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Illumina Inc verticillium dahliae strain vd991
Homology analysis of lineage‐specific ( LS ) genes between Verticillium <t>dahliae</t> and Fusarium spp. Identity matrix of <t>Vd991</t> LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.
Verticillium Dahliae Strain Vd991, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/verticillium dahliae strain vd991/product/Illumina Inc
Average 91 stars, based on 1 article reviews
Price from $9.99 to $1999.99
verticillium dahliae strain vd991 - by Bioz Stars, 2020-08
91/100 stars

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Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium

Journal: The New Phytologist

doi: 10.1111/nph.14861

Homology analysis of lineage‐specific ( LS ) genes between Verticillium dahliae and Fusarium spp. Identity matrix of Vd991 LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.
Figure Legend Snippet: Homology analysis of lineage‐specific ( LS ) genes between Verticillium dahliae and Fusarium spp. Identity matrix of Vd991 LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.

Techniques Used: Construct

Presentation of lineage‐specific ( LS ) genes and gene synteny relationships among the three Verticillium dahliae strains Vd991, JR 2 and VdLs.17. The genes were arranged by the ortholog clustering results with the physical location from chromosomes one to eight of the JR 2 reference genome. UN indicates an unknown chromosome location of genes in V. dahliae . LS genes are marked in red, green and blue for Vd991, JR 2 and VdLs.17, respectively. Triangular blocks indicate the LSR s.
Figure Legend Snippet: Presentation of lineage‐specific ( LS ) genes and gene synteny relationships among the three Verticillium dahliae strains Vd991, JR 2 and VdLs.17. The genes were arranged by the ortholog clustering results with the physical location from chromosomes one to eight of the JR 2 reference genome. UN indicates an unknown chromosome location of genes in V. dahliae . LS genes are marked in red, green and blue for Vd991, JR 2 and VdLs.17, respectively. Triangular blocks indicate the LSR s.

Techniques Used:

Phylogenetic relationships between lineage‐specific ( LS ) genes from Verticillium dahliae Vd991, JR 2 d VdLs.17 and genes from Fusarium species. (a) Phylogenetic analyses were performed on nucleic acid sequences of orthologs of the single‐copy genes among 20 representative fusarias. Magnaporthe oryzae was set as the outgroup. V. dahliae strains are marked in red. (b–e) Evolutionary relationships between four LS genes from the lineage‐specific region G‐ LRS 2 in Vd991 and homologous genes in Fusarium spp. were inferred using the maximum likelihood method (1000 bootstraps). Genes for phylogenetic analysis of VEDA _05193 (b), VEDA _05195 (c), VEDA _05196 (d), and VEDA _05197 (e). Alphanumeric codes are standard gene accession numbers from reference genome databases. Clades that include genes from cotton wilt pathogens V. dahliae Vd991 and Fusarium oxysporum f. sp. vasinfectum are drawn in red.
Figure Legend Snippet: Phylogenetic relationships between lineage‐specific ( LS ) genes from Verticillium dahliae Vd991, JR 2 d VdLs.17 and genes from Fusarium species. (a) Phylogenetic analyses were performed on nucleic acid sequences of orthologs of the single‐copy genes among 20 representative fusarias. Magnaporthe oryzae was set as the outgroup. V. dahliae strains are marked in red. (b–e) Evolutionary relationships between four LS genes from the lineage‐specific region G‐ LRS 2 in Vd991 and homologous genes in Fusarium spp. were inferred using the maximum likelihood method (1000 bootstraps). Genes for phylogenetic analysis of VEDA _05193 (b), VEDA _05195 (c), VEDA _05196 (d), and VEDA _05197 (e). Alphanumeric codes are standard gene accession numbers from reference genome databases. Clades that include genes from cotton wilt pathogens V. dahliae Vd991 and Fusarium oxysporum f. sp. vasinfectum are drawn in red.

