Data from: Size-dependent genetic erosion due to human logging and conservation recommendation for an endangered Yew (Taxus fuana) in Tibet, China
Data files
Aug 20, 2025 version files 70.22 KB
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1)_Basal_diameter_of_six_Taxus_fuana_population_in_Gyriong.csv
42.20 KB
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2)_Number_of_logged_Taxus_fuana_in_different_size_class_in_Kaire_and_Jilong.csv
1.01 KB
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3)_Number_of_logged_Taxus_fuana_in_each_population.csv
395 B
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4)_Location_information_and_DBH_of_Taxus_fuana_SSR_samples.csv
7.36 KB
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5)_SSR_data_of_Taxus_fuana_based_on_nine_microsatellites.csv
16.35 KB
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README.md
2.91 KB
Abstract
Taxus fuana, an endemic plant of the West Himalayas, has an extremely small population size and is currently threatened by heavy logging due to its medicinal properties. However, the impacts of human-induced logging on population size and tree size-class distribution, and their consequences for genetic diversity in China remain unclear, constraining conservation efficacy. Field surveys across six Gyirong sites indicated that trees with basal diameters of 6–30 cm experienced the most severe logging damage, particularly at Jilong (JL) and Langjiu (LJ). Both chloroplast DNA (ɸST = 0.138) and nuclear SSR (FST = 0.091) revealed significant differentiation among sites. Demographic modeling and gene flow estimates suggest that restricted gene flow and enhanced genetic drift in smaller sites appear to have driven this differentiation. Moreover, genetic diversity declined in a size-dependent manner: larger sites at Kaire (KR) and Jipu (JP) maintained higher haplotype diversity, nucleotide diversity, and allelic richness, whereas smaller sites at LJ and Tangbo (TB) exhibited markedly reduced values. At the individual tree level, sites dominated by small trees (6–30 cm) harbored lower genetic variation and allelic richness than those with a broader size-class distribution, underscoring the link between logging-induced demographic shifts and genetic erosion. We therefore recommend habitat restoration to prevent further logging, while establishing corridors and stepping-stone sites to re-establish gene flow and introducing genetically diverse individuals into sites with a high proportion of small trees.
https://doi.org/10.5061/dryad.msbcc2g7g
These files provide the data (.csv):
- Basal diameter and of six Taxus fuana population in Gyriong
- Number of logged Taxus fuana in each population
- Number of logged Taxus fuana in different size class in Kaire and Jilong
- Location information and DBH of Taxus fuana SSR samples
- SSR data of Taxus fuana based on nine microsatellites
in the manuscript "Size-dependent genetic erosion due to human logging and conservation recommendation for an endangered Yew (Taxus fuana) in Tibet, China".
Description of the data and file structure
- Basal diameter of six Taxus fuana population in Gyriong:
- POP: Represents populations, including KR(Kaire), TB(Tangbo), LJ(Lanjiu), JP(Jipu), JL(Jilong) and DF(Duofu)
- Basal diameter cm: Represents individual basal diameter (measured in centimeters).
- Number of logged Taxus fuana in different size class in Kaire and Jilong:
- Size-class: Represents individual size, including S1 (basal diameter ≤ 6 cm), S2 (6 cm < basal diameter ≤ 18 cm), S3 (18 cm < basal diameter ≤ 30 cm), S4 (30 cm < basal diameter ≤ 42 cm), S5 (42 cm < basal diameter ≤ 54 cm), S6 (54 cm < basal diameter ≤ 66 cm), and S7 (basal diameter > 66 cm).
- POP: Represents populations, including KR (Kaire), TB (Tangbo), LJ (Lanjiu), JP (Jipu), JL (Jilong) and DF (Duofu).
- Logging type: Represents logging status of individual, including stumps, stump sprouts and partially logged.
- Number: Represents number of logged individual.
- Number of logged Taxus fuana in each population:
- POP: Represents populations, including KR (Kaire), TB (Tangbo), LJ (Lanjiu), JP (Jipu), JL (Jilong) and DF (Duofu).
- Logging type: Represents logging status of individual, including stumps, stump sprouts and partially logged.
- Number: Represents number of logged individual.
- Location information and DBH of Taxus fuana SSR samples:
- IND: Represents individual ID.
- Altitude m: Represents the altitude at which an individual is located (measured in meters).
- DBH cm: Represents individual diameter at breast height (measured in centimeters).
- SSR data of Taxus fuana based on nine microsatellites:
- POP: Represents populations, including Kaire, Tangbo, Lanjiu, Jipu, Jilong and Duofu.
- IND: Represents individual ID.
- Loci Code: TY16, TG141, etc.
- Allele Recording: TY16.1 and TY16.2 represent two alleles recorded for the TY16 locus.
- null: Missing genotype data is coded as null. A null value indicates that no PCR product was obtained after repeated amplification attempts for that specific locus and individual.