PUBLICATION

Plant Genetics Lab

Google Scholar


SELECTED PUBLICATIONS

(*Corresponding author; #Co-first author)

7. Xuebo Zhao#, Yafei Guo#, Lipeng Kang, Changbin Yin, Aoyue Bi, Daxing Xu, Zhiliang Zhang, Zhang Jijin, Xiaohan Yang, Jun Xu, Song Xu, Xinyue Song, Ming Zhang, Yiwen Li, Philip Kear, Jing Wang, Zhiyong Liu, Xiangdong Fu, Fei Lu. Population genomics unravels the Holocene history of bread wheat and its relatives. Nature Plants. (2023).
doi:10.1038/s41477-023-01367-3

6. Yuanying Peng#,*, Honghai Yan#, Laichun Guo#, Cao Deng#, Chunlong Wang#, Yubo Wang#, Lipeng Kang, Pingping Zhou, Kaiquan Yu, Xiaolong Dong, Xiaomeng Liu, Zongyi Sun, Yun Peng, Jun Zhao, Di Deng, Yinghong Xu, Ying Li, Qiantao Jiang, Yan Li, Liming Wei, Jirui Wang, Jian Ma, Ming Hao, Wei Li, Houyang Kang, Zhengsong Peng, Dengcai Liu, Jizeng Jia, Youliang Zheng, Tao Ma*, Yuming Wei*, Fei Lu*, Changzhong Ren*. Reference genome assemblies reveal the origin and evolution of allohexaploid oat. Nature Genetics. (2022).
doi:10.1038/s41588-022-01127-7.

5. Yao Zhou#, Xuebo Zhao#, Yiwen Li, Jun Xu, Aoyue Bi, Lipeng Kang, Daxing Xu, Haofeng Chen, Ying Wang, Yuan-ge Wang, Sanyang Liu, Chengzhi Jiao, Hongfeng Lu, Jing Wang, Changbin Yin, Yuling Jiao*, F. Lu*. Triticum population sequencing provides insights into wheat adaptation. Nature Genetics. (2020).
doi:10.1038/s41588-020-00722-w.

4. Punna Ramu*, Williams Esuma, Robert Kawuki, Ismail Y Rabbi, Chiedozie Egesi, Jessen V Bredeson, Rebecca S Bart, Janu Verma, Edward S Buckler, Fei Lu*. Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation. Nature Genetics. (2017).
doi:10.1038/ng.3845

3. Wang J#, Xu J#, Yang X#, Xu S, Zhang M, Fei Lu*. Boosting the power of transcriptomics by developing an efficient gene expression profiling approach. Plant Biotechnol J. (2021).
doi:10.1111/PBI.13706

2. Fei Lu*, Maria C Romay, Jeff C Glaubitz, Peter J Bradbury, Rob J Elshire, Tianyu Wang, Yu Li, Yongxiang Li, Kassa Semagn, Xuecai Zhang, Alvaro G. Hernandez, Mark A. Mikel, Ilya Soifer, Omer Barad, Edward S Buckler*. High-resolution genetic mapping of maize pan-genome sequence anchors. Nature Communications. (2015).
doi: 10.1038/ncomms7914.

1. Lu F, Lipka AE, Elshire RJ, Glaubitz JC, Cherney JH, Casler MD, Buckler ES, Costich DE. Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol. PLoS Genetics. (2013).
https://doi.org/10.1371/journal.pgen.1003215 (Citation: 675 by 2022-07-14)


PREPRINTS

(*Corresponding author; #Co-first author)

10. Xinyou Cao#, Jijin Zhang#,*, Yafei Guo, Yuhong Huang, Beirui Niu, Xin Gao, Jun Xu, Danping Li, Lei Guo, Xiukun Liu, Zhiliang Zhang, Lipeng Kang, Xuebing Qiu, Haosheng Li, Jianjun Liu, Baoxue Shan, Xiaoyan Duan, Congyang Yi, Yang Liu, Meng Jin, Changbin Yin, Jing Wang, Zhendong Zhao*, Fei Lu. A high-quality bread wheat genome unravels adaptive evolution of wheat end-use quality. bioRxiv. (2025).
doi:10.1101/2025.07.27.667006

