Improved Whole-Genome Sequence of Phytophthora capsici Generated by Long-Read Sequencing

• Published in: Molecular plant-microbe interactions Vol. 34; no. 7; pp. 866 - 869
• Main Authors: Shi, Jinxia, Ye, Wenwu, Ma, Dongfang, Yin, Junliang, Zhang, Zhichao, Wang, Yuanchao, Qiao, Yongli
• Format: Journal Article
• Language: English
• Published: United States American Phytopathological Society 01.07.2021; The American Phytopathological Society
• Subjects: Assembly; Economic impact; genome assembly; Genomes; long-read sequencing; nanopores; Nucleotide sequence; Pathogenicity; Pathogens; Phytophthora capsici; plant pathogen; Scaffolds; vegetables
• ISSN: 0894-0282; 1943-7706; 1943-7706
• DOI: 10.1094/MPMI-12-20-0356-A

The soilborne oomycete Phytophthora capsici is the most destructive pathogen of vegetable crops and is responsible for substantial economic losses worldwide. Here, we present an improved genome assembly of P. capsici generated by Oxford Nanopore long-read sequencing (for de novo assembly) and Illumina short-read sequencing (for polishing). The genome of P. capsici is 100.5 Mb in length (GC content = 50.8%) and contains 26,069 predicted protein-coding genes. The whole genome of P. capsici is assembled into 194 scaffolds, 90% of which are larger than 300 kb. The N 50 scaffold length and maximum scaffold length are 1.0 and 4.1 Mb, respectively. The whole-genome sequence of P. capsici will broaden our knowledge of this pathogen and enhance our understanding of the molecular basis of its pathogenicity, which will facilitate the development of effective management strategies. [Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .