Resume：

Professional specialty：

• Evolution, Conservation and Innovative Utilization of East Asian Plants

  My lab's interests focus on plant biology, including ecology, evolution, diversity, conservation and global climate change. We employed phylogenomic, phylogeographic, population genomic and landscape genomic methods to understand the biodiversity and diversification mechanisms of East Asian plants. Our current research work mainly includes the following three projects:

  1) The Evolution History and Speciation of East Asia’s relict flora

  We aim to elucidate the historical demography and mechanisms underlying diversification and speciation of East Asia’s relict flora, and to explain how forest species respond and adapt to environmental changes in East Asia.

  2) The Conservation Biology of Rare and Endangered Plants in East Asia

  We focus on studying the impact of climate change and human activities on rare and endangered plants. By combining information from pollination biology, population genomics and field‐ecological analyses, we want to reveal the potential mechanisms associated with the population decline, and provide recovery plans and strategies for the endangered plants in East Asia.

  3) Innovative Utilization of East Asian Plants

  We seek to unravel the genetic basis underlying domestication history and adaptive evolution of resource plants, and identify the functional genes associated with disease and stress resistance. These genetic resources will be used in breeding program and commercial/industrial exploitation of economically important species.

Funded projects：

Academic service：

Members：

Aawards and honors：

Major publications：

• 1. Xu WQ, Ren CQ, Zhang XY, Comes HP, Liu XH, Li YG, Kettle CJ, Jalonen R, Gaisberger H, Ma YZ^*, Qiu Yingxiong^*. 2024. Genome sequences and population genomics reveal climatic adaptation and genomic divergence between two closely related sweetgum species. The Plant Journal, doi.org/10.1111/tpj.16675
  2. Feng Y, Comes HP, Chen J, Zhu SS, Lu RS, Zhang XY, Li P, Qiu J, Olsen KM^*, Qiu Yingxiong^*. 2024. Genome sequences and population genomics provide insights into the demographic history, inbreeding, and mutation load of two ‘living fossil’ tree species of Dipteronia. The Plant Journal, 117, 177192.
  3. Zhang XY, Chen Y, Wang LY, Yuan Y, Fang MY, Shi L, Lu RS, Comes HP, Ma YZ, Chen YY, Huang GZ, Zhou YF, Zheng ZS^*, Qiu Yingxiong^*. 2023. Pangenome of water caltrop reveals structural variations and asymmetric subgenome divergence after allopolyploidization. Horticulture Research, 10, uhad203.
  4. Zhu SS, Zhang XY, Ren CQ, Xu XH, Comes HP, Jiang WM, Fu CX, Feng HX, Cai LM, Hong DY, Li KL, Kai GY, Qiu Yingxiong*.2023. Chromosome-level reference genome of Tetrastigma hemsleyanum (Vitaceae) provides insights into genomic evolution and the biosynthesis of phenylpropanoids and flavonoids.The Plant Journal,114, 805-823.
  5. Lu RS, Chen Y, Zhang XY, Feng Y, Comes HP, Li Z, Zheng ZS, Yuan Y, Wang LY, Huang ZJ, Guo Y, Sun GP, Olsen KM, Chen J, Qiu Yingxiong*. 2022. Genome sequencing and transcriptome analyses provide insights into the origin and domestication of water caltrop ( Trapa spp., Lythraceae). Plant Biotechnology Journal, 20,761-776.
  6. Zhu SS, Chen J, Zhao J, Comes HP, Li P, Fu CX, Xie X, Lu RS, Xu WQ, Feng Y, Ye WQ, Sakaguchi S, Isagi Y, Li LF, Lascoux M,Qiu Yingxiong^*. 2020. Genomic insights on the contribution of balancing selection and local adaptation to the long-term survival of a widespread living fossil tree,Cercidiphyllum japonicum. New Phytologist, 228, 1674-1689.
  7. Wang YH, Jiang WM, Comes HP, Hu FS, QiuYingxiong^*, Fu CX. 2015. Molecular phylogeography and ecological niche modelling of a widespread herbaceous climber, Tetrastigma hemsleyanum (Vitaceae): insights into Plio-Pleistocene range dynamics of evergreen forest in subtropical China. New Phytologist, 206, 852–867.
  8. Chen C, Qi ZC, Xu XH, Koch MA, Comes HP, Jin XJ, Fu CX^*, Qiu Yingxiong^*. 2014. Understanding the formation of Mediterranean-African-Asian disjunctions: Evidence for Miocene climate-driven vicariance and recent long-distance dispersal in the Tertiary relict Smilax aspera L. (Smilacaceae). New Phytologist, 204, 243–255.
  9. Qi XS, Chen C, Comes HP, Sakaguchi S, Liu YH, Tanaka N, Sakio H, Qiu Yingxiong^*. 2012. Molecular data and ecological niche modelling reveal a highly dynamic evolutionary history of the East Asian Tertiary relict Cercidiphyllum (Cercidiphyllaceae).New Phytologist, 196, 617–630. [Highlighted by “Commentary” of New Phytologist in the same issue]
  10. Qiu Yingxiong, Sun Y, Zong M, Zhang XP, Lee J, Murata J, Fu CX^*, Comes HP^*. 2009. Molecular phylogeography of East Asian Kirengeshoma in relation to Quaternary climate change and land-bridge configurations. New Phytologist, 183, 480–495.
  11. Xu WQ, Comes HP, Feng Y, Zhang YH, Qiu Yingxiong^*. 2021.A test of the centre–periphery hypothesis using population genetics in an East Asian Tertiary relict tree. Journal of Biogeography, 48, 2853-2864.
  12. Cao YN, Zhu SS, Chen J, Comes HP, Wang IJ, Chen LY, Sakaguchi S, Qiu Yingxiong^*. 2020. Genomic insights into historical population dynamics, local adaptation, and climate change vulnerability of the East Asian Tertiary relict Euptelea (Eupteleaceae). Evolutionary Applications, 13, 2038-2055.
  13. Zhu SS, Comes HP, Tamaki I, Cao YN, Sakaguchi S, Yap ZY, Ding YQ, Qiu Yingxiong^*. 2020. Patterns of genotype variation and demographic history in Lindera glauca (Lauraceae), an apomict‐containing dioecious forest tree. Journal of Biogeography, 47, 2002-2016.
  14. Feng Y, Comes HP, Qiu Yingxiong^*. 2020. Phylogenomic insights into the temporal-spatial divergence history, evolution of leaf habit and hybridization in Stachyurus (Stachyuraceae). Molecular Phylogenetics and Evolution, 150, 106878.
  15. Lu RS, Chen Y, Tamaki I, Sakaguchi S, Ding YQ, Takahashi D, Li P, Isaji Y, Chen J, Qiu Yingxiong^*. 2019. Pre-quaternary diversification and glacial demographic expansions of Cardiocrinum (Liliaceae) in temperate forest biomes of Sino-Japanese Floristic Region. Molecular Phylogenetics and Evolution, 143, 106693.
  16. Feng Y, Comes HP, Zhou XP, Qiu Yingxiong^*. 2019. Phylogenomics recovers monophyly and early Tertiary diversification of Dipteronia (Sapindaceae). Molecular Phylogenetics and Evolution, 130, 9–17.
  17. Ye WQ, Yap ZY, Li Pan^*, Comes HP, Qiu Yingxiong^*. 2018. Plastome organization, genome-based phylogeny and evolution of plastid genes in Podophylloideae (Berberidaceae). Molecular Phylogenetics and Evolution, 127, 978–987.
  18. Cao YN, Wang IJ, Chen LY, Ding YQ, Liu LX, Qiu Yingxiong^*. 2018. Inferring spatial patterns and drivers of population divergence of Neolitsea sericea (lauraceae), based on molecular phylogeography and landscape genomics. Molecular Phylogenetics and Evolution, 126, 162–172.
  19. Wang YH, Jiang WM, Ye WQ, Fu CX, Gitzendanner MA, Soltis PS, Soltis DE, Qiu Yingxiong^*. 2018. Evolutionary insights from comparative transcriptome and transcriptome-wide coalescence analyses in Tetrastigma hemsleyanum. BMC Plant Biology, 18, 208.
  20. Mao YR, Zhang YH, Xu C, Qiu Yingxiong^*. 2016. Comparative transcriptome resources of two Dysosma species (Berberidaceae) and molecular evolution of the CYP719A gene in Podophylloideae. Molecular Ecology Resources, 16, 228–241.
  21. Zhai SN, Comes HP, Nakamura K, Yan HF, Qiu Yingxiong^*. 2012. Late Pleistocene lineage divergence among populations of Neolitsea sericea (Lauraceae) across a deep sea-barrier in the Ryukyu Islands. Journal of Biogeography, 39, 1347–1360.
  22. Qiu Yingxiong^*, Fu CX, Comes HP*. 2011. Plant molecular phylogeography in China and adjacent regions: Tracing the genetic imprints of Quaternary climate and environmental change in the world’s most diverse temperate flora. Molecular Phylogenetics and Evolution, 59, 225–244. (他引550余次)
  23. Li Y, Zhai SN, Qiu Yingxiong^*, Guo YP, Ge XJ^*, Comes HP. 2011. Glacial survival east and west of the ‘Mekong-Salween-Divide’ in the Himalaya-Hengduan Mountains Region as revealed by AFLP and cpDNA sequence variation in Sinopodophyllum hexandrum (Berberidaceae). Molecular Phylogenetics and Evolution, 59, 412–424.
  24. Qiu Yingxiong, Guan BC, Fu CX^*, Comes HP^*. 2009. Did glacials and/or interglacials promote allopatric incipient speciation in East Asian temperate plants? Phylogeographic and coalescent analyses on refugial isolation and divergence in Dysosma versipellis. Molecular Phylogenetics and Evolution, 51, 281–293.
  25. Li EX, Sun Y, Qiu Yingxiong^*, Guo JT, Comes HP, Fu CX^*. 2008. Phylogeography of two East Asian species in Croomia (Stemonaceae) inferred from chloroplast DNA and ISSR fingerprinting variation. Molecular Phylogenetics and Evolution 49, 702–714.

