Our Publications

Featured studies

• Complex trait genetics
  • Jin, M., Liu, H., Liu, X., Guo, T., Guo, J., Yin, Y., Ji, Y., Li, Z., Zhang, J., Wang, X., Qiao, F., Xiao, Y., Zan, Y. #, & Yan, J#. (2023). Complex genetic architecture underlying the plasticity of maize agronomic traits. Plant Communications, 100473. https://doi.org/10.1016/j.xplc.2022.100473 (Co-corresponding author)
  • Zan Y*, Carlborg Ö. Dynamic genetic architecture of yeast response to environmental perturbation shed light on origin of cryptic genetic variation. PLoS Genet, 2020, 16(5): e1008801 (First and corresponding author).
  • Zan Y, Carlborg Ö. A polygenic genetic architecture of flowering time in the worldwide Arabidopsis thaliana population. Molecular Biology and Evolution, 2019, 36 (1), 141-154 .
  • Zan Y#, Sheng Z#, Lillie M et al. Artificial selection response due to polygenic adaptation from a multilocus, multiallelic genetic architecture. Molecular Biology and Evolution, 2017, 2, 7–10 (Co-first author).
• Method development
  • Zan Y, Carlborg Ö. A multi-locus association analysis method integrating phenotype and expression data reveals multiple novel associations to flowering time variation in wild-collected Arabidopsis thaliana. Molecular Ecology Resources, 2018, 1, 1-11 .
  • Zan Y, Payen T, et al. Genotyping by low-coverage whole-genome sequencing in intercross pedigrees from outbred founders: a cost-efficient approach. Genetics Selection Evolution, 2019, 51(44), 1-11.
  • Zan Y, et al. A high throughput, cost-efficient library preparation protocol for large-scale next generation sequencing. protocols.io. 2018. DOI = dx.doi.org/10.17504/protocols.io.rt8d6rw.

Publication list

2023

• Ji Y, Han Y, Dai Y, Hao F, Feng X, Chen Q, Hao R, Chen Z, Zhao W, Zhang W, Si H, Zan, Y. , Polygenic basis of strong and rapid flowering time response to environment perturbations in wild Arabidopsis thaliana population, bioRxiv,2023,07,https://www.biorxiv.org/content/10.1101/2023.07.02.547444v1.abstract

• Zan, Y., Chen, S., Ren, M., Liu, G., Liu, Y., Si, H., Liu, Z., Liu, D., Zhang, X., Tong, Y., Li, Y., Jiang, C., Wen, L., Xiao, Z., Sun, Y., Geng, R., Feng, Q., Wang, Y., Chen, Y., … Yang, A. (2023). GeneBank genomics highlight the genomic features, genetic diversity and regulation of morphological, metabolic and disease-resistance traits in Nicotiana tabacum. BioRxiv, 2023.02.21.529366.

• Jin, M., Liu, H., Liu, X., Guo, T., Guo, J., Yin, Y., Ji, Y., Li, Z., Zhang, J., Wang, X., Qiao, F., Xiao, Y., Zan, Y. #, & Yan, J#. (2023). Complex genetic architecture underlying the plasticity of maize agronomic traits. Plant Communications, 100473. https://doi.org/10.1016/j.xplc.2022.100473 (Co-corresponding author)

2022

• Kang M, Wu H, Liu W, Zhu M, Han Y, Liu W, Chen C, Yin K, Zhao Y, Yan Z, Liu H, Lou S, Zan Y*, Liu J, (2022) The pan-genome and local adaptation of Arabidopsis thaliana, bioRxiv, 2022/1/1, https://doi.org/10.1101/2022.12.18.520013 (Submitted, Co-corresponding author)

• Zhou Y#, Zhang Z#, Bao Z#, Li H, Lyu Y, Zan Y, Wu Y, Cheng L, Fang Y, Wu K, Zhang J, Lv H, Lin T, Gao Q, Saha S, Xu S, Zhang Z, Fei Z, Mueller L, Städler T, Speed D, Huang S, Graph pangenome captures missing heritability and empowers tomato breeding. (2022) Nature, 606, 527–534.

• Niu, S., Li, J., Bo, W., Yang, W., Zuccolo, A., Giacomello, S., Chen, X., Han, F., Yang, J., Song, Y., Nie, Y., Zhou, B., Wang, P., Zuo, Q., Zhang, H., Ma, J., Wang, J., Wang, L., Zhu, Q., Zhao, H., Liu, Z., Zhang, X., Liu, T., Pei, S., Li, Z., Hu, Y., Yang, Y., Li, W., Zan, Y., Zhou, L., Lin, J., Yuan, T., Li, Wei, H., & Wu, H. X. (2022). The Chinese pine genome and methylome unveil key features of conifer evolution. Cell, 185(1), 204-217.e14.

