For easier access to data resources from our previously published articles, we have uploaded key datasets to figshare. Readers with any data-related inquiries are welcome to contact the corresponding author directly at lfgu@fafu.edu.cn.
2026年
(48) Zhang, Zeyu, Lin Wu, Deming Yang, Tian Hua, Yingjie Yan, Jun Zhang, Huiyuan Wang et al. Epigenomic reprogramming underlies internodal developmental heterogeneity in rapidly elongating bamboo shoots. Plant Physiology (2026): kiag131. 
2026-kiag131.pdf
(47) Xu, Huichang, Longhui You, Jinlin Yu, Sen Nie, Hangxiao Zhang, Gongfu Ye, and Lianfeng Gu. From resistance screening to biomarker discovery: the α-linolenic acid-phenylpropanoid pathway as defence indicator against Lymantria xylina in Casuarina equisetifolia. Tree Physiology (2026): tpag008. 2026-TP.pdf
(46) Zhang, Zeyu, Zuoling Ma, Tian Hua, Xuqing Liu, Shengcai Xiang, and Lianfeng Gu. OmicsCanvas: A multi-omics platform for integration and visualization of epigenetic regulation. Journal of Integrative Plant Biology (2026). 2026-JIPB.pdf
2025年
(45) Lin Wu, Yuying Gu, Hongjue Guo, Jun Zhang, Jun Yang, Mengying Zhang, Huihui Wang, Liangzhen Zhao, Hangxiao Zhang, Lianfeng Gu*. (2025). BaMV-vectored compact AsCas12f1-HKRA enables transgene-free genome editing in Moso bamboo (Phyllostachys edulis), Plant Biotechnology Journal, DOI: 10.1111/pbi.70474. 2025-Plant Biotechnology Journal.pdf
(44) Xiangrong Li, Lin Wu, Huihui Wang, Jun Zhang, Xiaoxia Jing, Zeyu Zhang, Yuhua Wang, Huiyuan Wang, Wenbiao Liu, Ruxue Wang, Liangzhen Zhao, Hangxiao Zhang, Lianfeng Gu*. (2025). N6-methyladenosine and poly(A) tail-mediated posttranscriptional regulation in bamboo mosaic virus–Dendrocalamus latiflorus interactions. Plant Journal. e70604 2025-PJ-BaMV-bamboo.pdf
(43) Yuhua Wang, Jun Zhang, Mengna Zhao, Xiaoyu Liu, Mingzhe Wang, Wenwen Zhong, Jiajie Yang, Tian Hua, Shengcai Xiang, Liangzhen Zhao, Yaxin Zhang* and Lianfeng Gu*. (2025). Identification and Evolution of Exon Junction Complex Core Genes and Expression Profiles in Moso Bamboo. Forests. 16, no. 12: 1822. 2025-forests-16-01822.pdf
(42) Huihui Wang, Huiyuan Wang, Yue Jia, Tuhe Li, Siyu Yang, Yandong Jin, Zaofa Zhong, Wenting Bai, Huakun Zheng, Liangzhen Zhao, Chentao Lin, Anireddy S N Reddy, Hangxiao Zhang, Lianfeng Gu*. (2025). HyperTRIBE mapping of the RNA m6A demethylase ALKBH9 binding sites in bamboo reveals its role in plant defense. Plant Physiology. kiaf457, kiaf457.pdf
(41) Ziqi Liu, Xiaomeng Fan, Xuqing Liu, Zeyu Zhang, Xiangrong Li, Yingjie Yan, Shengcai Xiang, Xiaoqi Zhang, Tingting Lu, Siyu Lu, Dengcan Liu, Tian Hua, Mengna Zhao, Jun Zhang, Hangxiao Zhang, Lianfeng Gu*. (2025). Overexpression of the ABA-responsive transcription factor PtrMYBH alters shoot apical meristem, xylem, root, and leaf development in Populus. Plant Journal. 123, e70337 2025-PJ-MYBH.pdf
