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Using full-length metabarcoding and DNA barcoding to infer community assembly for speciose taxonomic groups: a case study

Evolutionary Ecology volume 34, pages 1063–1088 (2020)Cite this article

Abstract

How insect communities are assembled in nature remains largely unknown. In particular, whether habitat filtering or competition serves as the main mechanism in forming insect communities is rarely subject to an in-depth investigation. One bottleneck lies in the difficulty of species identification when dealing with a large number of diverse insects. However, high-throughput sequencing technology coupled with classic DNA barcoding offers a great opportunity to infer community assembly for this speciose group. In this study, using 13,909 full-length barcodes obtained by Sanger sequencing or the full-length metabarcoding method (SOAPBarcode), we showed that competition was the main assembly mechanism for the moth communities in the younger Taihang Mountain, while habitat filtering for those in the old Yanshan Mountain. The two sequencing methods showed highly consistent results with regards to both diversity composition and community assembly mechanism. Significant phylogenetic signals and structure suggested that the focal moth communities were the result of the non-neutral assembly process, which was further confirmed by results of neutral assembly test that accounted for immigration and speciation rates. Our study showed that the full-length metabarcoding method can facilitate community assembly inferences, even for speciose taxonomic groups.

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Acknowledgements

We gratefully acknowledge the constructive comments from Prof. Melodie A. McGeoch of Monash University, Australia, on an earlier version of the manuscript.

Funding

This work was supported by Natural Science Foundation of China (31772501, 31272340, 31401121 and 31601877), China National Funds for Distinguished Young Scientists (31425023), the Chinese Universities Scientific Fund (2017QC114), Program for Changjiang Scholars and Innovative Research Team in University (IRT_17R75), Support Project of High-level Teachers in Beijing Municipal Universities (grant number IDHT20180518) and Academy for Multidisciplinary Studies, Capital Normal University to Ai-bing ZHANG, and Natural Science Foundation of China (31772493) to Xin Zhou.

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Author notes

  1. Mengdi Hao, Qian Jin, Guanliang Meng and Caiqing Yang have contributed to the work equally.

Authors and Affiliations

  1. College of Life Sciences, Capital Normal University, Beijing, 100048, People’s Republic of China

    Mengdi Hao, Qian Jin, Caiqing Yang, Zhiyong Shi, Yinan Li, Jing Li, Dan Zhang, Chungkun Shih, Yiran Sun & Aibing Zhang

  2. Suqian Institute of Agricultural Sciences, Jiangsu Academy of Agricultural Sciences, Suqian, 223800, People’s Republic of China

    Qian Jin

  3. BGI-Shenzhen, Shenzhen, 518083, China

    Guanliang Meng

  4. China National GeneBank, BGI-Shenzhen, Shenzhen, 518120, People’s Republic of China

    Guanliang Meng

  5. School of Life Sciences, Fudan University, Shanghai, 200433, People’s Republic of China

    Shenzhou Yang

  6. Department of Entomology, China Agricultural University, Beijing, 100193, People’s Republic of China

    Min Tang, Shanlin Liu & Xin Zhou

  7. Guizhou Provincial Center for Disease Control and Prevention, Guizhou, 550004, People’s Republic of China

    Xu Su

  8. Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, DC, 20013-7012, USA

    Chungkun Shih

  9. Vertebrate Zoology at World Museum, National Museums Liverpool, Liverpool, L3 8EN, UK

    John-James Wilson

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  1. Mengdi Hao
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  2. Qian Jin
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  16. Xin Zhou
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  17. Aibing Zhang
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Contributions

A.B.Z. and X.Z. designed the study, M.D.H., Q.J., G.L.M., S.Z.Y., Z.Y.S. and C.Q.Y. performed the research, M.T., S.L.L. and X.S. performed part data analysis, Z.Y.S., J.J.W., C.S. and J.L. analyzed output data, Y.N.L., D.Z., C.Q.Y., M.D.H. Y.R.S. built DNA barcoding library, M.D.H., Q.J. and G.L.M. wrote the first draft of the manuscript, and all authors contributed substantially to revisions. No authors have any financial conflicts associated with this work.

Corresponding authors

Correspondence to Xin Zhou or Aibing Zhang.

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Hao, M., Jin, Q., Meng, G. et al. Using full-length metabarcoding and DNA barcoding to infer community assembly for speciose taxonomic groups: a case study. Evol Ecol 34, 1063–1088 (2020). https://doi.org/10.1007/s10682-020-10072-y

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Keywords

  • Lepidoptera
  • Neutral assembly
  • Phylogenetic signal
  • Competition
  • Habitat filtering
  • Metabarcoding