9. Zhiliang Zhang#, Jijin Zhang#, Lipeng Kang, Xuebing Qiu, Song Xu, Jun Xu, Yafei Guo, Zelin Niu, Beirui Niu, Aoyue Bi, Xuebo Zhao, Daxing Xu, Jing Wang, Changbin Yin, Fei Lu. Structural variation discovery in wheat using PacBio high-fidelity sequencing. bioRxiv. (2023).
doi:10.1101/2023.12.08.570887

8. Aoyue Bi#, Daxing Xu#, Lipeng Kang, Yafei Guo, Xinyue Song, Xuebo Zhao, Jijin Zhang, Zhiliang Zhang, Yiwen Li, Changbin Yin, Jing Wang, Fei Lu. An integrated map of genetic variation from 1,062 wheat genomes. bioRxiv. (2023).
doi:10.1101/2023.03.31.535022

7. Xuebo Zhao#, Yafei Guo#, Lipeng Kang, Aoyue Bi, Daxing Xu, Zhiliang Zhang, Zhang Jijin, Xiaohan Yang, Jun Xu, Song Xu, Xinyue Song, Ming Zhang, Yiwen Li, Philip Kear, Jing Wang, Changbin Yin, Zhiyong Liu, Xiangdong Fu, Fei Lu*. Population genomics unravels the Holocene history of Triticum-Aegilops species. bioRxiv. (2022).
doi:10.1101/2022.04.07.487499

6. Zhiliang Zhang#, Jijin Zhang#, Lipeng Kang, Xuebing Qiu, Beirui Niu, Aoyue Bi, Xuebo Zhao, Daxing Xu, Jing Wang, Changbin Yin, Xiangdong Fu, Fei Lu*. Genotyping of structural variation using PacBio high-fidelity sequencing. bioRxiv. (2021).
doi:10.1101/2021.10.28.466362

5. Yuanying Peng#, Honghai Yan#, Laichun Guo, Cao Deng, Lipeng Kang, Chunlong Wang, Pingping Zhou, Kaiquan Yu, Xiaolong Dong, Jun Zhao, Yun Peng, Xiaomeng Liu, Di Deng, Yinghong Xu, Ying Li, Qiantao Jiang, Yan Li, Liming Wei, Jirui Wang, Jian Ma, Ming Hao, Wei Li, Houyang Kang, Youliang Zheng, Tao Ma*, Yuming Wei*, Fei Lu*, Changzhong Ren*. Reference genome assemblies reveal the origin and evolution of allohexaploid oat. Research Square. (2021).
doi:10.21203/rs.3.rs-664692/v1

4. Xuebo Zhao, Xiangdong Fu, Changbin Yin*, Fei Lu*.Wheat Speciation and Adaptation: Perspectives from Reticulate Evolution. Preprints. (2021).
https://doi.org/10.1007/s42994-021-00047-0

3. Yao Zhou, Xuebo Zhao, Yiwen Li, Jun Xu, Aoyue Bi, Lipeng Kang, Haofeng Chen, Ying Wang, Yuan-ge Wang, Sanyang Liu, Chengzhi Jiao, Hongfeng Lu, Jing Wang, Changbin Yin, Yuling Jiao*, Fei Lu*, Convergence within divergence: insights of wheat adaptation from Triticum sequencing. bioRxiv. (2020).
doi:10.1101/2020.03.21.001362

2. Haofeng Chen, Chengzhi Jiao, Ying Wang, Yuange Wang, Caihuan Tian, Haopeng Yu, Jing Wang, Xiangfeng Wang, Fei Lu, Xiangdong Fu, Yongbiao Xue, Wenkai Jiang, Hongqing Ling, Hongfeng Lu, Yuling Jiao. Comparative Population Genomics of Bread Wheat (Triticum aestivum) Reveals Its Cultivation and Breeding History in China. bioRxiv. (2019).
doi:10.1101/519587

1. Punna Ramu*, Williams Esuma, Robert Kawuki, Ismail Y Rabbi, Chiedozie Egesi, Jessen V Bredeson, Rebecca S Bart, Janu Verma, Edward S Buckler, Fei Lu*. Cassava HapMap: Managing genetic load in a clonal crop species. bioRxiv. (2016).
doi:http://dx.doi.org/10.1101/077123


