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A haplotype map of genomic variations and genome-wide association studies of agronomic traits in foxtail millet (Setaria italica)
This study sequenced 916 diverse foxtail millet varieties, identified 2.58 million SNPs and used 0.8 million common SNPs to construct a haplotype map of the foxtailed millet genome, and identified 512 loci associated with 47 agronomic traits by genome-wide association studies.
Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv.]
A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria, and represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species.
Chloroplast phylogenomic analysis provides insights into the evolution of the largest eukaryotic genome holder, Paris japonica (Melanthiaceae)
The genome size expansion in the most recent common ancestor for Paris and Trillium was most possibly a gradual process that lasted for approximately 20 million years, and support the taxonomic treatment of Paris as a genus rather than dividing it into three genera, but do not support the recognition of T. govanianum as the separate genus Trillidium.
Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)
  • Yunheng Ji, Lifang Yang, +5 authors T. Yi
  • Biology, Medicine
    BMC Plant Biology
  • 1 December 2019
Findings challenge the theoretical prediction that large genome sizes may limit speciation in Paris and provide important insights for clarifying some of the long-standing taxonomic debates in Paris.
Transcriptome analyses of Paris polyphylla var. chinensis, Ypsilandra thibetica, and Polygonatum kingianum characterize their steroidal saponin biosynthesis pathway.
Evidence is provided to support the hypothesis that monocotyledons biosynthesize steroidal saponins from cholesterol via the cycloartenol pathway and unigenes of β-glucosidase may be candidate genes for catalysis of later period modifications of the steroidal Saponin skeleton.
The complete chloroplast genome of Pleione bulbocodioides (Orchidaceae)
The maximum likelihood phylogenetic analysis indicated that P. bulbocodioides was closely related to the genera Cymbidium and Bletilla, and the first complete chloroplast genome was reported on.
Testing and using complete plastomes and ribosomal DNA sequences as the next generation DNA barcodes in Panax (Araliaceae)
It is suggested that complete plastome and ribosomal DNA sequences can substantially increase species discriminatory power in plants, but they are not powerful enough to fully resolve phylogenetic relationships and discriminate all species, particularly in evolutionarily young and complex plant groups.
The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)
Panax stipuleanatus (Araliaceae) is an endangered and medicinally important plant endemic to China. However, phylogenetic relationships within the genus Panax have remained unclear. In this study, we
Complete chloroplast genome of the economically important crop, Amorphophallus konjac (Araceae)
Phylogenetic analysis suggests that A. konjac is closely related to Colocasia esculenta and Pinellia ternata.
Complete plastome of Toricellia tiliifolia (Toricelliaceae), a relict plant
The first complete plastome of Toricellia tiliifolia, an Arcto-Tertiary relict endemic to eastern Asian, was presented using Illumina pair-end sequencing data and indicated that T. tiliIFolia was the earliest diverged clade within the order Apiales.