Corydalis saxicola
, an endangered herbaceous plant belonging to the Papaveraceae family and used traditionally as folk medicine, is exclusively endemic to karst habitats. However, the lack of a reference genome limits the implementation of molecular techniques in its breeding, pharmacology and domestication. Here, we present a high-quality chromosome-level genome assembly of
C. saxicola
based on PacBio HiFi and Hi-C data. The assembled genome size is 240.94 Mb with a contig N50 of 29.21 Mb and BUSCO completeness of 97.71%. Approximately 93.26% of the assembled sequences could be anchored to eight pseudo-chromosomes. A total of 74.29 Mb repeat sequences were identified, which account for 32.33% of the genome. In addition, 24,203 protein-coding genes were identified with a BUSCO completeness of 97.89%. This high-quality genome assembly will serve as a valuable resource for understanding the ecology, genetics, and evolution of
C. Saxicola
and will help towards its cultivation.
M. Lei, Jing Wang, S. Sooranna et al.· Scientific Data· 0 citations
Rice tiller number is a key determinant of panicle number and yield, yet its genetic architecture is highly influenced by environmental variation. Identifying loci showing reproducible effects across multiple growing seasons at the same experimental site is important for improving the reliability of GWAS-based locus prioritization for breeding. In this study, 240 rice accessions from the Rice3K panel were evaluated for tiller number over three growing seasons (2021–2023) in Sanya, Hainan Province, representing the South China rice-growing region. Genome-wide association analyses using GLM and MLM, combined with BLUEs, identified reproducible genetic signals. Several previously reported tillering-related genes, such as NAL1, BON3, ANT1, MRG702, D27, WTG1, and VPE2, were detected across different analyses. Among them, NAL1 and ANT1 represented the most consistently associated loci across three growing seasons and statistical models. Gene-based association analysis identified the promoter variants Chr4:31203262 (C/T) in NAL1 and Chr7:7310528 (G/A) in ANT1 as the lead polymorphisms, with the favorable C and G alleles associated with increased tiller number, respectively. In addition, nine putative candidate loci showing suggestive associations across three growing seasons were identified as putative candidate breeding resources. These results highlight the importance of integrating multi-year phenotyping with GWAS to prioritize loci showing reproducible associations across three growing seasons and provide valuable candidate genetic resources for future molecular improvement of rice adapted to the South China rice-growing region.
Yanjia Xiao, Xiaoyu Zeng, Lanlan Deng et al.· Agronomy· 0 citations