(40) Lin Wu, Jun Yang, Yuying Gu, Qianyi Wang, Zeyu Zhang, Hongjue Guo, Liangzhen Zhao, Hangxiao Zhang and Lianfeng Gu*. (2025). Bamboo mosaic virus-mediated transgene-free genome editing in bamboo. New Phytologist. 245(5), 1810-1816 New Phytologist Wu et al.pdf
(39) Huihui Wang, Huiyuan Wang, Yue Jia, Xiaoxia Jin, Hongwei Wu, Siyu Yang, Liangzhen Zhao, Hangxiao Zhang, Lianfeng Gu*. (2025). The RNA m6A Methyltransferase PheMTA1 and PheMTA2 of Moso Bamboo Regulate Root Development and Resistance to Salt Stress in Plant. Plant, Cell & Environment. 48(7), 5184-5197. 2025-Plant-Cell-Environment.pdf
(38) Huihui Wang, Huiyuan Wang, Hongwei Wu, Kanrui Lou, Xiaoxia Jin, Meixuan Tang, Zixuan Wang, Liangzhen Zhao, Lianfeng Gu*, Hangxiao Zhang*. (2025) Transcriptome-wide m6A modification and poly(A) tail length changes in moso bamboo induced by gibberellin revealed by nanopore direct RNA sequencing . Industrial Crops and Products 225 (2025): 120549. 2025-1-s2.0-S0926669025000950-main.pdf
2024年
(37) Jundong Rong, Yushan Zheng*, Zeyu Zhang, Jun Zhang, Yuying Gu, Tian Hua, Mengna Zhao, Lili Fan, Zhiwen Deng, Yanmei Pan, Bingjun Li, Liguang Chen, Tianyou He, Lingyan Chen, Jing Ye, Hangxiao Zhang, Lianfeng Gu*. (2024). De novoWhole-Genome Assembly of the 10-Gigabase Fokienia HodginsiiGenome to Reveal Differential Epigenetic Events Between Callus and Xylem. Advanced Science, 2402644. 2024-Fokienia-Hodginsii.pdf
The genome assembly and annotation were uploaded to figshare:https://doi.org/10.6084/m9.figshare.26064412.v1
(36) Jutang Jiang, Zeyu Zhang, Yucong Bai, Xiaojing Wang, Yuping Dou, Ruiman Geng, Chongyang Wu, Hangxiao Zhang, Cunfu Lu, Lianfeng Gu*, Jian Gao* (2024). Chromosomal‐level genome and metabolome analyses of highly heterozygous allohexaploid Dendrocalamus brandisiielucidate shoot quality and developmental characteristics. Journal of Integrative Plant Biology. 66(6), 1087-1105. 2024-JIPB-Dendrocalamus.pdf
The assembled genome andthe annotation files were uploaded to figshare with DOI:10.6084/m9.figshare.24455197.
(35) Jun Zhang, Lin Wu, Lele Mu, Yuhua Wang, Mengna Zhao, Huiyuan Wang, Xiangrong Li, Liangzhen Zhao, Chentao Lin, Hangxiao Zhang, Lianfeng Gu*. (2024). Evolution and post-transcriptional regulation insights of m6A writers, erasers, and readers in plant epitranscriptome. The Plant Journal, 120(2), 505-525. 2024-PJ-m6A-100034881.pdf
(34) Chuanyu Zhang, Haohao Tang, Tuhe Li, Hongwei Wu, Yuying Gu, Jun Zhang, Zeyu Zhang, Liangzhen Zhao, Yaxing Li*, Lianfeng Gu*,and Hangxiao Zhang*. (2024). Integrating Physiological Features and Proteomic Analyses Provides New Insights in Blue/Red Light-Treated Moso Bamboo (Phyllostachys edulis). Journal of Agricultural and Food Chemistry. Agric. Food Chem. 2024, 72, 22, 12859–12870. 2024-proteomic-blue-red-light.pdf
2023年
(33) Yandong Jin; Baijie Wang; Mingchuan Bao; Yujie Li; Shengwu Xiao; Yuhua Wang; Jun Zhang; Liangzhen Zhao; Hangxiao Zhang; Yau-Heiu Hsu; Mingjie Li; Lianfeng Gu. (2023). Development of an efficient expression system with large cargo capacity for interrogation of gene function in bamboo based on bamboo mosaic virus, Journal of Integrative Plant Biology, 65(6): 1369-1382 2023-jipb13468.pdf
