Additional file 18: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zeng, Zhen
Sun, Hui
Vainio, Eeva J.
Raffaello, Tommaso
Kovalchuk, Andriy
Morin, Emmanuelle
Duplessis, Sébastien

January 2018

Background: Heterobasidion parviporum is an economically most important fungal forest pathogen in no...

Additional file 4: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Figure S1. Representative images of sampled asymptomatic and symptomatic trees showing the extent of...

Additional file 1: of Defence transcriptome assembly and pathogenesis related gene family analysis in Pinus tecunumanii (low elevation)

Erik Visser (3438095)
Jill Wegrzyn (141670)
Alexander Myburg (3438098)
Sanushka Naidoo (2819755)

August 2018

Table S1. RNA-sequencing library statistics. Table S2. Program parameters used for assembly that dev...

Additional file 17: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
Sébastien Duplessis (141607)
Fred Asiegbu (3539462)

March 2018

Table S9. Annotation of genes in different categories. (a) core genes (b) deleted genes (c) duplicat...

Additional file 16: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S8. Nucleotides counts and their frequencies within 1Â bp flanking C-to-T mutations. (DOCX 13Â...

Additional file 20: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S11. Significantly over-represented GO terms of conserved core genes compared with all genes i...

Additional file 11: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S5. Summary of peptidases, peptidase inhibitors and peroxidases in S15 secretome. (DOCX 14Â kb

Additional file 22: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Notes. Divergent, conserved and duplicated secreted protein coding genes. (DOCX 24Â kb

Additional file 1: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Methods. Virulence validation of two selected isolates in greenhouse. (DOCX 12Â kb

Additional file 3: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Figure S1. Norway spruce seedlings infected by isolate S15 (upper row) and S12 (lower row) at 15 dpi...

Additional file 8: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Figure S3 Simple sequence repeats (SSRs) distribution in selected genomic regions of S15. Numbers on...

Additional file 4: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
Sébastien Duplessis (141607)
Fred Asiegbu (3539462)

March 2018

Figure S2. (a) Sporulation and (b) Vegetative growth rate of 15 H. parviporum isolates. Isolates wer...

Additional file 1: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S1. List of Heterobasidion genes expressed during colonization of Norway spruce trees. (XLSX 7...

Additional file 2: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S2. List of Norway spruce genes showing higher transcript abundance in symptomatic trees. (XLS...

Additional file 3: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S3. List of Norway spruce genes showing higher transcript abundance in asymptomatic trees. (XL...

Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zeng, Zhen
Sun, Hui
Vainio, Eeva J.
Raffaello, Tommaso
Kovalchuk, Andriy
Morin, Emmanuelle
Duplessis, Sébastien

January 2018

Background: Heterobasidion parviporum is an economically most important fungal forest pathogen in no...

Additional file 4: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Figure S1. Representative images of sampled asymptomatic and symptomatic trees showing the extent of...

Additional file 1: of Defence transcriptome assembly and pathogenesis related gene family analysis in Pinus tecunumanii (low elevation)

Erik Visser (3438095)
Jill Wegrzyn (141670)
Alexander Myburg (3438098)
Sanushka Naidoo (2819755)

August 2018

Table S1. RNA-sequencing library statistics. Table S2. Program parameters used for assembly that dev...

Additional file 17: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
Sébastien Duplessis (141607)
Fred Asiegbu (3539462)

March 2018

Table S9. Annotation of genes in different categories. (a) core genes (b) deleted genes (c) duplicat...

Additional file 16: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S8. Nucleotides counts and their frequencies within 1Â bp flanking C-to-T mutations. (DOCX 13Â...

Additional file 20: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S11. Significantly over-represented GO terms of conserved core genes compared with all genes i...

Additional file 11: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Table S5. Summary of peptidases, peptidase inhibitors and peroxidases in S15 secretome. (DOCX 14Â kb

Additional file 22: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Notes. Divergent, conserved and duplicated secreted protein coding genes. (DOCX 24Â kb

Additional file 1: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Methods. Virulence validation of two selected isolates in greenhouse. (DOCX 12Â kb

Additional file 3: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Figure S1. Norway spruce seedlings infected by isolate S15 (upper row) and S12 (lower row) at 15 dpi...

Additional file 8: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
SĂŠbastien Duplessis (5009048)
Fred Asiegbu (3539462)

March 2018

Figure S3 Simple sequence repeats (SSRs) distribution in selected genomic regions of S15. Numbers on...

Additional file 4: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zhen Zeng (238754)
Hui Sun (107933)
Eeva Vainio (5009051)
Tommaso Raffaello (333962)
Andriy Kovalchuk (669619)
Emmanuelle Morin (11604)
Sébastien Duplessis (141607)
Fred Asiegbu (3539462)

March 2018

Figure S2. (a) Sporulation and (b) Vegetative growth rate of 15 H. parviporum isolates. Isolates wer...

Additional file 1: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S1. List of Heterobasidion genes expressed during colonization of Norway spruce trees. (XLSX 7...

Additional file 2: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S2. List of Norway spruce genes showing higher transcript abundance in symptomatic trees. (XLS...

Additional file 3: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Table S3. List of Norway spruce genes showing higher transcript abundance in asymptomatic trees. (XL...

Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Zeng, Zhen
Sun, Hui
Vainio, Eeva J.
Raffaello, Tommaso
Kovalchuk, Andriy
Morin, Emmanuelle
Duplessis, Sébastien

January 2018

Background: Heterobasidion parviporum is an economically most important fungal forest pathogen in no...

Additional file 4: of Dual RNA-seq analysis provides new insights into interactions between Norway spruce and necrotrophic pathogen Heterobasidion annosum s.l.

Andriy Kovalchuk (669619)
Zhen Zeng (238754)
Rajendra Ghimire (6173666)
Minna KivimĂ¤enpĂ¤Ă¤ (6173669)
Tommaso Raffaello (333962)
Mengxia Liu (1454956)
Mukrimin Mukrimin (5370008)
Risto Kasanen (537679)
Hui Sun (107933)
Riitta Julkunen-Tiitto (334380)
Jarmo Holopainen (6173672)
Fred Asiegbu (3539462)

January 2019

Figure S1. Representative images of sampled asymptomatic and symptomatic trees showing the extent of...

Additional file 1: of Defence transcriptome assembly and pathogenesis related gene family analysis in Pinus tecunumanii (low elevation)

Erik Visser (3438095)
Jill Wegrzyn (141670)
Alexander Myburg (3438098)
Sanushka Naidoo (2819755)

August 2018

Table S1. RNA-sequencing library statistics. Table S2. Program parameters used for assembly that dev...

Additional file 18: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Abstract

Extracted data

Additional file 18: of Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors

Abstract

Extracted data

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