Skip to main content
Log in

Development of 96 SNP markers for Amorphophallus yuloensis, a species distributed across southwestern China

  • Technical Note
  • Published:
Conservation Genetics Resources Aims and scope Submit manuscript

Abstract

Amorphophallus yuloensis is a species endemic to southwestern China. Due to the isolated nature of its karst limestone habitat, this species is found in small and isolated populations. Because wild populations of A. yuloensis are in decline due to human activity, it is necessary to assess genetic diversity among A. yuloensis. A total of 96 single nucleotide polymorphism markers were developed and validated for the first time for this species using restriction site-associated DNA sequencing. The average number of effective alleles among these loci was 1.417. The indices of observed and expected heterozygosities ranged from 0.031 to 0.621 and from 0.062 to 0.500, respectively. Nine loci were identified as departing from Hardy–Weinberg equilibrium after Bonferroni correction. These newly developed SNP loci will aid in population genetics research and the conservation of this species in the future.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Subscribe and save

Springer+ Basic
EUR 32.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or Ebook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Blanc-Jolivet C, Kersten B, Daïnou K, Hardy O, Guichoux E, Delcamp A, Degen B (2017) Development of nuclear SNP markers for genetic tracking of Iroko, Milicia excelsa and Milicia regia. Conserv Genet Res 9:531–533. https://doi.org/10.1007/s12686-017-0716-2

    Article  Google Scholar 

  • Gao Y, Yin S, Wu L, Dai D, Wang H, Liu C, Tang L (2017) Genetic diversity and structure of wild and cultivated Amorphophallus paeoniifolius populations in southwestern China as revealed by RAD-seq. Sci Rep-UK :14183

  • Gao Y et al (2021) Genome-wide SNPs provide insights on the cryptic genetic structure and signatures of climate adaption in Amorphophallus Albus germplasms. Front Plant Sci 12:683422. https://doi.org/10.3389/fpls.2021.683422

    Article  PubMed  PubMed Central  Google Scholar 

  • Goudet J (1995) FSTAT (Version 1.2): a computer program to calculate F-statistics. J Hered 86:485–486

    Article  Google Scholar 

  • Lalitha S (2000) Primer Premier 5. Biotech Softw Internet Rep 6:270–272

    Article  Google Scholar 

  • Li H, Zhu G, Boyce PC, Jin M, Hetterscheid WLA, Bogner J, Jacobsen N (2010) Araceae. Flora of China, vol 23. Science Press, Beijing, pp 23–33

    Google Scholar 

  • Liu Y et al (2022) Development of 45 SNP markers in Triplophysa hsutschouensis based on RAD sequencing. Conserv Genet Res 14:367–369. https://doi.org/10.1007/s12686-022-01292-1

    Article  CAS  Google Scholar 

  • Peakall R, Smouse PE (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research–an update. Bioinformatics 28:2537–2539

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Pouchon C, Gauthier J, Pitteloud C, Claudel C, Alvarez N (2023) Phylogenomic study of Amorphophallus (Alismatales; Araceae): when plastid DNA gene sequences help to resolve the backbone subgeneric delineation. J Syst Evol 61:64–79. https://doi.org/10.1111/jse.12910

    Article  Google Scholar 

  • Srzednicki G, Borompichaichartkul C (2020) Konjac glucomannan-production, processing, and functional applications. CRC Press, Boca Raton

    Book  Google Scholar 

  • Yin S, Chu H, Zhang Y, Lu F, Gao Y (2021) Population genetic diversity and genetic structure of Amorphophallus yunnanensis in Southwestern China and its conservation implication. Taiwania 66:126–134

    Google Scholar 

Download references

Acknowledgements

We would like to thank the HighEdit Company for assistance with English language editing of this manuscript.

Funding

This work was supported by the Special Basic Cooperative Research Programs of Yunnan Provincial Undergraduate Universities (202101BA070001-011), and Yunnan Revitalization Talents Support Plan.

Author information

Authors and Affiliations

Authors

Contributions

S. Y. performed the molecular experiment. Y. G. analysed the data. Y. Z. and H. C. collected the sample. S. Y. wrote the manuscript. All authors have revised and approved the final version of this manuscript.

Corresponding author

Correspondence to Si Yin.

Ethics declarations

Competing interests

The authors declare no competing interests.

Additional information

Publisher’s Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary Material 1

Rights and permissions

Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Gao, Y., Zhang, Y., Chu, H. et al. Development of 96 SNP markers for Amorphophallus yuloensis, a species distributed across southwestern China. Conservation Genet Resour 16, 1–6 (2024). https://doi.org/10.1007/s12686-023-01327-1

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12686-023-01327-1

Keywords

Navigation