(32) Yuxiang Liufu, Feihu Xi, Lin Wu, Zeyu Zhang, Huihui Wang, Huiyuan Wang, Jun Zhang, Baijie Wang, Wenjing Kou, Jian Gao, Liangzhen Zhao, Hangxiao Zhang, Lianfeng Gu.(2023). Inhibition of DNA and RNA methylation disturbs root development of moso bamboo. Tree Physiology, 43(9), pp.1653-1674. 2023-tpad074.pdf
(31) Yongsheng Wang; Huihui Wang; Huiyuan Wang; Ruifan Zhou; Ji Wu; Zekun Zhang; Yandong Jin; Tao Li; Markus V. Kohnen; Xuqing Liu; Wentao Wei; Kai Chen; Yubang Gao; Jiazhi Ding; Hangxiao Zhang; Bo Liu; Chentao Lin; Lianfeng Gu. (2023). Multi-omics of circular RNAs and their responses to hormones in Moso bamboo (Phyllostachys edulis), Genomics, Proteomics & Bioinformatics, 0(0): doi: 10.1016/j.gpb.2023.01.007 2023-GPB-hormone_Phyllostachys_edulis_.pdf
(30) Yong Zhang; Yongcheng Wei; Jingxiang Meng; Yujiao Wang; Sen Nie; Zeyu Zhang; Huiyuan Wang; Yongkang Yang; Yubang Gao; Ji Wu; Tuhe Li; Xuqing Liu; Hangxiao Zhang; Lianfeng Gu. (2023) Chromosome-scale de novo genome assembly and annotation of three representative Casuarina species: C. equisetifolia, C. glauca, and C. cunninghamiana. Plant Journal. 114(6), pp.1490-1505. 2023-PJ-Applet_2023-5-4_168319538438044.pdf We have deposited the complete genome assemblies and corresponding annotation files for C. equisetifolia, C. glauca, and C. cunninghamiana on figshare: https://figshare.com/articles/dataset/Chromosome-scale_de_novo_genome_assembly_andannotation_of_three_representative_Casuarina_species_C_equisetifolia_C_glauca_and_C_cunninghamiana/24411997
(29) Jiakai Liao, Ban Deng, Qixin Yang, Yu Li, Yuxiang Zhang, Jiajing Cong, Xiaqin Wang, Markus V. Kohnen, Zhong-Jian Liu, Meng-Zhu Lu, Deshu Lin, Lianfeng Gu,Bobin Liu, (2023). Insights into Cryptochrome Modulation of ABA Signaling to Mediate Dormancy Regulation in Marchantia polymorpha. New Phytologist. 238(4), 1479-1497. 2023-NP.pdf
(28) Xi, Feihu, Zeyu Zhang, Lin Wu, Baijie Wang, Pengfei Gao, Kai Chen, Liangzhen Zhao, Jian Gao, Lianfeng Gu, and Hangxiao Zhang. Insight into gene expression associated with DNA methylation and small RNA in the rhizome-root system of Moso bamboo. International Journal of Biological Macromolecules248 (2023): 125921. 2023-IJBM.pdf
2022年
(27) Tao Li; Huihui Wang; Yaxin Zhang; Huiyuan Wang; Zeyu Zhang; Xuqing Liu; Zekun Zhang; Kai Liu; Deming Yang; Hangxiao Zhang; Lianfeng Gu. (2022). Comprehensive profiling of epigenetic modifications in fast-growing moso bamboo shoots, Plant Physiology, 191(2): 1017-1035 2022-kiac525.pdf
(26) Yubang Gao; Xuqing Liu; Yandong Jin; Ji Wu; Shuang Li; Yaxing Li; Binqing Chen; Yaxin Zhang; Linxiao Wei; Wei Li; Ruili Li; Chentao Lin; Anireddy S N Reddy; Pankaj Jaiswal; Lianfeng Gu. (2022). Drought induces epitranscriptome and proteome changes in stem-differentiating xylem of Populus trichocarpa, Plant Physiology, 19(1): 459-479 2022-kiac272.pdf
