Genetic diversity and population structure of Taxus cuspidata Sieb. et Zucc. ex Endl. (Taxaceae) in Russia according to data of the nucleotide polymorphism of intergenic spacers of the chloroplast genome

Козыренко, М. М.; Artyukova, E. V.; Chubar, E. A.

doi:10.1134/s1022795417070079

Cited by 6 publications

(4 citation statements)

References 27 publications

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“…The analysis using cpDNA and mtDNA markers revealed high genetic variation in both natural and transplanted populations (Table 2 ). The total genetic diversity for cpDNA ( H T = 0.81) was in line with that of T. cuspidata in Russia ( Kozyrenko et al, 2017 ) and T. wallichiana in Eastern Himalayas ( Liu et al, 2013 ), but higher than other conifers ( Petit et al, 2005 ; Du et al, 2009 ) and other congeneric yews (e.g., T. contorta from Pakistan; Poudel et al, 2014a ; T. mairei from South China; Zhang, 2010 ) and T. cuspidata with restrict distributions on Changbai Mt. in NE China ( Cheng et al, 2015 ).…”

Section: Discussionsupporting

confidence: 70%

Recent Fragmentation May Not Alter Genetic Patterns in Endangered Long-Lived Species: Evidence From Taxus cuspidata

Song

et al. 2018

Front. Plant Sci.

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Forestland fragmentation caused by overexploitation of forest resources can in principle reduce genetic diversity, limit gene flow and eventually lead to species developing strong genetic structure. However, the genetic consequences of recent anthropogenic fragmentation of tree species remain unclear. Taxus cuspidata, which has extremely small populations distributed mainly in Changbai Mt. in Northeast (NE) China, has recently endured severe habitat fragmentation. Here, we investigate the pattern of genetic diversity and structure, identify risk factors, predict the future distribution and finally provide guidelines for the conservation and management of this species. We used three chloroplast and two mitochondrial DNA fragments, which are both paternally inherited in yews but differ in mutation rates, to genotype a total of 265 individuals from 26 populations covering the distribution of the species in China. Both chloroplast and mitochondrial data showed high degrees of genetic diversity, extensive gene flow over the entire geographical range and historical stability of both effective population size and distribution of the species. However, ecological niche modeling suggests a decrease in suitable areas for this species by the years 2050 and 2070. The maintenance of high genetic diversity and the existence of sufficient gene flow suggest that recent fragmentation has not affected the genetic composition of the long-lived tree T. cuspidata. However, severe impacts of anthropogenic activities are already threatening the species. Conservation and management strategies should be implemented in order to protect the remnant populations.

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Section: Discussionsupporting

confidence: 70%

Recent Fragmentation May Not Alter Genetic Patterns in Endangered Long-Lived Species: Evidence From Taxus cuspidata

Song

et al. 2018

Front. Plant Sci.

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“…A total of 2,636 accessions were available from previous studies, though mostly only as trnL‐trnF sequences (Gao et al., ; Kozyrenko, Artyukova, & Chubar, ; Liu, Provan, Gao, & Li, ; Liu et al., ; Mayol et al., ; Poudel et al., ; Poudel, Möller, Li, Shah, & Gao, ; Poudel, Möller, Liu et al., ; Rachmat, Subiakto, & Kamiya, ). To these were added 1,515 newly sampled individuals, collected from 73 populations between 2012 and 2016, making a total of 4,151 accessions and 251 populations representing all 15 species and the global distribution range of Taxus (Figure ; Supporting information: Figure S2, Supporting information: Table S1).…”

Section: Methodsmentioning

confidence: 99%

“…For land plants, two “core barcodes” ( rbcL plus matK ) plus two complementary barcodes (ITS and psbA‐trnH ) have been proposed (CBOL Plant Working Group ; Kress, Wurdack, Zimmer, Weigt, & Janzen, ; Li et al., ). For this study, therefore, we examined all four of these markers, plus trnL‐trnF which has already been used extensively for DNA barcoding (Liu et al., , ) and phylogeographical analyses within Taxus (Gao et al., ; Kozyrenko et al., ; Liu et al., ; Mayol et al., ; Poudel, Möller, Li, Shah, & Gao, ; Poudel, Möller, Liu et al., ; Rachmat et al., ).…”

