AUTHOR=Shen Chunxiu , Lu Qineng , Yang Di , Zhang Xueru , Huang Xinping , Li Rungen , Que Zhiqun , Chen Na 

TITLE=Genome-wide identification analysis in wild-type Solanum pinnatisectum reveals some genes defending against Phytophthora infestans

JOURNAL=Frontiers in Genetics

VOLUME=15

YEAR=2024

URL=https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2024.1379784

DOI=10.3389/fgene.2024.1379784

ISSN=1664-8021

ABSTRACT=<p><italic>Solanum pinnatisectum</italic> exhibits strong resistance to late blight caused by <italic>Phytophthora infestans</italic> but only an incomplete genome assembly based on short Illumina reads has been published. In this study, we generated the first chromosome-level draft genome for the wild-type potato species <italic>S. pinnatisectum</italic> in China using Oxford Nanopore technology sequencing and Hi-C technology. The high-quality assembled genome size is 664 Mb with a scaffold N50 value of 49.17 Mb, of which 65.87% was occupied by repetitive sequences, and predominant long terminal repeats (42.51% of the entire genome). The genome of <italic>S. pinnatisectum</italic> was predicted to contain 34,245 genes, of which 99.34% were functionally annotated. Moreover, 303 NBS-coding disease resistance (R) genes were predicted in the <italic>S. pinnatisectum</italic> genome to investigate the potential mechanisms of resistance to late blight disease. The high-quality chromosome-level reference genome of <italic>S. pinnatisectum</italic> is expected to provide potential valuable resources for intensively and effectively investigating molecular breeding and genetic research in the future.</p>