PEER-REVIEWED PUBLICATIONS

(*Corresponding author; #Co-first author)

49. Feilong Guo#, Changbin Yin#, Tian Li#, Sitong Liu, Jiayu Dong, Hao Jiang, Yu Fang, Jun Wei, Yi Han, Yu Li, Hong Cao, Yuting Ning, Galal Khamis, Xin Deng, Ke Wang, Jirui Wang, Cuijun Zhang, Fei Lu*, Yongxiu Liu*. Antagonistic effects of selection on alleles associated with seed size and seed dormancy in wheat. Genome Biology. (2025).
doi: 10.1186/S13059-025-03770-9

48. Bo Wei*, Yike Liu, Qilu Song, Fei Lu, Mingjie Lyu, Rui Chen, Jian Ma, Changbin Yin, Xiangqi Zhang, Yuling Jiao*. Natural variation in CHELATASE SUBUNIT I-A increases grain weight and enhances wheat yield. The Plant Cell. (2025).
doi: 10.1093/PLCELL/KOAF212

47. Yingjie Bian#, Jiayu Dong#, Lingli Li#, Dengan Xu#, Xiuling Tian, Yan Dong, Jianqi Zeng, Qiang Cao, Yachao Dong, Lina Xie, Bingyan Liu, Kejia Qu, Yuheng Chao, Rui Che, Jindong Liu, Yong Zhang, Xianchun Xia, Daojie Sun*, Fei Lu*, Zhonghu He*, Shuanghe Cao*. Genome-wide characterization and adaptive evolution of favorable gibberellin 2-oxidase alleles contributing to wheat agronomic traits. Journal of Advanced Research. (2025).
doi: 10.1016/J.JARE.2025.08.025

46. Kuocheng Shen#, Botao Ye#, Xuchang Yu#, Peng Shen, Rui Yu, Changbin Yin, Xiaowan Xu, Jing Dong, Ziying Wang, He Wu, Yiming Zang, Jiaxin Li, Yanchun Peng, Dejun Han, Zhonghu He, Xueyong Zhang, Junming Li, Chenyang Hao, Zhiliang Zhang, Lipeng Kang, Song Xu, Fei Lu, Yuanfeng Hao*, Tingting Wu*, Jianhui Wu*, Zifeng Guo*. Dissection of genomic drivers of spike morphology changes in wheat by high-throughput phenotyping. Cell Reports.(2025).
doi: 10.1016/j.celrep.2025.116120

45. Hang-yuan Cheng, Li-ping Jiang, Yue Fei, Fei Lu*, Shengwei Ma*. An annotated near-complete sequence assembly of the Magnaporthe oryzae 70-15 reference genome. Scientific Data.(2025).
doi: 10.1038/s41597-025-05116-3

44. Zijian Wang, Lingfeng Miao, Kaiwen Tan, Weilong Guo, Beibei Xin, Rudi Appels, Jizeng Jia, Jinsheng Lai, Fei Lu*, Zhongfu Ni*, Xiangdong Fu*, Qixin Sun*, Jian Chen*. Near-complete assembly and comprehensive annotation of the wheat Chinese Spring genome. Molecular Plant.(2025).
doi: 10.1016/j.molp.2025.02.002

43. Zhiliang Zhang#, Jijin Zhang#, Lipeng Kang, Xuebing Qiu, Song Xu, Jun Xu, Yafei Guo, Zelin Niu, Beirui Niu, Aoyue Bi, Xuebo Zhao, Daxing Xu, Jing Wang, Changbin Yin*, Fei Lu*. Structural variation discovery in wheat using PacBio high-fidelity sequencing. The Crop Journal.(2024).
doi: https://doi.org/10.1111/tpj.17011