Techniques Used:

Ortholog gene clusters among the three Verticillium dahliae Vd991, JR 2 and VdLs.17 genomes. The numbers in solid yellow circles represent the total gene families composed of single‐copy genes among the three V. dahliae genomes; the numbers in solid gray circles represent the total gene families composed of multiple copies of genes in the three V. dahliae genomes. Red, green and blue correspond to Vd991, JR 2 and VdLs.17, respectively; the numbers in open gray circles represent the specific single‐copy genes in the Vd991, JR 2 and VdLs.17 genomes.
Figure Legend Snippet: Ortholog gene clusters among the three Verticillium dahliae Vd991, JR 2 and VdLs.17 genomes. The numbers in solid yellow circles represent the total gene families composed of single‐copy genes among the three V. dahliae genomes; the numbers in solid gray circles represent the total gene families composed of multiple copies of genes in the three V. dahliae genomes. Red, green and blue correspond to Vd991, JR 2 and VdLs.17, respectively; the numbers in open gray circles represent the specific single‐copy genes in the Vd991, JR 2 and VdLs.17 genomes.

Techniques Used:

Related Articles

Sequencing:

Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium
Article Snippet: .. Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17. ..

Functional Assay:

Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium
Article Snippet: .. Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17. ..

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    Illumina Inc verticillium dahliae strain vd991
    Homology analysis of lineage‐specific ( LS ) genes between Verticillium <t>dahliae</t> and Fusarium spp. Identity matrix of <t>Vd991</t> LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.
    Verticillium Dahliae Strain Vd991, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/verticillium dahliae strain vd991/product/Illumina Inc
    Average 91 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    verticillium dahliae strain vd991 - by Bioz Stars, 2020-08
    91/100 stars
      Buy from Supplier

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    Homology analysis of lineage‐specific ( LS ) genes between Verticillium dahliae and Fusarium spp. Identity matrix of Vd991 LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.

    Journal: The New Phytologist

    Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium

    doi: 10.1111/nph.14861

    Figure Lengend Snippet: Homology analysis of lineage‐specific ( LS ) genes between Verticillium dahliae and Fusarium spp. Identity matrix of Vd991 LS genes and Fusarium spp. genes. The matrix was constructed using protein‐coding genes from Vd991 that had higher identities with Fusarium spp. genes than with the two other V. dahliae genes. The color gradient from white to red represents identities from 0 to 100%.

    Article Snippet: Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17.

    Techniques: Construct

    Presentation of lineage‐specific ( LS ) genes and gene synteny relationships among the three Verticillium dahliae strains Vd991, JR 2 and VdLs.17. The genes were arranged by the ortholog clustering results with the physical location from chromosomes one to eight of the JR 2 reference genome. UN indicates an unknown chromosome location of genes in V. dahliae . LS genes are marked in red, green and blue for Vd991, JR 2 and VdLs.17, respectively. Triangular blocks indicate the LSR s.

    Journal: The New Phytologist

    Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium

    doi: 10.1111/nph.14861

    Figure Lengend Snippet: Presentation of lineage‐specific ( LS ) genes and gene synteny relationships among the three Verticillium dahliae strains Vd991, JR 2 and VdLs.17. The genes were arranged by the ortholog clustering results with the physical location from chromosomes one to eight of the JR 2 reference genome. UN indicates an unknown chromosome location of genes in V. dahliae . LS genes are marked in red, green and blue for Vd991, JR 2 and VdLs.17, respectively. Triangular blocks indicate the LSR s.

    Article Snippet: Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17.

    Techniques:

    Phylogenetic relationships between lineage‐specific ( LS ) genes from Verticillium dahliae Vd991, JR 2 d VdLs.17 and genes from Fusarium species. (a) Phylogenetic analyses were performed on nucleic acid sequences of orthologs of the single‐copy genes among 20 representative fusarias. Magnaporthe oryzae was set as the outgroup. V. dahliae strains are marked in red. (b–e) Evolutionary relationships between four LS genes from the lineage‐specific region G‐ LRS 2 in Vd991 and homologous genes in Fusarium spp. were inferred using the maximum likelihood method (1000 bootstraps). Genes for phylogenetic analysis of VEDA _05193 (b), VEDA _05195 (c), VEDA _05196 (d), and VEDA _05197 (e). Alphanumeric codes are standard gene accession numbers from reference genome databases. Clades that include genes from cotton wilt pathogens V. dahliae Vd991 and Fusarium oxysporum f. sp. vasinfectum are drawn in red.

