Works by Longjiang Fan

Results: 88

Multiomic analysis of the synthetic pathways of secondary metabolites in tobacco leaves at different developmental stages.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1615756

By:

Tong, Zhijun;
Yang, Kun;
Chen, Xuejun;
Xu, Fei;
Sui, Xueyi;
Huang, Yujie;
Zhu, Shenyun;
Shen, Enhui;
Wu, Sanling;
Fan, Longjiang;
Xiao, Bingguang

Publication type:

Article

The complete chloroplast genome of eriochloa villosa (thunb.) kunth.

Published in:

Mitochondrial DNA: Resources, 2025, v. 10, n. 7, p. 637, doi. 10.1080/23802359.2025.2519217

By:

Cheng, Haijun;
Huang, Yujie;
Li, Mei;
Fan, Longjiang;
Li, Jian

Publication type:

Article

The complete chloroplast genome of japonica type weedy rice (Oryza sativa f. spontanea).

Published in:

Mitochondrial DNA: Resources, 2022, v. 7, n. 8, p. 1418, doi. 10.1080/23802359.2022.2106160

By:

Hu, Yiyu;
Dong, Chenfeng;
Ye, Chuyu;
Fan, Longjiang;
Tang, Wei

Publication type:

Article

The complete chloroplast genome of Nicotiana plumbaginifolia.

Published in:

Mitochondrial DNA: Resources, 2022, v. 7, n. 1, p. 239, doi. 10.1080/23802359.2021.2024772

By:

Tong, Zhijun;
Du, Tianyu;
Hu, Yiyu;
Chen, Haijun;
Shen, Enhui;
Fan, Longjiang;
Xiao, Bingguang

Publication type:

Article

The whole chloroplast genome of Secale strictum subsp. kuprijanovii, a wild and perennial kinship to cultivated rye.

Published in:

Mitochondrial DNA: Resources, 2022, v. 7, n. 1, p. 112, doi. 10.1080/23802359.2021.2011447

By:

Ding, Yuwen;
Hu, Yiyu;
Fan, Longjiang;
Chu, Qinjie

Publication type:

Article

The complete chloroplast genome of Echinochloa haploclada.

Published in:

Mitochondrial DNA: Resources, 2021, v. 6, n. 11, p. 3105, doi. 10.1080/23802359.2021.1982654

By:

Jiang, Bowen;
Lao, Sangting;
Wu, Dongya;
Fan, Longjiang;
Ye, Chu-Yu

Publication type:

Article

The complete chloroplast genome of weedy rice Oryza sativa f. spontanea.

Published in:

Mitochondrial DNA: Resources, 2021, v. 6, n. 10, p. 3016, doi. 10.1080/23802359.2021.1977197

By:

Dong, Chenfeng;
Hu, Yiyu;
Ye, Chuyu;
Fan, Longjiang;
Guo, Longbiao

Publication type:

Article

A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes).

Published in:

GigaScience, 2024, v. 13, n. 1, p. 1, doi. 10.1093/gigascience/giae006

By:

Huang, Yujie;
Guo, Longbiao;
Xie, Lingjuan;
Shang, Nianmin;
Wu, Dongya;
Ye, Chuyu;
Rudell, Eduardo Carlos;
Okada, Kazunori;
Zhu, Qian-Hao;
Song, Beng-Kah;
Cai, Daguang;
Junior, Aldo Merotto;
Bai, Lianyang;
Fan, Longjiang

Publication type:

Article

Construction of the third-generation Zea mays haplotype map.

Published in:

GigaScience, 2018, v. 7, n. 4, p. 1, doi. 10.1093/gigascience/gix134

By:

Bukowski, Robert;
Xiaosen Guo;
Yanli Lu;
Cheng Zou;
Bing He;
Zhengqin Rong;
Bo Wang;
Dawen Xu;
Bicheng Yang;
Chuanxiao Xie;
Longjiang Fan;
Shibin Gao;
Xun Xu;
Gengyun Zhang;
Yingrui Li;
Yinping Jiao;
Doebley, John F.;
Ross-Ibarra, Jeffrey;
Lorant, Anne;
Buffalo, Vince

Publication type:

Article

Analysis of genetic variation and diversity of Rice stripe virus populations through high-throughput sequencing.

