Genome Skimming Reveals Plastome Conservation, Phylogenetic Structure, and Novel Molecular Markers in Valuable Orchid .

: is a rare and endangered terrestrial orchid endemic to China, valued for its ornamental and medicinal properties. However, limited genomic resources hinder its effective conservation strategies and sustainable utilization. This study aimed to generate comprehensive plastome resources and develop molecular markers to support the phylogenetics, identification, and conservation management of .

Haplotype-resolved genome and population genomics provide insights into dioscin biosynthesis and evolutionary history of the medicinal species Dioscorea nipponica.

Dioscorea nipponica, a perennial herb widely distributed in the Sino-Japanese Floristic Region, is renowned for its medicinal properties, particularly its ability to produce dioscin. Here, we present a haplotype-resolved genome assembly of the diploid D. nipponica, comprising 511.

Unraveling the Molecular Basis of Color Variation in Tubers: Integrated Transcriptome and Metabolomics Analysis.

L. (Dioscoreaceae) is a widely cultivated tuber crop with variations in tuber color, offering potential value as health-promoting foods. This study focused on the comparison of tubers possessing two distinct colors, white and purple, to explore the underlying mechanisms of color variation.

Low-coverage whole genome sequencing of eleven species/subspecies in sect. (Dioscoreaceae): comparative plastome analyses, molecular markers development and phylogenetic inference.

sect. (Dioscoreaceae) comprises about 30 species that are distributed in the temperate and subtropical regions of the Northern Hemisphere. Despite being evolutionarily "primitive" and medically valuable, genomic resources and molecular studies of this section are still scarce.

Pan-Plastome of Greater Yam () in China: Intraspecific Genetic Variation, Comparative Genomics, and Phylogenetic Analyses.

L. (Dioscoreaceae), commonly known as greater yam, water yam, or winged yam, is a popular tuber vegetable/food crop worldwide, with nutritional, health, and economical importance. China is an important domestication center of , and hundreds of cultivars (accessions) have been established.

Morphological Characteristics and Comparative Chloroplast Genome Analyses between Red and White Flower Phenotypes of (Maxim.) Li (Rosaceae), with Implications for Taxonomy and Phylogeny.

(Maxim.) Li (Rosaceae), commonly known as Chinese firethorn, is an evergreen shrub with high nutritional, medicinal, and horticultural importance. This species typically has white flowers, but a rare red flower phenotype has been found in very few wild populations in western Hubei, China, showing great ornamental potential.

Genome Sequence Resource for , an Important Pathogenic Fungus Causing Anthracnose of .

Anthracnose disease is one of the most important diseases of and many other food yams, which is caused by fungus from the Glomerellaceae family of the Sordariomycetes class. In the present study, a starin named CgDa01 was isolated from , and its genome was sequenced based on Oxford Nanopore technology (ONT) and the Illumina sequencing platform. The high-quality genome of CgDa01 was assembled with a 62.

Genome-wide analyses of introgression between two sympatric Asian oak species.

Introgression can be an important source of new alleles for adaption under rapidly changing environments, perhaps even more important than standing variation. Though introgression has been extensively studied in many plants and animals, key questions on the underlying mechanisms of introgression still remain unanswered. In particular, we are yet to determine the genomic distribution of introgressed regions along the genome; whether the extent and patterns of introgression are influenced by ecological factors; and when and how introgression contributes to adaptation.

Genome-wide Identification and Evolutionary Analysis of NBS-LRR Genes From .

is an important crop in the Triticeae tribe of the Poaceae family, and it has unique agronomic characteristics and genome properties. It possesses resistance to many diseases and serves as an important resource for the breeding of other Triticeae crops. We performed a genome-wide study on to identify the largest group of plant disease resistance genes ( genes), the nucleotide-binding site-leucine-rich repeat receptor (NBS-LRR) genes.

Pre-quaternary diversification and glacial demographic expansions of Cardiocrinum (Liliaceae) in temperate forest biomes of Sino-Japanese Floristic Region.

The Sino-Japanese Floristic Region (SJFR) in East Asia is one of the most diverse temperate floras in the world. However, the relative influence of Neogene palaeogeographical changes and Quaternary climatic fluctuations as causal mechanisms on species diversification remains largely controversial, because most divergence time estimates were inferred from single-locus data and have limited geographic or taxonomic sampling. To evaluate these influences, we use SNP markers from restriction site-associated DNA sequencing (RAD-Seq) loci and expressed sequence tags-simple sequence repeat (EST-SSR) markers to investigate the levels of genetic variation, speciation and demographic history of the temperate-deciduous forest (TDF) endemic Cardiocrinum (Endlicher) Lindley (Liliaceae), a genus comprising three species in China (C.

Comparative Genomics and Phylogenomics of East Asian Tulips (, Liliaceae).

The genus Honda (Liliaceae), when it is treated as separate from , comprises six perennial herbaceous species that are restricted to China, Japan and the Korean Peninsula. Although all six species have important medicinal and horticultural uses, studies focused on species identification and molecular phylogenetics are few. Here we report the nucleotide sequences of six complete chloroplast (cp) genomes.

The Complete Chloroplast Genomes of Three (Liliaceae) Species: Comparative Genomic and Phylogenetic Analyses.

The genus (Endlicher) Lindley (Liliaceae) comprises three herbaceous perennial species that are distributed in East Asian temperate-deciduous forests. Although all three species have horticultural and medical uses, studies related to species identification and molecular phylogenetic analysis of this genus have not been reported. Here, we report the complete chloroplast (cp) sequences of each species using Illumina paired-end sequencing technology.