Chromosome-level genome assembly of the Rhizoctonia solani

Abstract

Rhizoctonia solani is a ubiquitously distributed soil-borne fungal pathogen that causes serious diseases in many plants worldwide. It attracts significant research attention due to its considerable economic importance in agricultural production. However, the limited availability of genome information has further impeded the development of new molecular-targeted control technologies. By utilizing Illumina short-read, PacBio HiFi long-read, and high-throughput chromosome conformation capture (Hi-C) sequencing technologies, we present a comprehensive and continuous chromosome-level assembly for R. solani. The final genome size is 40,801,261 bp, consisting of 23 contigs with a N50 of 2,529,230 bp. Hi-C data aids in anchoring the assembly onto 16 chromosomes. Additionally, the genome contains 16.17% (6,597,897 bp) repeat elements, including 10,698 protein-coding genes and 232 non-coding RNAs. The high-quality genome of R. solani not only provides valuable genomic information for further comprehending the fungal pathobiology and evolution, but also contributes to the development of scientific control strategies for disease prevention and control in agriculture.

Fig. 1

The K-mer distribution analysis of the R. solani genome. len, estimated genome size in bp; uniq, unique percent; a, homozygous rate; kcov, kmer coverage; err, error rate; dup, duplication rate; k, kmer. The x-axis represents the k-mer depth and the y-axis is the corresponding frequency.

Fig. 2

Circular plot showing the gene features in R. solani genome. The tracks from the outer ring to the inner ring represent the sixteen chromosomes (Chr1-Chr16), gene position, Repeat element density, non-coding RNA and GC content. The densities are calculated in 50 kb windows. Chr: chromosome.

Fig. 3

Hi-C interaction heat map of chromosomal level genome in R. solani.