    Journal: The New Phytologist

    Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium

    doi: 10.1111/nph.14861

    Figure Lengend Snippet: Phylogenetic relationships between lineage‐specific ( LS ) genes from Verticillium dahliae Vd991, JR 2 d VdLs.17 and genes from Fusarium species. (a) Phylogenetic analyses were performed on nucleic acid sequences of orthologs of the single‐copy genes among 20 representative fusarias. Magnaporthe oryzae was set as the outgroup. V. dahliae strains are marked in red. (b–e) Evolutionary relationships between four LS genes from the lineage‐specific region G‐ LRS 2 in Vd991 and homologous genes in Fusarium spp. were inferred using the maximum likelihood method (1000 bootstraps). Genes for phylogenetic analysis of VEDA _05193 (b), VEDA _05195 (c), VEDA _05196 (d), and VEDA _05197 (e). Alphanumeric codes are standard gene accession numbers from reference genome databases. Clades that include genes from cotton wilt pathogens V. dahliae Vd991 and Fusarium oxysporum f. sp. vasinfectum are drawn in red.

    Article Snippet: Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17.

    Techniques:

    Ortholog gene clusters among the three Verticillium dahliae Vd991, JR 2 and VdLs.17 genomes. The numbers in solid yellow circles represent the total gene families composed of single‐copy genes among the three V. dahliae genomes; the numbers in solid gray circles represent the total gene families composed of multiple copies of genes in the three V. dahliae genomes. Red, green and blue correspond to Vd991, JR 2 and VdLs.17, respectively; the numbers in open gray circles represent the specific single‐copy genes in the Vd991, JR 2 and VdLs.17 genomes.

    Journal: The New Phytologist

    Article Title: Comparative genomics reveals cotton‐specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium

    doi: 10.1111/nph.14861

    Figure Lengend Snippet: Ortholog gene clusters among the three Verticillium dahliae Vd991, JR 2 and VdLs.17 genomes. The numbers in solid yellow circles represent the total gene families composed of single‐copy genes among the three V. dahliae genomes; the numbers in solid gray circles represent the total gene families composed of multiple copies of genes in the three V. dahliae genomes. Red, green and blue correspond to Vd991, JR 2 and VdLs.17, respectively; the numbers in open gray circles represent the specific single‐copy genes in the Vd991, JR 2 and VdLs.17 genomes.

    Article Snippet: Table S1 Primers used in the study Table S2 PacBio RS II and Illumina raw data of genome sequences Table S3 Key parameters of the genome assembly of the Verticillium dahliae strain Vd991by PacBio RS II biotechnology Table S4 Improvement in genome sequence quality of Verticillium dahliae strain Vd991 with Illumina MiSeq data Table S5 Key parameters of the genome assembly of the Verticillium dahliae Vd991 Table S6 Physical locations of Verticillium dahliae Vd991 genomic regions relative to reference genomes of V. dahliae JR2 and VdLs.17 Table S7 Location of rearrangements in the Verticillium dahliae Vd991 genome compared with JR2 and VdLs.17 genomes Table S8 Comparison of gene models among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S9 Gene synteny among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S10 Analysis and comparisons of specific gene content among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S11 Fungi nonsupervised orthologous groups (fuNOG) annotations of protein coding genes among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S12 Functional annotation of potential pathogenicity and virulence‐related factors among the three genomes of Verticillium dahliae Vd991, JR2, and VdLs.17 Table S13 Classification of the subfamilies of CAZymes in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S14 Protein kinase annotation among the three genomes of Verticillium dahliae isolates Vd991, JR2 and VdLs.17 Table S15 Annotation of transcription factors among the three genomes of Verticillium dahliae isolates Vd991, JR2, and VdLs.17 Table S16 Percentages of protein‐coding genes with functional annotations in the genomes of the three Verticillium dahliae isolates Vd991, JR2, and VdLs.17.

    Techniques: