sequence-based genome assemblies  (Illumina Inc)

Journal: PLOS Pathogens

Article Title: The soil-borne white root rot pathogen Rosellinia necatrix expresses antimicrobial proteins during host colonization

doi: 10.1371/journal.ppat.1011866

Figure Lengend Snippet: Sequencing summary and genome assembly statistics for nine Rosellinia necatrix strains.

Article Snippet: Until recently, only a single Illumina technology short-read sequencing-based R . necatrix draft genome assembly was generated of strain W97 that was isolated from apple in Japan [ ].

Techniques: Sequencing, Isolation

Journal: PLOS Pathogens

Article Title: The soil-borne white root rot pathogen Rosellinia necatrix expresses antimicrobial proteins during host colonization

doi: 10.1371/journal.ppat.1011866

Figure Lengend Snippet: (A) Genome assembly plot generated with Tapestry . Green bars indicate contig sizes with the color intensity correlating with read coverage, while red bars indicate telomeres with the color intensity correlating with the number of telomeric repeats. Contig 11 lacks telomeres and represents the mitochondrial genome. (B) Hi-C contact matrix showing interaction frequencies between regions in the genome of Rosellinia necatrix strain R18. Ten regions with high inter-chromosomal interaction frequencies are indicative of centromeres and are indicated with arrowheads.

Article Snippet: Until recently, only a single Illumina technology short-read sequencing-based R . necatrix draft genome assembly was generated of strain W97 that was isolated from apple in Japan [ ].

Techniques: Generated, Hi-C

Journal: PLOS Pathogens

Article Title: The soil-borne white root rot pathogen Rosellinia necatrix expresses antimicrobial proteins during host colonization

doi: 10.1371/journal.ppat.1011866

Figure Lengend Snippet: (A) Phylogeny of sequenced R . necatrix strains was inferred using Realphy . The robustness of the phylogeny was assessed using 1000 bootstrap replicates, and branch lengths represent sequence divergence (branches with maximum (100%) bootstrap support are indicated in red). Rosellinia corticium was used to root the tree. The amount of structural variants was calculated using NanoSV using strain R18 as a reference. (B) Circular plot displaying the genomic distribution of 2,019 SVs along the 10 chromosomes of R . necatrix . The tracks are shown in the following order from outside to inside: Gene density (10 kb), repetitive density (10 kb), effector gene locations, deletions, insertions and inversions and translocations. The color intensity of the lines for each SV track depict frequency in the R . necatrix collection.

Article Snippet: Until recently, only a single Illumina technology short-read sequencing-based R . necatrix draft genome assembly was generated of strain W97 that was isolated from apple in Japan [ ].

Techniques: Sequencing