42. Yongxing Chen, Huixin Xiao, Yuange Wang, Wenling Li, Lingchuan Li, Lingli Dong, Xuebo Zhao, Miaomiao Li, Ping Lu, Huaizhi Zhang, Guanghao Guo, Keyu Zhu, Beibei Li, Lei Dong, Peng Chen, Shuming Wu, Yunbo Jiang, Fei Lu, Chengguo Yuan, Zhiyong Liu, Yusheng Zhao, Qiuhong Wu*. WPA1 encodes a vWA domain protein that regulates wheat plant architecture. The Crop Journal.(2024).
doi: 10.1016/j.cj.2024.05.008

41. Yafei Guo, Lipeng Kang, Fei Lu*. Genetic Insights into Adaptation of Alfalfa. Molecular Plant. (2024).
doi: 10.1016/j.molp.2024.06.015

40. Botao Ye#, Yangyang Liu#, Ziying Wang#, Liping Shen, Changbin Yin, Kuocheng Shen, Jiaqiang Sun, Xiaowan Xu, Mengjing Sun, Jianhui Wu, Zhonghu He, Xuchang Yu, Fei Lu, Yuanfeng Hao, Zifeng Guo*. Genetic basis of geographical differentiation, breeding selection, domestication effects and breeding application for TaJAZ1 in wheat. Journal of Genetics and Genomics. (2024).
doi: 10.1016/j.jgg.2024.01.004

39. Xuelei Lin#, Yongxin Xu#, Dongzhi Wang#, Yiman Yang, Xiaoyu Zhang, Xiaomin Bie, Lixuan Gui, Zhongxu Chen, Yiliang Ding, Long Mao, Xueyong Zhang, Fei Lu, Xiansheng Zhang, Cristobal Uauy, Xiangdong Fu, Jun Xiao*. Systemic identification of wheat spike development regulators by integrated multi-omics, transcriptional network, GWAS and genetic analyses. Molecular Plant. (2024).
doi: 10.1016/j.molp.2024.01.010

38. Liping Shen#, Lili Zhang#, Changbin Yin#, Xiaowan Xu#, Yangyang Liu, Kuocheng Shen, He Wu, Zhiwen Sun, Ke Wang, Zhonghu He, Xueyong Zhang, Chenyang Hao, Jian Hou, Aoyue Bi, Xuebo Zhao, Daxing Xu, Botao Ye, Xuchang Yu, Ziying Wang, Danni Liu, Yuanfeng Hao*, Fei Lu*, Zifeng Guo*. The wheat sucrose synthase gene TaSus1 is a major determinant of grain number per spike. The Crop Journal. (2023).
doi: 10.1016/j.cj.2023.11.007

37. Yafei Guo, Fei Lu. The changing colour of carrot. Nature Plants. (2023).
doi: 10.1038/s41477-023-01523-9.

36. Yangyang Liu#, Jun Chen#, Changbin Yin#, Ziying Wang, He Wu, Kuocheng Shen, Zhiliang Zhang, Lipeng Kang, Song Xu, Aoyue Bi, Xuebo Zhao, Daxing Xu, Zhonghu He, Xueyong Zhang, Chenyang Hao, Jianhui Wu, Yan Gong, Xuchang Yu, Zhiwen Sun, Botao Ye, Danni Liu, Lili Zhang, Liping Shen, Yuanfeng Hao*, Youzhi Ma*, Fei Lu*, Zifeng Guo*. A High-Resolution Genotype–Phenotype Map Identifies the TaSPL17 Controlling Grain Number and Size in Wheat. Genome Biology. (2023).
doi: 10.1186/s13059-023-02932-x.

35. Xuebo Zhao, Yafei Guo, Fei Lu*. Reply to: Where Was Wheat Domesticated?. Nature Plants. (2023).
doi: 10.1038/s41477-023-01468-z.

34. Haoxu Gao, Jianxin Bian, Fei Lu, Yuling Jiao*, Hang He*. Triticeae Crop Genome Biology: An Endless Frontier. Frontiers in Plant Science. (2023).
doi: 10.3389/FPLS.2023.1222681/BIBTEX.

