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is a genus of paleotropical woody bamboos distributed in Southeast Asia, characterised by its complex taxonomic history. Currently, the taxonomic status of several species within remains unresolved, primarily due to incompleteness of vegetative specimens for identification, coupled with scarcity of floral and fruit specimens and phylogenetic discordance. To address these issues, we developed a genome skimming dataset with multiple samples per species of through the Skmer approach. Genetic and morphological evidence supports the transfer of to , with a new combination, . Based on a comprehensive evaluation that integrates morphological characters, molecular data and geographic distribution, we propose treating as a synonym of and provide the description of its inflorescence and an epitype of it for the first time. Our results further indicate that is a synonym of . We also described a new species, from Ningming, Guangxi, based on morphological and molecular evidence. Our results demonstrate both the efficiency and reliability of the Skmer approach in species discrimination while emphasising the importance of integrating morphological characters with genomic data for accurate species classification in .
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http://dx.doi.org/10.3897/phytokeys.259.151683 | DOI Listing |
PhytoKeys
July 2025
Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China Chinese Academy of Sciences Kunming China.
is a genus of paleotropical woody bamboos distributed in Southeast Asia, characterised by its complex taxonomic history. Currently, the taxonomic status of several species within remains unresolved, primarily due to incompleteness of vegetative specimens for identification, coupled with scarcity of floral and fruit specimens and phylogenetic discordance. To address these issues, we developed a genome skimming dataset with multiple samples per species of through the Skmer approach.
View Article and Find Full Text PDFBMC Plant Biol
May 2025
Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, 650201, China.
Background: Species delimitation within Camellia sect. Thea is taxonomically challenging due to its complex evolutionary history. This study aims to utilize nuclear and chloroplast data as genomic DNA barcodes to delimit species within this economically important group of plants.
View Article and Find Full Text PDFPlant Divers
November 2024
CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, PR China.
Genome skimming has dramatically extended DNA barcoding from short DNA fragments to next generation barcodes in plants. However, conserved DNA barcoding markers, including complete plastid genome and nuclear ribosomal DNA (nrDNA) sequences, are inadequate for accurate species identification. Skmer, a recently proposed approach that estimates genetic distances among species based on unassembled genome skims, has been proposed to effectively improve species discrimination rate.
View Article and Find Full Text PDFGenes (Basel)
July 2022
Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, 5 Yushan Road, Qingdao 266003, China.
Most recently, species identification has leaped from DNA barcoding into shotgun sequencing-based "genome skimming" alternatives. Genome skims have mainly been used to assemble organelle genomes, which discards much of the nuclear genome. Recently, an alternative approach was proposed for sample identification, using unassembled genome skims, which can effectively improve phylogenetic signal and identification resolution.
View Article and Find Full Text PDFIEEE/ACM Trans Comput Biol Bioinform
April 2023
Multiple sequence alignment has been the traditional and well established approach of sequence analysis and comparison, though it is time and memory consuming. As the scale of sequencing data is increasing day by day, the importance of faster yet accurate alignment-free methods is on the rise. Several alignment-free sequence analysis methods have been established in the literature in recent years, which extract numerical features from genomic data to analyze sequences and also to estimate phylogenetic relationship among genes and species.
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