(25) Yushan Zheng; Deming Yang; Jundong Rong1; Liguang Chen; Qiang Zhu; Tianyou He; Lingyan Chen; Jing Ye; Lili Fan; Yubang Gao; Hangxiao Zhang; Lianfeng Gu. (2022). Allele-aware chromosome-scale assembly of the allopolyploid genome of hexaploid Ma Bamboo (Dendrocalamus latiflorusMunro), Journal of Integrative Plant Biology, 64(3): 649-670 2022-JIPB-Ma_bamboo .pdf The resourcesare available at the following link:
https://figshare.com/articles/dataset/Allele_aware_chromosome_scale_assembly_of_theallopolyploid_genome_of_hexaploid_Ma_bamboo_Dendrocalamus_latiflorus_Munro_/24411913
(24) Zekun Zhang; Huiyuan Wang; Ji Wu; Yandong Jin; Shengwu Xiao; Tao Li; Xuqinq Liu; Hangxiao Zhang; Zeyu Zhang; Jun Su; Jingzao Liu; Xiaoyan Wang; Yubang Gao; Xiangqing Ma; Lianfeng Gu. (2022). Comprehensive Transcriptome Analysis of Stem-Differentiating Xylem Upon Compression Stress in Cunninghamia Lanceolata. Frontiers in Genetics, 87. 2022-fgene-13-843269.pdf
(23) Yaxing Zhang, Jun Zhang, Deming Yang, Yandong Jin, Xuqing Liu, Zeyu Zhang, Lianfeng Gu, Hangxiao Zhang, 2022. Genome-wide identification of NAP1 and function analysis in moso bamboo (Phyllostachys edulis). International Journal of Molecular Sciences. 23(12), 6491 2022-ijms-23-06491.pdf
(22) Liufu, Y., Liu, X., Wu, L., Zhang, H., Gao, Y. and Gu, L. (2022). An Analysis Pipeline for Identification of RNA Modification, Alternative Splicing and Polyadenylation Using Third Generation Sequencing. Bio-101: e4433. DOI: 10.21769/BioProtoc.4433. 2022-Bio-protocol4433.pdf
(21) Wentao Wei; Huiyuan Wang; Xuqing Liu; Wenjing Kou; Ziqi Liu; Huihui Wang; Yongkang Yang; Liangzhen Zhao; Hangxiao Zhang; Bo Liu; Xiangqing Ma; Lianfeng Gu.(2022). Transcriptome Profiling of Stem-Differentiating Xylem in Response to Abiotic Stresses Based on Hybrid Sequencing in Cunninghamia lanceolata. IJMS, 23(22), 13986. 2022-11-12-ijms-23-13986.pdf
2021年
(20) Yubang Gao; Xuqing Liu; Bizhi Wu; Huihui Wang; Feihu Xi; Markus V. Kohnen; Anireddy S. N. Reddy; Lianfeng Gu. (2021). Quantitative profiling of N6-methyladenosine at single-base resolution in stem-differentiating xylem of Populus trichocarpa using Nanopore direct RNA sequencing, Genome Biology, 22(1): 1-17 2021-GB.pdf
(19) Kai Chen; Kaiqiang Hu; Feihu Xi; Huihui Wang; Markus Kohnen; Pengfei Gao; Jiakai Liao; Wentao W; Xuqing Liu; Hangxiao Zhang; Lianfeng Gu. (2021). High-Efficient and Transient Transformation of Moso Bamboo (Phyllostachys edulis) and Ma Bamboo (Dendrocalamus latiflorusMunro), Journal of Plant Biology, 66: 75-86 2021-JPB.pdf
(18) Zeyu Zhang; Huihui Wang; Yongsheng Wang; Feihu Xi; Huiyuan Wang; Markus V. Kohnen; Pengfei Gao; Wentao Wei; Kai Chen; Xuqing Liu; Yubang Gao; Ximei Han; Kaiqiang Hu; Hangxiao Zhang; Qiang Zhu; Yushan Zheng; Bo Liu; Ayaz Ahmad; Yau‐Heiu Hsu; Steven E. Jacobsen; Lianfeng Gu. (2021). Whole genome characterization of chronological age-associated changes in methylome and circular RNAs in moso bamboo (Phyllostachys edulis) from vegetative to floral growth, The plant journal, 106(2): 435-453 2021-PJ-16999030.pdf