33. Yangyang Liu#, Kuocheng Shen#, Changbin Yin#, Xiaowan Xu#, Xuchang Yu, Botao Ye, Zhiwen Sun, Jiayu Dong, Aoyue Bi, Xuebo Zhao, Daxing Xu, Zhonghu He, Xueyong Zhang, Chenyang Hao, Jianhui Wu6, Ziying Wang, He Wu, Danni Liu, Lili Zhang, Liping Shen, Yuanfeng Hao*, Fei Lu*, Zifeng Guo*. Genetic basis of geographical differentiation and breeding selection for wheat plant architecture traits. Genome Biology. (2023).
doi:10.1186/s13059-023-02932-x

32. Xuebo Zhao#, Yafei Guo#, Lipeng Kang, Changbin Yin, Aoyue Bi, Daxing Xu, Zhiliang Zhang, Zhang Jijin, Xiaohan Yang, Jun Xu, Song Xu, Xinyue Song, Ming Zhang, Yiwen Li, Philip Kear, Jing Wang, Zhiyong Liu, Xiangdong Fu, Fei Lu. Population genomics unravels the Holocene history of bread wheat and its relatives. Nature Plants. (2023).
doi:10.1038/s41477-023-01367-3

31. Hao Jiang#, Yu Fang#, Dong Yan, Si-tong Liu, Jun Wei, Fei-long Guo, Xing-ting Wu, Hong Cao, Chang-bin Yin, Fei Lu, Li-feng Gao*, Yong-xiu Liu*. (2022). Genome-wide association study reveals a NAC transcription factor TaNAC074 linked to pre-harvest sprouting tolerance in wheat. Theor. Appl. Genet. (2022).
doi:10.1007/s00122-022-04184-y.

30. Jun Xiao*, Bao Liu, Yingyin Yao, Zifeng Guo, Haiyan Jia, Lingrang Kong, Aimin Zhang, Wujun Ma, Zhongfu Ni, Shengbao Xu, Fei Lu, Yuannian Jiao, Wuyun Yang, Xuelei Lin, Silong Sun, Zefu Lu, Lifeng Gao, Guangyao Zhao, Shuanghe Cao, Qian Chen, Kunpu Zhang, Mengcheng Wang, Meng Wang, Zhaorong Hu, Weilong Guo, Guoqiang Li, Xin Ma, Junming Li, Fangpu Han, Xiangdong Fu, Zhengqiang Ma, Daowen Wang*, Xueyong Zhang*, Hong-Qing Ling*, Guangmin Xia*, Yiping Tong*, Zhiyong Liu*, Zhonghu He*, Jizeng Jia*, Kang Chong*. Wheat genomic study for genetic improvement of traits in China. Sci. China Life Sci. (2022).
doi:10.1007/s11427-022-2178-7.

29. Yuanying Peng#,*, Honghai Yan#, Laichun Guo#, Cao Deng#, Chunlong Wang#, Yubo Wang#, Lipeng Kang, Pingping Zhou, Kaiquan Yu, Xiaolong Dong, Xiaomeng Liu, Zongyi Sun, Yun Peng, Jun Zhao, Di Deng, Yinghong Xu, Ying Li, Qiantao Jiang, Yan Li, Liming Wei, Jirui Wang, Jian Ma, Ming Hao, Wei Li, Houyang Kang, Zhengsong Peng, Dengcai Liu, Jizeng Jia, Youliang Zheng, Tao Ma*, Yuming Wei*, Fei Lu*, Changzhong Ren*. Reference genome assemblies reveal the origin and evolution of allohexaploid oat. Nature Genetics. (2022).
doi:10.1038/s41588-022-01127-7.

28. Yuange Wang#, Fei Du#, Jian Wang, Ke Wang, Caihuan Tian, Xiaoquan Qi, Fei Lu, Xigang Liu, Xingguo Ye, and Yuling Jiao*. Improving bread wheat yield through modulating an unselected AP2/ERF gene. Nature Plants. (2022).
doi:10.1038/s41477-022-01197-9.

27. Xiaofei Yang, Haopeng Yu, Wenqing Sun, Ling Ding, Ji Li, Jitender Cheema, Ricardo Ramirez-Gonzalez, Xuebo Zhao, Azahara C. Martín, Fei Lu, Bao Liu, Cristobal Uauy, Yiliang Ding*, Huakun Zhang*. Wheat in vivo RNA structure landscape reveals a prevalent role of RNA structure in modulating translational subgenome expression asymmetry. Genome Biology. (2021).
doi: 10.1186/s13059-021-02549-y

26. Xiao Zhang*, Yonghui Zhu, Karl A. G. Kremling, M. Cinta Romay, Robert Bukowski, Qi Sun, Shibin Gao, Edward S. Buckler*, Fei Lu*. Genome‑wide analysis of deletions in maize population reveals abundant genetic diversity and functional impact. Theor. Appl. Genet. (2021).
doi:10.1007/s00122-021-03965-1

25. Jing Wang, Jun Xu, Xiaohan Yang, Song Xu, Ming Zhang, Fei Lu*. Boosting the power of transcriptomics by developing an efficient gene expression profiling approach. Plant Biotechnol Jounrnal (2021)
doi:10.1111/PBI.13706

24. Xuebo Zhao, Xiangdong Fu, Changbin Yin*, Fei Lu*. Wheat Speciation and Adaptation: Perspectives from Reticulate Evolution. aBiotech. (2021)
doi:10.1007/s42994-021-00047-0

23. Huijie Zhai, Congcong Jiang, Yue Zhao, Shuling Yang, Yiwen Li, Kunfang Yan, Shuyu Wu, Bingke Luo, Yi Du, Huaibing Jin, Xin Liu, Yanbin Zhang, Fei Lu, Wenjing Hu, Jiangchun Wang, Haitao Gao, Guihong Yin, Kunpu Zhang*, Guangwei Li*, Daowen Wang*. Wheat heat tolerance is impaired by heightened deletions in the distal end of 4AL chromosomal arm. Plant Biotechnol. J. (2020).
doi: https://doi.org/10.1111/pbi.13529

22. Yao Zhou#, Xuebo Zhao#, Yiwen Li, Jun Xu, Aoyue Bi, Lipeng Kang, Daxing Xu, Haofeng Chen, Ying Wang, Yuan-ge Wang, Sanyang Liu, Chengzhi Jiao, Hongfeng Lu, Jing Wang, Changbin Yin, Yuling Jiao*, Fei Lu*. Triticum sequencing provides insights into wheat adaptation. Nature Genetics. (2020).
doi:10.1038/s41588-020-00722-w

21. Chunzhi Zhang, Pei Wang, Die Tang, Zhongmin Yang, Fei Lu, Jianjian Qi, Nilesh R. Tawari, Yi Shang, Canhui Li & Sanwen Huang. The genetic basis of inbreeding depression in potato. Nature Genetics. (2019).
doi:10.1038/s41588-018-0319-1

20. Qun Lian, Die Tang, Zhiyan Bai, Jianjian Qi, Fei Lu, Sanwen Huang, Chunzhi Zhang*. Acquisition of deleterious mutations during potato polyploidization. J Integr Plant Biol. (2019).
https://doi.org/10.1111/jipb.12748

19. Springer Nathan M., Anderson Sarah N., Andorf Carson M., Ahern Kevin R., Bai Fang, Barad Omer, Barbazuk W. Brad, Bass Hank W., Baruch Kobi, Ben-Zvi Gil, Buckler Edward S., Bukowski Robert, Campbell Michael S., Cannon Ethalinda K. S., Chomet Paul, Dawe R. Kelly, Davenport Ruth, Dooner Hugo K., Du Limei He, Du Chunguang, Easterling Katherine A., Gault Christine, Guan Jiahn-Chou, Hunter Charles T., Jander Georg, Jiao Yinping, Koch Karen E., Kol Guy, Köllner Tobias G., Kudo Toru, Li Qing, Lu Fei, Mayfield-Jones Dustin, Mei Wenbin, McCarty Donald R., Noshay Jaclyn M., Portwood John L., Ronen Gil, Settles A. Mark, Shem-Tov Doron, Shi Jinghua, Soifer, Ilya, Stein Joshua C., Stitzer Michelle C., Suzuki Masaharu, Vera Daniel L., Vollbrecht Erik, Vrebalov Julia T., Ware Doreen, Wei Sharon, Wimalanathan, Kokulapalan, Woodhouse Margaret R., Xiong Wenwei, Brutnell Thomas P. The maize W22 genome provides a foundation for functional genomics and transposon biology. Nature Genetics. (2018).
doi:10.1038/s41588-018-0158-0

