-
Chapter
Population Genomics of Peanut
Population genomics envisages studying numerous loci and genome regions simultaneously to understand the roles of evolutionary processes such as mutation, genetic drift, gene flow, and natural selection that i...
-
Article
Open AccessPlant GARDEN: a portal website for cross-searching between different types of genomic and genetic resources in a wide variety of plant species
Plant genome information is fundamental to plant research and development. Along with the increase in the number of published plant genomes, there is a need for an efficient system to retrieve various kinds of...
-
Article
Genome sequencing reveals the genetic architecture of heterostyly and domestication history of common buckwheat
Common buckwheat, Fagopyrum esculentum, is an orphan crop domesticated in southwest China that exhibits heterostylous self-incompatibility. Here we present chromosome-scale assemblies of a self-compatible F. escu...
-
Article
Open AccessComprehensive collection of genes and comparative analysis of full-length transcriptome sequences from Japanese larch (Larix kaempferi) and Kuril larch (Larix gmelinii var. japonica)
Japanese larch (Larix kaempferi) is an economically important deciduous conifer species that grows in cool-temperate forests and is endemic to Japan. Kuril larch (L. gmelinii var. japonica) is a variety of Dahuri...
-
Article
Tracking an Introduced Arbuscular Mycorrhizal Fungus in Allium fistulosum in a Field Condition With or Without Controlling Indigenous Fungi by Soil Fumigation As Well as Evaluation on Plant Phosphorus and Growth
Increased plant phosphorus uptake and growth as a result of inoculation with arbuscular mycorrhizal (AM) fungi is observed less often under field conditions than in pot experiments. Interaction between introdu...
-
Article
Open AccessTranscriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response
Bacterial canker of tomato (Solanum lycopersicon) caused by the Gram-positive bacterium Clavibacter michiganensis subsp. michiganensis (Cmm) is an economically important disease. To understand the host defense re...
-
Article
Open AccessA chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum
Chrysanthemums are one of the most industrially important cut flowers worldwide. However, their segmental allopolyploidy and self-incompatibility have prevented the application of genetic analysis and modern b...
-
Article
Open AccessConstruction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.
Genomic information for Allium cepa L. is limited as it is heterozygous and its genome is very large. To elucidate potential SNP markers obtained by NGS, we used a complete set of A. fistulosum L.-A. cepa monosom...
-
Article
Open AccessChromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis
Plant genomes remain highly fragmented and are often characterized by hundreds to thousands of assembly gaps. Here, we report chromosome-level reference and phased genome assembly of Ophiorrhiza pumila, a camptot...
-
Article
Construction of a framework linkage map and genetic dissection of drought- and yield-related QTLs in horsegram (Macrotyloma uniflorum)
Horsegram (Macrotyloma uniflorum) is a legume species that is widely distributed throughout the Indian subcontinent. It is considered to be an important dietary protein supplement and nutraceutical. Horsegram has...
-
Chapter
Draft Genome Sequence
The genome sequences of various kinds of plant species, such as cereals, vegetables, fruits, and flowers, have been determined. The genome sequence of carnation (Dianthus caryophyllus) cultivar ‘Francesco’ was fi...
-
Article
Open AccessCurrent status in whole genome sequencing and analysis of Ipomoea spp.
The recent advances of next-generation sequencing have made it possible to construct reference genome sequences in divergent species. However, de novo assembly at the chromosome level remains challenging in po...
-
Article
Open AccessConstruction of genetic linkage map and identification of a novel major locus for resistance to pine wood nematode in Japanese black pine (Pinus thunbergii)
Pine wilt disease (PWD), which is caused by the pine wood nematode (PWN) Bursaphelenchus xylophilus, is currently the greatest threat to pine forests in Europe and East Asian countries including Japan. Constructi...
-
Article
Open AccessGenome-wide association study overcomes the genome complexity in autohexaploid chrysanthemum and tags SNP markers onto the flower color genes
The use of DNA markers has revolutionized selection in crop breeding by linkage map** and QTL analysis, but major problems still remain for polyploid species where marker-assisted selection lags behind the s...
-
Article
Open AccessWidely targeted metabolome and transcriptome landscapes of Allium fistulosum–A. cepa chromosome addition lines revealed a flavonoid hot spot on chromosome 5A
Here, we report a comprehensive analysis of the widely targeted metabolome and transcriptome profiles of Allium fistulosum L. (FF) with the single extra chromosome of shallot [A. cepa L. Aggregatum group (AA)] to...
-
Article
Open AccessIdentification of potential genes involved in triterpenoid saponins biosynthesis in Gleditsia sinensis by transcriptome and metabolome analyses
Gleditsia sinensis is widely used as a medicinal plant in Asia, especially in China. Triterpenes, alkaloids, and sterols were isolated from Gleditsia species. Among them, triterpenoid saponins are very important ...
-
Chapter
The Draft Genome of Eggplant
The genome sequences of many plant species have been determined using next-generation sequencing (NGS) data. In the Solanaceae, the genome sequences of species such as potato, tomato, wild tomato, and pepper h...
-
Article
Open AccessDissection of niche competition between introduced and indigenous arbuscular mycorrhizal fungi with respect to soybean yield responses
Arbuscular mycorrhizal (AM) fungi associate with most land plants and deliver phosphorus to the host. Identification of biotic/abiotic factors that determine crop responses to AM fungal inoculation is an essen...
-
Article
Molecular insights into the non-recombining nature of the spinach male-determining region
Spinach (Spinacia oleracea L.) is a dioecious plant with male heterogametic sex determination and homomorphic sex chromosomes (XY). The dioecism is utilized for producing commercial hybrid seeds, and hence unders...
-
Chapter
Current Status of Octoploid Strawberry (Fragaria × ananassa) Genome Study
The complex structure of the polyploid genome has inhibited advances in genomics and genetic analysis in polyploid species. Octoploid strawberry (Fragaria × ananassa) is allopolyploidy species (2n = 8x = 56) wit...
