Additional file 2: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Additional file 1: of Comparative evolutionary histories of fungal proteases reveal gene gains in the mycoparasitic and nematode-parasitic fungus Clonostachys rosea

Mudassir Iqbal (537102)
Mukesh Dubey (5944586)
Mikael Gudmundsson (5743373)
Maria Viketoft (2916590)
Dan Jensen (3815518)
Magnus Karlsson (150089)

November 2018

Table S1. Protease genes in different fungal genomes arranged according to MEROPS peptidase database...

Additional file 1: of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

Johan Fogelqvist (110490)
Georgios Tzelepis (3538331)
Sarosh Bejai (519571)
Jonas IlbĂ¤ck (4733316)
Arne Schwelm (116972)
Christina Dixelius (110494)

January 2018

Top: Distribution of coverage when mapping V. longisporum reads to the V. dahliae reference genome o...

Additional file 2: of Whole genome sequencing and comparative genomics of closely related Fusarium Head Blight fungi: Fusarium graminearum, F. meridionale and F. asiaticum

Sean Walkowiak (203653)
Owen Rowland (1348)
Nicolas Rodrigue (21473)
Rajagopal Subramaniam (203664)

December 2016

Summary tables for gene conservation, variation, annotation, and functional enrichment analyses. Des...

Additional file 3: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S2. Abbreviations of peroxidase gene names used for the peroxidase-catalase superfamily. (XLSX...

Additional file 6: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S4. Abbreviations of peroxidase gene names used for the peroxidase-dismutase superfamily. (XLS...

Additional file 8: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S6. Abbreviations of catalase gene names used fort he catalase superfamily. (XLSX 22 kb

Additional file 7: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S5. Abbreviations of peroxidase gene names used for the peroxidase-peroxygenase superfamily. (...

Additional file 2: of Genome sequence and comparative analysis of clavicipitaceous insect-pathogenic fungus Aschersonia badia with Metarhizium spp.

Yamini Agrawal (3532286)
Tarun Narwani (2267290)
Srikrishna Subramanian (511340)

May 2016

Multiple sequence alignment of subgroup A,B and C fungal chitinases. (DOC 593Â kb

Additional file 2: of Molecular and functional evolution of the fungal diterpene synthase genes

Marc Fischer (1778896)
Camille Rustenhloz (3464234)
Véronique Leh-Louis (166350)
Guy Perrière (2074)

October 2015

Fungal exons (blue) and introns (black) in putative di-TPS genes. Fungal species are arranged in the...

Additional file 1: of New insights on unspecific peroxygenases: superfamily reclassification and evolution

Muniba Faiza (6456161)
Shengfeng Huang (109358)
Dongming Lan (6421091)
Yonghua Wang (138282)

March 2019

Table S1 Number of putative sequences obtained in 35 different fungal species using the pipeline. (D...

Additional file 16: of New insights on unspecific peroxygenases: superfamily reclassification and evolution

Muniba Faiza (6456161)
Shengfeng Huang (109358)
Dongming Lan (6421091)
Yonghua Wang (138282)

March 2019

Table S3 Information of all the fungal genome sequences used in this study. (XLSX 38 kb

Additional file 2: of Comparative genome analyses reveal sequence features reflecting distinct modes of host-adaptation between dicot and monocot powdery mildew

Ying Wu (19057)
Xianfeng Ma (416171)
Zhiyong Pan (722951)
Shiv Kale (841480)
Yi Song (105202)
Harlan King (722952)
Qiong Zhang (172309)
Christian Presley (5791664)
Xiuxin Deng (181062)
Cheng-I Wei (5791667)
Shunyuan Xiao (722953)

September 2018

Table S1. Transposable elements (TEs) in the assembled genome of each powdery mildew biotype. Table ...

Additional file 2: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

Farzana Rahman (4221163)
Mehedi Hassan (766734)
Abdulsamie Hanano (3420554)
David Fitzpatrick (98964)
Charley McCarthy (6163613)
Denis Murphy (624182)

December 2018

Table S2. Lists of fungal CLO/PXG-like sequences. A list of the 844 sequenced fungal genomes analyse...

Additional file 5: Table S5 of Sequencing and functional annotation of the whole genome of the filamentous fungus Aspergillus westerdijkiae

Xiaolong Han (3433316)
Alolika Chakrabortti (3490670)
Jindong Zhu (3490673)
Zhao-Xun Liang (208114)
Jinming Li (128865)

August 2016

Counts of the putative genes per CAZy family in the 9 genomes used in this study. Table S6. Counts o...

Additional file 4: of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

Johan Fogelqvist (110490)
Georgios Tzelepis (3538331)
Sarosh Bejai (519571)
Jonas Ilbäck (4733286)
Arne Schwelm (116972)
Christina Dixelius (110494)

January 2018

Maximum likelihood phylogenetic trees (RAXML, model GTR+Γ) for the: A. actin (ACT) gene, B. the elon...

Additional file 1: of Comparative evolutionary histories of fungal proteases reveal gene gains in the mycoparasitic and nematode-parasitic fungus Clonostachys rosea

Mudassir Iqbal (537102)
Mukesh Dubey (5944586)
Mikael Gudmundsson (5743373)
Maria Viketoft (2916590)
Dan Jensen (3815518)
Magnus Karlsson (150089)

November 2018

Table S1. Protease genes in different fungal genomes arranged according to MEROPS peptidase database...

Additional file 1: of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

Johan Fogelqvist (110490)
Georgios Tzelepis (3538331)
Sarosh Bejai (519571)
Jonas IlbĂ¤ck (4733316)
Arne Schwelm (116972)
Christina Dixelius (110494)

January 2018

Top: Distribution of coverage when mapping V. longisporum reads to the V. dahliae reference genome o...

Additional file 2: of Whole genome sequencing and comparative genomics of closely related Fusarium Head Blight fungi: Fusarium graminearum, F. meridionale and F. asiaticum

Sean Walkowiak (203653)
Owen Rowland (1348)
Nicolas Rodrigue (21473)
Rajagopal Subramaniam (203664)

December 2016

Summary tables for gene conservation, variation, annotation, and functional enrichment analyses. Des...

Additional file 3: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S2. Abbreviations of peroxidase gene names used for the peroxidase-catalase superfamily. (XLSX...

Additional file 6: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S4. Abbreviations of peroxidase gene names used for the peroxidase-dismutase superfamily. (XLS...

Additional file 8: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S6. Abbreviations of catalase gene names used fort he catalase superfamily. (XLSX 22 kb

Additional file 7: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Marcel Zámocký (3538376)
Hakim Tafer (242487)
Katarína Chovanová (3538379)
Ksenija Lopandic (641294)
Anna Kamlárová (3538382)
Christian Obinger (1290555)

September 2016

Table S5. Abbreviations of peroxidase gene names used for the peroxidase-peroxygenase superfamily. (...

Additional file 2: of Genome sequence and comparative analysis of clavicipitaceous insect-pathogenic fungus Aschersonia badia with Metarhizium spp.

Yamini Agrawal (3532286)
Tarun Narwani (2267290)
Srikrishna Subramanian (511340)

May 2016

Multiple sequence alignment of subgroup A,B and C fungal chitinases. (DOC 593Â kb

Additional file 2: of Molecular and functional evolution of the fungal diterpene synthase genes

Marc Fischer (1778896)
Camille Rustenhloz (3464234)
Véronique Leh-Louis (166350)
Guy Perrière (2074)

October 2015

Fungal exons (blue) and introns (black) in putative di-TPS genes. Fungal species are arranged in the...

Additional file 1: of New insights on unspecific peroxygenases: superfamily reclassification and evolution

Muniba Faiza (6456161)
Shengfeng Huang (109358)
Dongming Lan (6421091)
Yonghua Wang (138282)

March 2019

Table S1 Number of putative sequences obtained in 35 different fungal species using the pipeline. (D...

Additional file 16: of New insights on unspecific peroxygenases: superfamily reclassification and evolution

Muniba Faiza (6456161)
Shengfeng Huang (109358)
Dongming Lan (6421091)
Yonghua Wang (138282)

March 2019

Table S3 Information of all the fungal genome sequences used in this study. (XLSX 38 kb

Additional file 2: of Comparative genome analyses reveal sequence features reflecting distinct modes of host-adaptation between dicot and monocot powdery mildew

Ying Wu (19057)
Xianfeng Ma (416171)
Zhiyong Pan (722951)
Shiv Kale (841480)
Yi Song (105202)
Harlan King (722952)
Qiong Zhang (172309)
Christian Presley (5791664)
Xiuxin Deng (181062)
Cheng-I Wei (5791667)
Shunyuan Xiao (722953)

September 2018

Table S1. Transposable elements (TEs) in the assembled genome of each powdery mildew biotype. Table ...

Additional file 2: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

Farzana Rahman (4221163)
Mehedi Hassan (766734)
Abdulsamie Hanano (3420554)
David Fitzpatrick (98964)
Charley McCarthy (6163613)
Denis Murphy (624182)

December 2018

Table S2. Lists of fungal CLO/PXG-like sequences. A list of the 844 sequenced fungal genomes analyse...

Additional file 5: Table S5 of Sequencing and functional annotation of the whole genome of the filamentous fungus Aspergillus westerdijkiae

Xiaolong Han (3433316)
Alolika Chakrabortti (3490670)
Jindong Zhu (3490673)
Zhao-Xun Liang (208114)
Jinming Li (128865)

August 2016

Counts of the putative genes per CAZy family in the 9 genomes used in this study. Table S6. Counts o...

Additional file 4: of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

Johan Fogelqvist (110490)
Georgios Tzelepis (3538331)
Sarosh Bejai (519571)
Jonas Ilbäck (4733286)
Arne Schwelm (116972)
Christina Dixelius (110494)

January 2018

Maximum likelihood phylogenetic trees (RAXML, model GTR+Γ) for the: A. actin (ACT) gene, B. the elon...

Additional file 1: of Comparative evolutionary histories of fungal proteases reveal gene gains in the mycoparasitic and nematode-parasitic fungus Clonostachys rosea

Mudassir Iqbal (537102)
Mukesh Dubey (5944586)
Mikael Gudmundsson (5743373)
Maria Viketoft (2916590)
Dan Jensen (3815518)
Magnus Karlsson (150089)

November 2018

Table S1. Protease genes in different fungal genomes arranged according to MEROPS peptidase database...

Additional file 1: of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

Johan Fogelqvist (110490)
Georgios Tzelepis (3538331)
Sarosh Bejai (519571)
Jonas IlbĂ¤ck (4733316)
Arne Schwelm (116972)
Christina Dixelius (110494)

January 2018

Top: Distribution of coverage when mapping V. longisporum reads to the V. dahliae reference genome o...

Additional file 2: of Whole genome sequencing and comparative genomics of closely related Fusarium Head Blight fungi: Fusarium graminearum, F. meridionale and F. asiaticum

Sean Walkowiak (203653)
Owen Rowland (1348)
Nicolas Rodrigue (21473)
Rajagopal Subramaniam (203664)

December 2016

Summary tables for gene conservation, variation, annotation, and functional enrichment analyses. Des...

Additional file 2: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Abstract

Extracted data

Additional file 2: of Genome sequence of the filamentous soil fungus Chaetomium cochliodes reveals abundance of genes for heme enzymes from all peroxidase and catalase superfamilies

Abstract

Extracted data

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