  Other major research papers：

  1. Wu DY, Shen E, Jiang B, Feng Y, Tang W, Lao ST ,Jia L, ...., Yingxiong Qiu, Olsen K, Fan LG, Ye CY*.2022. Genomic insights into the evolution of Echinochloa species as weed and orphan crop. Nature Communications, 13,1-16.
  2. Takahashi D^*, Sakaguchi S, Feng Y, Isagi Y, Qiu Yingxiong, Li P, Lu RS, Lu CT, Chung SW, Lin YS, Chen YC, Nagano AJ, Kawaguchi L, Setoguchi H. 2021. Geographic and subsequent biotic isolations led to a diversity anomaly of section Heterotropa (genus Asarum: Aristolochiaceae) in insular versus continental regions of the Sino-Japanese Floristic Region. Journal of Biogeography, 48, 1917-1929.
  3. Lu QX, Ye WQ, Lu RS, Xu WQ, Qiu Yingxiong^*. 2018. Phylogenomic and comparative analyses of complete plastomes of Croomia and Stemona (Stemonaceae). International Journal of Molecular Sciences, 19, 2383.
  4. Zhang YY, Shi E, Yang ZP, Geng QF, Qiu Yingxiong^*, Wang ZS^*. 2018. Development and application of genomic resources in an endangered palaeoendemic tree, Parrotia subaequalis (Hamamelidaceae) from eastern China. Frontiers in Plant Science, 9, 246.
  5. Chen C, Lu RS, Zhu SS, Tamaki I, Qiu Yingxiong^*. 2017. Population structure and historical demography of Dipteronia dyeriana (Sapindaceae), an extremely narrow palaeoendemic plant from China: implications for conservation in a biodiversity hot spot. Heredity, 8, 95–106.
  6. Lu RS, Li P, Qiu Yingxiong^*. 2017. The complete chloroplast genomes of three Cardiocrinum (Liliaceae) species: comparative genomic and phylogenetic analyses. Frontiers in Plant Science, 7, 2054.
  7. Wang YH, Comes HP, Cao YN, Guo R, Mao YR, Qiu Yingxiong^*. 2017. Quaternary climate change drives allo-peripatric speciation and refugial divergence in the Dysosma versipellis-pleiantha complex from different forest types in China. Scientific Reports 7, 40261.
  8. Cao YN, Comes HP, Sakaguchi S, Chen LY, Qiu Yingxiong^*. 2016. Evolution of East Asia’s Arcto-Tertiary relict Euptelea (Eupteleaceae) shaped by Late Neogene vicariance and Quaternary climate change. BMC Evolutionary Biology, 16, 66.
  9. Chen LY, Cao YN, Yuan N, Nakamura K, Wang GM, Qiu Yingxiong^*.2015. Characterization of transcriptome and development of novel EST-SSR makers based on next-generation sequencing technology in Neolitsea sericea (Lauraceae) endemic to East Asian land-bridge islands. Molecular Breeding, 35, 187–192.
  10. Yuan N, Comes HP, Cao YN, Guo R, Zhang YH, Qiu Yingxiong^*.2015. A comparative study on genetic effects of artificial and natural habitat fragmentation on Loropetalum chinense (Hamamelidaceae) in Southeast China. Heredity, 114, 544–551.