18. Sun Silong, Zhou Yingsi, Chen Jian, Shi Junpeng, Zhao Haiming, Zhao Hainan, Song Weibin, Zhang Mei, Cui Yang, Dong Xiaomei, Liu Han, Ma Xuxu, Jiao Yinping, Wang Bo, Wei Xuehong, Stein Joshua C., Glaubitz Jeff C., Lu Fei, Yu Guoliang, Liang Chengzhi, Fengler Kevin, Li Bailin, Rafalski Antoni, Schnable Patrick S., Ware Doreen H., Buckler Edward S., Lai Jinsheng. Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nature Genetics. (2018).
doi:10.1038/s41588-018-0182

17. Karl A. G. Kremling, Shu-Yun Chen, Mei-Hsiu Su, Nicholas K. Lepak, M. Cinta Romay, Kelly L. Swarts, Fei Lu, Anne Lorant, Peter J. Bradbury & Edward S. Buckler. Dysregulation of expression correlates with rare-allele burden and fitness loss in maize. Nature. (2018).
doi:10.1038/nature25966

16. Punna Ramu*, Williams Esuma, Robert Kawuki, Ismail Y Rabbi, Chiedozie Egesi, Jessen V Bredeson, Rebecca S Bart, Janu Verma, Edward S Buckler, Fei Lu*. Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation. Nature Genetics. (2017).
doi: https://doi.org/10.1038/ng.3845

15. Candice N. Hirsch, Cory D. Hirsch, Alex B. Brohammer, Megan J. Bowman, Ilya Soifer, Omer Barad, Doron Shem-Tov, Kobi Baruch, Fei Lu, Alvaro G. Hernandez, Christopher J. Fields, Chris L. Wright, Klaus Koehler, Nathan Springer, Edward Buckler, C. Robin Buell, Natalia de Leon, Shawn M. Kaeppler, Kevin L. Childs, Mark Mikel. Draft Assembly of Elite Inbred Line PH207 Provides Insights into Genomic and Transcriptome Diversity in Maize. The Plant Cell. (2016).
doi: https://doi.org/10.1105/tpc.16.00353

14. Williams Esuma, Liezel Herselman, Maryke Tine Labuschagne, Punna Ramu, Fei Lu, Yona Baguma, Edward S. Buckler, Robert Sezi Kawuki. Genome-wide association mapping of provitamin A carotenoid content in cassava. Euphytica. (2016).
doi: 10.1007/s10681-016-1772-5

13. Li, Y.-x., Li, C., Bradbury, P. J., Liu, X., Fei Lu, Romay, M. C., Glaubitz, J. C., Wu, X., Peng, B., Shi, Y., Song, Y., Zhang, D., Buckler, E. S., Zhang, Z., Li, Y. and Wang, T. Identification of genetic variants associated with maize flowering time using an extremely large multi-genetic background population. Plant Journal (2016).
doi: 10.1111/tpj.13174

12. Fei Lu*, Maria C Romay, Jeff C Glaubitz, Peter J Bradbury, Rob J Elshire, Tianyu Wang, Yu Li, Yongxiang Li, Kassa Semagn, Xuecai Zhang, Alvaro G. Hernandez, Mark A. Mikel, Ilya Soifer, Omer Barad, Edward S Buckler*. High-resolution genetic mapping of maize pan-genome sequence anchors. Nature Communications. (2015).
doi: https://doi.org/10.1038/ncomms7914

11. Guillaume P. Ramstein, Alexander E. Lipka, Fei Lu, Denise E. Costich, Jerome H. Cherney, Edward S. Buckler and Michael D. Casler. Genome-Wide Association Study Based on Multiple Imputation with Low-Depth Sequencing Data: Application to Biofuel Traits in Reed Canarygrass. G3: Genes | Genomes | Genetics. (2015).
doi: 10.1534/g3.115.017533