• Rönneburg T, Zan Y, Honaker CF, Siegel PB, Carlborg Ö (2022) Low-coverage sequencing in a deep intercross of the Virginia body weight lines provides insight to the polygenic genetic architecture of growth: novel loci revealed by increased power and improved genome-coverage, Poultry Science, 102203

• ZQ Chen, Y Zan, L Zhou, B Karlsson, H Tuominen, MR García-Gil, HX Wu, 2022,Genetic architecture behind developmental and seasonal control of tree growth and wood properties in Norway spruce, Front Plant Sci. 2022; 13: 927673.

2021

• Bernhardsson C#, Zan Y#, Chen Z, Ingvarsson P, Wu.H, Development and evaluation of a 50K Axiom SNP genotyping array for Norway spruce (Picea abies L. Karst). Molecular Ecology Resources, 2021, 21(3) 880-896(Co-first author).

• Chen, Z. Q., Zan, Y., Milesi, P., Zhou, L., Chen, J., Li, L., Cui, B. Bin, Niu, S., Westin, J., Karlsson, B., García-Gil, M. R., Lascoux, M., & Wu, H. X. (2021). Leveraging breeding programs and genomic data in Norway spruce (Picea abies L. Karst) for GWAS analysis. Genome Biology. https://doi.org/10.1186/s13059-021-02392-1

• Guo, Ying, Ou, J., Zan, Y, Wang, Y., Li, H., Zhu, C., Chen, K., Zhou, X., Hu, X., & Carlborg, Ö. (2021). Researching on the fine structure and admixture of the worldwide chicken population reveal connections between populations and important events in breeding history. Evolutionary Applications, eva.13241. https://doi.org/10.1111/eva.13241
• Ji, Y., Lehotai, N., Zan, Y, Dubreuil, C., Díaz, M. G., & Strand, Å. (2021). A fully assembled plastid‐encoded RNApolymerase complex detected in etioplasts and proplastids in Arabidopsis.** Physiologia Plantarum**, 171(3), 435–446. https://doi.org/10.1111/ppl.13256
• Wang, X., Liu, S., Zuo, H., Zheng, W., Zhang, S., Huang, Y., Pingcuo, G., Ying, H., Zhao, F., Li, Y., Liu, J., Yi, T. S., Zan, Y, Larkin, R. M., Deng, X., Zeng, X., & Xu, Q. (2021). Genomic basis of high-altitude adaptation in Tibetan Prunus fruit trees. Current Biology. https://doi.org/10.1016/j.cub.2021.06.062

2020

• Zan Y*, Carlborg Ö. Dissecting the Genetic Regulation of Yeast Growth Plasticity in Response to Environmental Changes, Genes, 2020, 11(11), 1279 (First and corresponding author, IF2017-2019=3.4).
• Zan Y*, Carlborg Ö. Dynamic genetic architecture of yeast response to environmental perturbation shed light on origin of cryptic genetic variation. PLoS Genet, 2020, 16(5): e1008801 (First and corresponding author).

2019

• Zan Y, Payen T, et al. Genotyping by low-coverage whole-genome sequencing in intercross pedigrees from outbred founders: a cost-efficient approach. Genetics Selection Evolution, 2019, 51(44), 1-11 .
• Zan Y, Carlborg Ö. A polygenic genetic architecture of flowering time in the worldwide Arabidopsis thaliana population. Molecular Biology and Evolution, 2019, 36 (1), 141-154.

2018

• Zan Y#, Forsberg S#, Carlborg Ö. On the relationship between high-order linkage disequilibrium and epistasis. G3 – Genes Genomes Genetics. 2018 Jul 31, 8(8):2817-2824 .
• Zan Y, Carlborg Ö. A multi-locus association analysis method integrating phenotype and expression data reveals multiple novel associations to flowering time variation in wild-collected Arabidopsis thaliana. Molecular Ecology Resources, 2018, 1, 1-11 .

2017

• Zan Y#, Sheng Z#, Lillie M et al. Artificial selection response due to polygenic adaptation from a multilocus, multiallelic genetic architecture. Molecular Biology and Evolution, 2017, 2, 7–10 (Co-first author).

2016

• Zan Y, Xia S, Forsberg SKG, et al. Genetic regulation of transcriptional variation in natural Arabidopsis thaliana accessions. G3 – Genes Genomes Genetics, 2016, 6(8): 2319-2328 .

Before 2016

• Zan Y, Ji Y, Zhang Y, et al. Genome-wide identification, characterization and expression analysis of populus leucine-rich repeat receptor-like protein kinase genes. BMC Genomics, 2013, 14(1): 318 .

More about our publications

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