  11. Guo R, Mao YR, Cai JR, Wang JY, Wu J, Qiu Yingxiong^*.2014. Characterization and cross-species transferability of EST-SSR markers developed from the transcriptome of Dysosma versipellis (Berberidaceae) and their application for the assessment of population genetics in two closely related species. Molecular Breeding, 34, 1733–1746.
  12. Qi XS, Yuan N, Comes HP, Sakaguchi S,Qiu Yingxiong^*. 2014. A strong 'filter' effect of the East China Sea land bridge for East Asia's temperate plant species: inferences from molecular phylogeography and ecological niche modelling of Platycrater arguta (Hydrangeaceae). BMC Evolutionary Biology, 14, 41.
  13. Mao YR, Zhang RH, Nakamura H, Guan BC, Qiu Yingxiong^*.2014. Developing DNA barcodes for species identification in Podophylloideae (Berberidaceae). Journal of Systematics and Evolution, 52, 487–499.
  14. Yuan N, Sun Y, Comes HP, Fu CX, Qiu Yingxiong^*.2014. Understanding population structure and historical demography in a conservation context: population genetics of the endangered Kirengeshoma palmata (Hydrangeaceae). American Journal of Botany, 101, 521–529.
  15. Yuan N, Mao YR, Comes HP, Qi XS, Qiu Yingxiong^*.2012. Genetic effects of recent habitat fragmentation in the Thousand-Island Lake region of southeast China on the distylous Hedyotis chrysotricha (Rubiaceae). American Journal of Botany, 99, 121–125.
  16. Li XH, Shao JW, Lu C, Zhang XP^*, Qiu Yingxiong^*. 2012. Chloroplast phylogeography of a temperate tree Pteroceltis tatarinowii (Ulmaceae) in China. Journal of Systematics and Evolution, 50: 325–333.
  17. Sakaguchi S, Qiu Yingxiong, Liu YH, Qi XS, Kim SH, Han J, Takeuchi Y, Worth JR, Yamasaki M, Sakurai S, Isagi Y. 2012. Climate oscillation during the Quaternary associated with landscape heterogeneity promoted allopatric lineage divergence of a temperate tree Kalopanax septemlobus (Araliaceae) in East Asia. Molecular Ecology, 21, 3823–3838.
  18. Guan BC, Fu CX, Qiu Yingxiong^*.Zhou SL, Comes HP. 2010. Genetic structure and breeding system of a rare understory herb, Dysosma versipellis (Berberidaceae), from temperate deciduous forests in China. American Journal of Botany, 97, 111–122.
  19. Qiu Yingxiong^*,Qi XS, Jin XF, Tao XY, Fu CX, Naiki A, Comes HP. 2009. Population genetic structure, phylogeography, and demographic history of Platycrater arguta (Hydrangeaceae) endemic to East China and South Japan, inferred from chloroplast DNA sequence variation. Taxon, 58, 1226–1241.
  20. Gong W, Zeng Z, Qiu Yingxiong^*, Fu CX^*. 2008. Glacial refugia of Ginkgo biloba and human impact on its genetic diversity: evidence from chloroplast DNA. Journal of Integrative Plant Biology, 50, 368–374.
  21. Qiu Yingxiong^*, Luo YP, Comes HP*, Fu CX. 2007. Population genetic diversity and structure of Dipteronia dyerana (Sapindaceae), a rare endemic from Yunnan Province, China, with implications for conservation. Taxon, 56, 427–437.