(17) Xuqing Liu; Yubang Gao; Jiakai Liao; Miao Miao; Kai Chen; Feihu Xi; Wentao Wei; Zhuihu Wang; Yongsheng Wang; Xi Xu; Anireddy S.N. Reddy; Lianfeng Gu. (2021). Genome-wide profiling of circular RNAs, alternative splicing, and R-loops in stem-differentiating xylem of Populus trichocarpa, Journal of Integrative Plant Biology, 63(7): 1294-1308 2021-jipb13081.pdf
(16) Jian Wang, Bizhi Wu, Markus V. Kohnen, Daqi Lin,Changcai Yang,Xiaowei Wang,Ailing Qiang, Wei Liu,Jianbin Kang, Hua Li,Jing Shen,Tianhao Yao, Jun Su*,Bangyu Li*,and Lianfeng Gu. (2021). Classification of Rice Yield Using UAV-Based Hyperspectral Imagery and Lodging Feature, Plant Phenomics, DOI: 10.34133/2021/9765952 2021-PlantPhenomics-9765952.pdf
(15) Huiyuan Wang, Sheng Liu, Xiufang Dai, Yongkang Yang, Yunjun Luo, Yubang Gao, Xuqing Liu, Wentao Wei, Huihui Wang, Xi Xu, Anireddy S. Reddy, Pankaj Jaiswal, Wei Li, Bo Liu and Lianfeng Gu (2021). PSDX: A comprehensive multi-omics association database of Populus trichocarpa with a focus on the secondary growth in response to stresses Front. Plant Sci. | doi: 10.3389/fpls.2021.655565 2021-fpls-12-655565.pdf
(14) Wang, Xu , Bochen Jiang, Lianfeng Gu,Yadi Chen, Manuel Mora, Mulangma Zhu, Eliace Noory, Qin Wang, and Chentao Lin. A photoregulatory mechanism of the circadian clock in Arabidopsis. Nature Plants 7, no. 10 (2021): 1397-1408. 2021-Nature_plant.pdf
2020年
(13) Yongsheng Wang; Huihui Wang; Feihu Xi; Huiyuan Wang; Ximei Han; Wentao Wei; Hangxiao Zhang; Qianyue Zhang; Yushan Zheng; Qiang Zhu; Markus V. Kohnen; Anireddy S. N. Reddy; Lianfeng Gu. (2020). Profiling of circular RNA N6‐methyladenosine in moso bamboo (Phyllostachys edulis) using nanopore-based direct RNA sequencing, Journal of Integrative Plant Biology, 62(12): 1823-1838 2020 jipb.13002.pdf
(12) Reddy, A. S., Huang, J., Syed, N. H., Ben-Hur, A., Dong, S., Lianfeng Gu.(2020). Decoding co-/post-transcriptional complexities of plant transcriptomes and epitranscriptome using next-generation sequencing technologies. Biochemical Society Transactions, Biochemical Society Transactions, 48(6), 2399-2414. 2020-GLF-R2.pdf
2019年
(11) Huiyuan Wang; Huihui Wang; Hangxiao Zhang; Sheng Liu; Yongsheng Wang; Yubang Gao; Feihu Xi; Liangzhen Zhao; Bo Liu; Anireddy S. N. Reddy; Chentao Lin; Lianfeng Gu. (2019). The interplay between microRNA and alternative splicing of linear and circular RNAs in eleven plant species, Bioinformatics, 35(10): 1-8 2019-3-bioinformatics.pdf
(10) Yongsheng Wang; Yubang Gao; Hangxiao Zhang; Huihui Wang; Xuqing Liu; Xi Xu; Zeyu Zhang; Markus V. Kohnen; Kaiqiang Hu; Huiyuan Wang; Feihu Xi; Liangzhen Zhao; Chentao Lin; Lianfeng Gu. (2019). Genome-wide profiling of circular RNAs in the rapidly growing shoots of moso bamboo (Phyllostachys edulis), Plant and Cell Physiology, 60(6): 1354-1373 2019-4-PCP.pdf