Published in:

Frontiers in Plant Science, 2015, v. 6, p. 1, doi. 10.3389/fpls.2015.00176

By:

Lingzhe Huang;
Zefeng Li;
Jianxiang Wu;
Yi Xu;
Xiuling Yang;
Longjiang Fan;
Rongxiang Fang;
Xueping Zhou

Publication type:

Article

Genome-wide identification of non-coding RNAs interacted with microRNAs in soybean.

Published in:

Frontiers in Plant Science, 2014, v. 5, p. 1, doi. 10.3389/fpls.2014.00743

By:

Chu-Yu Ye;
Enhui Shen;
Yang Liu;
Yu Wang;
Yifei Shen;
Jie Qiu;
Longjiang Fan;
Hao Xu;
Qian-Hao Zhu

Publication type:

Article

The DNA methylomes of Echinochloa species provide insights into polyploidization‐driven adaptation and orphan crop domestication.

Published in:

Plant Journal, 2025, v. 121, n. 3, p. 1, doi. 10.1111/tpj.70033

By:

Chu, Qinjie;
Gong, Xiaojiao;
Hu, Yiyu;
Zhu, Qian‐Hao;
Fan, Longjiang;
Ye, Chu‐Yu

Publication type:

Article

Lateral transfers lead to the birth of momilactone biosynthetic gene clusters in grass.

Published in:

Plant Journal, 2022, v. 111, n. 5, p. 1354, doi. 10.1111/tpj.15893

By:

Wu, Dongya;
Hu, Yiyu;
Akashi, Shota;
Nojiri, Hideaki;
Guo, Longbiao;
Ye, Chu‐Yu;
Zhu, Qian‐Hao;
Okada, Kazunori;
Fan, Longjiang

Publication type:

Article

Expansion of MIR482/2118 by a class‐II transposable element in cotton.

Published in:

Plant Journal, 2020, v. 103, n. 6, p. 2084, doi. 10.1111/tpj.14885

By:

Shen, Enhui;
Chen, Tianzi;
Zhu, Xintian;
Fan, Longjiang;
Sun, Jie;
Llewellyn, Danny J.;
Wilson, Iain;
Zhu, Qian‐Hao

Publication type:

Article

Analysis of transcriptional and epigenetic changes in hybrid vigor of allopolyploid Brassica napus uncovers key roles for small RNAs.

Published in:

Plant Journal, 2017, v. 91, n. 5, p. 874, doi. 10.1111/tpj.13605

By:

Shen, Yifei;
Sun, Shuo;
Hua, Shuijin;
Shen, Enhui;
Ye, Chu‐Yu;
Cai, Daguang;
Timko, Michael P.;
Zhu, Qian‐Hao;
Fan, Longjiang

Publication type:

Article

Diverse genetic mechanisms underlie worldwide convergent rice feralization.

Published in:

Genome Biology, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s13059-020-01980-x

By:

Qiu, Jie;
Jia, Lei;
Wu, Dongya;
Weng, Xifang;
Chen, Lijuan;
Sun, Jian;
Chen, Meihong;
Mao, Lingfeng;
Jiang, Bowen;
Ye, Chuyu;
Turra, Guilherme Menegol;
Guo, Longbiao;
Ye, Guoyou;
Zhu, Qian-Hao;
Imaizumi, Toshiyuki;
Song, Beng-Kah;
Scarabel, Laura;
Merotto, Aldo;
Olsen, Kenneth M.;
Fan, Longjiang

Publication type:

Article

Identification of NBS-Type Resistance Gene Homologs in Tobacco Genome.

