Enhancing transcriptome analysis in medicinal plants: multiple unigene sets in .

is a medicinal plant mainly used in East Asia and contains abundant secondary metabolites. Despite the importance of this plant, the available genomic and genetic information is still limited. transcriptome construction is recognized as an essential method for transcriptome research when reference genome information is incomplete.

First Contiguous Genome Assembly of Japanese Lady Bell () and Insights into Development of Different Leaf Types.

is an important medicinal and food plant found in East Asia. This plant is rich in secondary metabolites such as triterpenoid saponin, and its leaves can develop into different types, such as round and linear, depending on the origin of germination even within the same species. Despite this, few studies have comprehensively characterized the development processes of different leaf types and triterpenoid saponin pathways in this plant.

The First Complete Chloroplast Genome of : Genome Characterization and Phylogenetic Diversity.

is an ornamental flowering plant belonging to the family Campanulaceae. The complete chloroplast genome of was obtained using Illumina HiSeq X and Oxford Nanopore (Nanopore GridION) platforms. The chloroplast genome exhibited a typical circular structure with a total length of 169,341 bp, comprising a large single-copy region of 102,323 bp, a small single-copy region of 7744 bp, and a pair of inverted repeats (IRa/IRb) of 29,637 bp each.

Comparative analysis of mitochondrial genomes of and .

The family Schisandraceae is a basal angiosperm plant group distributed in East and Southeast Asia and includes many medicinal plant species such as . In this study, mitochondrial genomes (mitogenomes) of two species, and , in the family were characterized through assembly using sequencing data obtained with Oxford Nanopore and Illumina sequencing technologies. The mitogenomes of were assembled into one circular contig (571,107 bp) and four linear contigs (10,898-607,430 bp), with a total of 60 genes: 38 protein-coding genes (PCGs), 19 tRNA genes, and 3 rRNA genes.

The chromosome-level genome assembly of lance asiabell (), a medicinal and vegetable plant of the Campanulaceae family.

(2n = 2x = 16) belongs to the Campanulaceae family and is a valuable medicinal and vegetable plant primarily found in East Asia. Several studies have demonstrated its excellent pharmacological effects, for example in bronchial treatment. However, genomic information of is scarce, hindering studies on crop improvement of the species.

Genome of the world's smallest flowering plant, Wolffia australiana, helps explain its specialized physiology and unique morphology.

Watermeal, Wolffia australiana, is the smallest known flowering monocot and is rich in protein. Despite its great potential as a biotech crop, basic research on Wolffia is in its infancy. Here, we generated the reference genome of a species of watermeal, W.

Machine learning, transcriptome, and genotyping chip analyses provide insights into SNP markers identifying flower color in Platycodon grandiflorus.

Bellflower is an edible ornamental gardening plant in Asia. For predicting the flower color in bellflower plants, a transcriptome-wide approach based on machine learning, transcriptome, and genotyping chip analyses was used to identify SNP markers. Six machine learning methods were deployed to explore the classification potential of the selected SNPs as features in two datasets, namely training (60 RNA-Seq samples) and validation (480 Fluidigm chip samples).

The complete chloroplast genome of (Asterales: ).

() is an important oriental herb belonging to the family. complete chloroplast genome is composed of 239,431 bp, which form a large single-copy region (LSC, 178,906 bp), a small single-copy region (SSC, 55,819 bp), and 2 inverted repeats (IRs, 2,353 bp). There are 108 genes annotated, including 74 protein-coding genes, 4 ribosomal RNA genes, and 30 transfer RNA genes.

The complete chloroplast genome sequence of economical standard tea plant, cultivar Sangmok, in Korea.

The complete chloroplast genome sequence of cultivar Sangmok was determined using high-throughput sequencing technology. We sequenced Sangmok chloroplast genome and performed comparative with 21 published other and species from different genus for phylogenetic analysis. Chloroplast genome was 153,044 bp in length, containing a pair of 24,627 bp inverted repeat (IR) regions, which were separated by small and large single-copy regions (SSC and LSC) of 19,155 and 64,665 bp, respectively.

The complete mitochondrial genome sequences of (Apiales: Apiaceae).

has a long history of use in traditional oriental medicine. The first complete mitochondrial genome sequences of were 463,792 bp based on 494,582 aligned reads. A total of 51 genes was annotated including 32 protein-coding genes, 16 tRNA genes, and three rRNA genes.

NGS_SNPAnalyzer: a desktop software supporting genome projects by identifying and visualizing sequence variations from next-generation sequencing data.

Background: Sequence variations such as single nucleotide polymorphisms are markers for genetic diseases and breeding. Therefore, identifying sequence variations is one of the main objectives of several genome projects. Although most genome project consortiums provide standard operation procedures for sequence variation detection methods, there may be differences in the results because of human selection or error.

Mitochondrial plastid DNA can cause DNA barcoding paradox in plants.

The transfer of ancestral plastid genomes into mitochondrial genomes to generate mitochondrial plastid DNA (MTPT) is known to occur in plants, but its impacts on mitochondrial genome complexity and the potential for causing a false-positive DNA barcoding paradox have been underestimated. Here, we assembled the organelle genomes of Cynanchum wilfordii and C. auriculatum, which are indigenous medicinal herbs in Korea and China, respectively.

Mapping and Validation of QTLs for the Amino Acid and Total Protein Content in Brown Rice.

Highly nutritious rice production will be benefited with the improvement of amino acid content (AAC) and protein content (PC). The identification of quantitative trait loci (QTLs) associated with the PC and AAC of rice grains could provide a basis for improving the nutritional value of rice grains. Here, we conducted QTL analyses using recombinant inbred lines from the cross between (Milyang 23 or M23) and (Tong 88-7 or T887) rice varieties, afterward employing genotyping-by-sequencing to obtain a high-density genetic map.

The multipartite mitochondrial genome of (Gentianales: Apocynaceae).

is a Chinese herbal medicine species in the family Apocynaceae. The mitochondrial genome of has heteroplasmy and consists of two chromosomes (chromosomes I and II), the lengths of which are 614,836 and 426,495 nucleotides. The multipartite mitochondrial genome encodes 57 genes, including 37 protein-coding genes, 17 transfer RNA genes, and three ribosomal RNA genes.

Papaver nudicaule (Iceland poppy) alleviates lipopolysaccharide-induced inflammation through inactivating NF-κB and STAT3.

Background: Papaver nudicaule belongs to the Papaveraceae family, which is planted as an annual herbaceous species generally for ornamental purpose. Papaver rhoeas in the same family has been reported to have various pharmacological activities such as antioxidant and analgesic effects. In contrast, little is known about the pharmacological activity of Papaver nudicaule.