
Yulia Buzunova (6158549)
Dmitry Alexeev (1535380)
Vadim Govorun (2131033)

December 2018

Results of subspecies-level analysis of E. coli and other microbes in the metagenomes using ConStrai...

Additional file 1: of Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa

Cormac Fitzgerald (6088049)
Andrey Shkoporov (6088052)
Thomas Sutton (3860260)
Andrei Chaplin (6088055)
Vimalkumar Velayudhan (126780)
R. Ross (3461291)
Colin Hill (73239)

December 2018

Figure S1. Schematic representation of pairwise comparisons of locations of LCBs in genomes of F. pr...

Additional file 2: of Comprehensive analysis of draft genomes of two closely related pseudomonas syringae phylogroup 2b strains infecting mono- and dicotyledon host plants

Rinat Sultanov (3606350)
Georgij Arapidi (3606356)
Svetlana Vinogradova (3606353)
Vadim Govorun (2131033)
Duglas Luster (3606359)
Alexander Ignatov (1669930)

December 2016

List of Pseudomonas syringae strains selected for phylogenetic analysis (XLSX 57 kb

Additional file 2: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Abstract

Extracted data

Additional file 2: of Witches’ broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

Abstract

Extracted data

Related items

Related items