Section: Methodsmentioning

confidence: 99%

Integrating a comprehensive DNA barcode reference library with a global map of yews (Taxus L.) for forensic identification

Liu

Milne

Möller

et al. 2018

Molecular Ecology Resources

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Rapid and accurate identification of endangered species is a critical component of biosurveillance and conservation management, and potentially policing illegal trades. However, this is often not possible using traditional taxonomy, especially where only small or preprocessed parts of plants are available. Reliable identification can be achieved via a comprehensive DNA barcode reference library, accompanied by precise distribution data. However, these require extensive sampling at spatial and taxonomic scales, which has rarely been achieved for cosmopolitan taxa. Here, we construct a comprehensive DNA barcode reference library and generate distribution maps using species distribution modelling (SDM), for all 15 Taxus species worldwide. We find that trnL-trnF is the ideal barcode for Taxus: It can distinguish all Taxus species and in combination with ITS identify hybrids. Among five analysis methods tested, NJ was the most effective. Among 4,151 individuals screened for trnL-trnF, 73 haplotypes were detected, all species-specific and some population private. Taxonomical, geographical and genetic dimensions of sampling strategy were all found to affect the comprehensiveness of the resulting DNA barcode library. Maps from SDM showed that most species had allopatric distributions, except T. mairei in the Sino-Himalayan region. Using the barcode library and distribution map data, two unknown forensic samples were identified to species (and in one case, population) level and another was determined as a putative interspecific hybrid. This integrated species identification system for Taxus can be used for biosurveillance, conservation management and to monitor and prosecute illegal trade. Similar identification systems are recommended for other IUCN- and CITES-listed taxa.

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“…T. chinensis is an evergreen woody plant of Taxus in Taxaceae [ 1 ]. It is primarily distributed in China, Japan, Korea and the Soviet Union, and is regarded as a valuable relict tree species from the Tertiary Period.…”

Section: Introductionmentioning

confidence: 99%

Metabolomics analysis of different diameter classes of Taxus chinensis reveals that the resource allocation is related to carbon and nitrogen metabolism

Pan,

Li,

Zhao

et al. 2024

BMC Plant Biol

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Taxus chinensis (Taxus cuspidata Sieb. et Zucc.) is a traditional medicinal plant known for its anticancer substance paclitaxel, and its growth age is also an important factor affecting its medicinal value. However, how age affects the physiological and metabolic characteristics and active substances of T. chinensis is still unclear. In this study, carbon and nitrogen accumulation, contents of active substances and changes in primary metabolites in barks and annual leaves of T. chinensis of different diameter classes were investigated by using diameter classes instead of age. The results showed that leaves and barks of small diameter class (D1) had higher content of non-structural carbohydrates and C, which were effective in enhancing defense capacity, while N content was higher in medium (D2) and large diameter classes (D3). Active substances such as paclitaxel, baccatin III and cephalomannine also accumulated significantly in barks of large diameter classes. Moreover, 21 and 25 differential metabolites were identified in leaves and barks of different diameter classes, respectively. The differential metabolites were enhanced the TCA cycle and amino acid biosynthesis, accumulate metabolites such as organic acids, and promote the synthesis and accumulation of active substances such as paclitaxel in the medium and large diameter classes. These results revealed the carbon and nitrogen allocation mechanism of different diameter classes of T. chinensis, and its relationship with medicinal components, providing a guidance for the harvesting and utilization of wild T. chinensis.

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Genetic diversity and population structure of Taxus cuspidata Sieb. et Zucc. ex Endl. (Taxaceae) in Russia according to data of the nucleotide polymorphism of intergenic spacers of the chloroplast genome

Cited by 6 publications

References 27 publications

Recent Fragmentation May Not Alter Genetic Patterns in Endangered Long-Lived Species: Evidence From Taxus cuspidata

Recent Fragmentation May Not Alter Genetic Patterns in Endangered Long-Lived Species: Evidence From Taxus cuspidata

Integrating a comprehensive DNA barcode reference library with a global map of yews (Taxus L.) for forensic identification

Metabolomics analysis of different diameter classes of Taxus chinensis reveals that the resource allocation is related to carbon and nitrogen metabolism

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