10. Glaubitz JC, Casstevens TM, Fei Lu, Harriman J, Elshire RJ, Sun Q, Buckler ES. TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline. PLoS ONE. (2014).
doi: https://doi.org/10.1371/journal.pone.0090346

9. Lipka AE, Fei Lu, Cherney JH, Buckler ES, Casler MD, and Costich DE. Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol. PLoS ONE. (2014).
doi: 10.1371/journal.pone.0112227

8. Fei Lu, Lipka AE, Elshire RJ, Glaubitz JC, Cherney JH, Casler MD, Buckler ES, Costich DE. Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol. PLoS Genetics. (2013).
doi: https://doi.org/10.1371/journal.pgen.1003215

7. Abhijit Sanyal#, Ammiraju S.S.Jetty#, Fei Lu#, Yeisoo Yu Teri Rambo, Jennifer Currie, Kristi Kollura, Hye-Ran Kim, Jinfeng Chen, Jianxin Ma, Phillip San Miguel, Mingsheng Chen, Rod A. Wing and Scott A. Jackson. Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryza species and disruptions to microsynteny in sorghum. MOL BIOL EVOL. (2010).
doi: https://doi.org/10.1093/molbev/msq133

6. Jetty S.S. Ammiraju, Chuanzhu Fan, Yeisoo Yu, Xiang Song, Karen A. Cranston, Ana Clara Pontaroli, Fei Lu, Abhijit Sanyal, Ning Jiang, Teri Rambo, Jennifer Currie, Kristi Collura, Jayson Talag, Jeffrey L. Bennetzen, Mingsheng Chen, Scott Jackson, Rod A. Wing. Spatio-temporal patterns of genome evolution in allotetraploid species of the genus Oryza. The Plant Journal. (2010).
doi: 10.1111/j.1365-313X.2010.04251.x.

5. Fei Lu#, Ammiraju, J. S.#, Sanyal, A.#, Zhang, S.#, Song, R., Chen, J.#, Li, G., Sui, Y., Song, X., Cheng, Z., de Oliveira, A. C., Bennetzen, J. L.,Jackson, S., Wing, R. A., and Chen, M. Comparative sequence analysis of the MONOCULM1 orthologous regions in fourteen Oryza genomes. Proc Natl Acad Sci USA. (2009).
doi: 10.1073/pnas.0812798106.

4. Ammiraju, J. S.#, Fei Lu#, Sanyal, A.#, Yu, Y., Song, X., Jiang, N., Pontaroli, A. C., Rambo, T., Currie, J., Collura, K., Talag, J., Fan, C., Goicoechea, J. L., Zuccolo, A., Chen, J., Bennetzen, J. L., Chen, M., Jackson, S., and Wing, R. A. Dynamic Evolution of Oryza Genomes Is Revealed by Comparative Genomic Analysis of a Genus-Wide Vertical Data Set. The Plant Cell. (2008).
doi: https://doi.org/10.1105/tpc.108.063727.

3. Lukas A. Mueller, René Klein Lankhorst, Steven D. Tanksley, James J. Giovannoni, Ruth White, Julia Vrebalov, Zhangjun Fei, Joyce van Eck, Robert Buels, Adri A. Mills, Naama Menda, Isaak Y. Tecle, Aureliano Bombarely, Stephen Stack, Suzanne M. Royer, Song-Bin Chang, Lindsay A. Shearer, Byung Dong Kim, Sung-Hwan Jo, Cheol-Goo Hur, Doil Choi, Chang-Bao Li, Jiuhai Zhao, Hongling Jiang, Yu Geng, Yuanyuan Dai, Huajie Fan, Jinfeng Chen, Fei Lu, et al. A Snapshot of the Emerging Tomato Genome Sequence. The Plant Genome. (2008).
doi: https://doi.org/10.3835/plantgenome2008.08.0005

2. Li C-B, Zhao JH, Jiang HL, Geng Y, Dai YY, Fan HJ, Zhang DF, Chen JF, Fei Lu, Shi JF, Sun SH, Chen JJ, Yan XH, Lu C, Chen MS, Cheng ZK, Ling HQ, Wang Y, Xue YB, Li C. A snapshot of the Chinese SOL Project. Journal of Genomics and Genetics. (2008).
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