(9) Yu X, Wang Y, Kohnen M, Piao M, Tu M, Gao Y, Lin C, Zuo Z, Lianfeng Gu.(2019). Large Scale Profiling of Protein Isoforms Using Label-Free Quantitative Proteomics Revealed the Regulation of Nonsense-Mediated Decay in Moso Bamboo (Phyllostachys edulis). Cells. 8(7), 744;2019-7-cells-08-00744.pdf
(8) Zhao L, Zhang H, Kohnen M, Prasad K, Lianfeng Gu, Reddy A. (2019), Analysis of transcriptome and epitranscriptome in plants using PacBio Iso-Seq and Nanopore-based direct RNA sequencing. Front. Genet. doi: 10.3389/fgene.2019.00253 2019-5-fgene-10-00253.pdf
(7) Wu B, Zhang H, Lin L, Wang H, Gao Y, Zhao L, Chen YP, Chen R, Lianfeng Gu(2019), A similarity searching system for biological phenotype images using deep convolutional encoder-decoder architecture. Current Bioinformatics, DOI: 10.2174/1574893614666190204150109 2019-1-MS CBIO 2nd Proof-BizhiWu.pdf
(6) Gao Y, Xi F, Zhang H, Liu X, Wang H, Zhao L, Reddy A, Lianfeng Gu(2019), Single-molecule real-time (SMRT) isoform sequencing (Iso-Seq) in plants: The status of the bioinformatics tools to unravel the transcriptome complexity, Current Bioinformatics, DOI : 10.2174/1574893614666190204151746 2019-2-MS CBIO and Proof-yubangGao.pdf
(5) Liu Xu, Gao Y, Zhao L, Cai Y, Wang H, Miao M, Lianfeng Gu,Zhang H (2019) Biogenesis, research methods, and functions of circular RNAs. Hereditas. Vol. 41 Issue (6): 469-485
2018年
(4) Gongfu Ye; Hangxiao Zhang; Bihua Chen; Sen Nie; Hai Liu; Wei Gao; Huiyuan Wang; Yubang Gao; Lianfeng Gu. (2018). De novogenome assembly of the stress tolerant forest species Casuarina equisetifolia provides insight into secondary growth, Plant Journal, 97(4): 779-794 2018-2-tpj.14159.pdf
(3) Yubang Gao; Huiyuan Wang; Hangxiao Zhang; Yongsheng Wang; Jinfeng Chen; Lianfeng Gu. (2018). PRAPI: post-transcriptional regulation analysis pipeline for Iso-Seq, Bioinformatics, 34(9): 1580-15822017-10-10.1093@bioinformatics@btx830.pdf We have uploaded all compressed files associated with this article's website to figshare: https://doi.org/10.6084/m9.figshare.27215193.v1 For more detailed instructions on PRAPI installation and usage, please refer to our Bio-101 documentation: An Analysis Pipeline for Identification of RNA Modification, Alternative Splicing and Polyadenylation Using Third Generation Sequencing. Bio-101: e4433. DOI: 10.21769/BioProtoc.4433.
2017年
(2) Zhang H, Wang H, Zhu Q, Gao Y, Wang H, Zhao L, Wang Y, Xi F, Wang W, Yang Y, Lin C, Gu L (2018), Transcriptome characterization of moso bamboo (Phyllostachys edulis) seedlings in response to exogenous gibberellin applications, BMC plant biology,2018,18:125 2018-3-Bamboo-GA.pdf
(1) Taotao Wang; Huiyuan Wang; Dawei Cai; Yubang Gao; Hangxiao Zhang; Yongsheng Wang; Chentao Lin; Liuyin Ma; Lianfeng Gu. (2017). Comprehensive profiling of rhizome-associated alternative splicing and alternative polyadenylation in moso bamboo (Phyllostachys edulis)., The plant journal, 91(4): 684-6992017-3-The_Plant_Journal.pdf
2016年之前相关全部论文
https://scholar.google.com/citations?user=jnrDUeQAAAAJ&hl=en