Published in:

Plant Molecular Biology Reporter, 2010, v. 28, n. 1, p. 152, doi. 10.1007/s11105-009-0134-z

By:

Xiaodong Leng;
Bingguang Xiao;
Sheng Wang;
Yijie Gui;
Yu Wang;
Xiuping Lu;
Jiahua Xie;
Yongping Li;
Longjiang Fan

Publication type:

Article

The Absence of TIR-Type Resistance Gene Analogues in the Sugar Beet (Beta vulgaris L.) Genome.

Published in:

Journal of Molecular Evolution, 2004, v. 58, n. 1, p. 40, doi. 10.1007/s00239-003-2524-4

By:

Yanyan Tian;
Longjiang Fan;
Tim Thurau;
Christian Jung;
Daguang Cai

Publication type:

Article

scDetect: a rank-based ensemble learning algorithm for cell type identification of single-cell RNA sequencing in cancer.

Published in:

Bioinformatics, 2021, v. 37, n. 22, p. 4115, doi. 10.1093/bioinformatics/btab410

By:

Shen, Yifei;
Chu, Qinjie;
Timko, Michael P;
Fan, Longjiang

Publication type:

Article

Identification of cell‐type specificity, trans‐ and cis‐acting functions of plant lincRNAs from single‐cell transcriptomes.

Published in:

New Phytologist, 2025, v. 245, n. 2, p. 698, doi. 10.1111/nph.20269

By:

Xu, Jiwei;
Shen, Enhui;
Guo, Fu;
Wang, Kaiqiang;
Hu, Yurong;
Shen, Leti;
Chen, Hongyu;
Li, Xiaohan;
Zhu, Qian‐Hao;
Fan, Longjiang;
Chu, Qinjie

Publication type:

Article

Recent origination of circular RNAs in plants.

Published in:

New Phytologist, 2022, v. 233, n. 1, p. 515, doi. 10.1111/nph.17798

By:

Chu, Qinjie;
Ding, Yuwen;
Xu, Xiaoxu;
Ye, Chu‐Yu;
Zhu, Qian‐Hao;
Guo, Longbiao;
Fan, Longjiang

Publication type:

Article

miR-377-3p-Mediated EGR1 Downregulation Promotes B[a]P-Induced Lung Tumorigenesis by Wnt/Beta-Catenin Transduction.

Published in:

Frontiers in Oncology, 2021, v. 11, p. 1, doi. 10.3389/fonc.2021.699004

By:

Ke, Xinxin;
He, Lulu;
Wang, Runan;
Shen, Jing;
Wang, Zhengyang;
Shen, Yifei;
Fan, Longjiang;
Shao, Jimin;
Qi, Hongyan

Publication type:

Article

Full-length sequence assembly reveals circular RNAs with diverse non-GT/AG splicing signals in rice.

Published in:

RNA Biology, 2017, v. 14, n. 8, p. 1055, doi. 10.1080/15476286.2016.1245268

By:

Ye, Chu-Yu;
Zhang, Xingchen;
Chu, Qinjie;
Liu, Chen;
Yu, Yongyi;
Jiang, Weiqin;
Zhu, Qian-Hao;
Fan, Longjiang;
Guo, Longbiao

Publication type:

Article

A transcriptomic profile of topping responsive non-coding RNAs in tobacco roots (Nicotiana tabacum).

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12864-019-6236-6

By:

Chen, Xi;
Sun, Shuo;
Liu, Fangjie;
Shen, Enhui;
Liu, Lu;
Ye, Chuyu;
Xiao, Bingguang;
Timko, Michael P.;
Zhu, Qian-Hao;
Fan, Longjiang;
Cao, Peijian

Publication type:

Article

Chloroplast DNA insertions into the nuclear genome of rice: the genes, sites and ages of insertion involved.

Published in:

Functional & Integrative Genomics, 2008, v. 8, n. 2, p. 101, doi. 10.1007/s10142-007-0067-2

By:

Guo, Xingyi;
Ruan, Songlin;
Hu, Weiming;
Cai, Daguang;
Fan, Longjiang

Publication type:

Article

Molecular phylogeny of miR390-guided trans-acting siRNA genes ( TAS3) in the grass family.

Published in:

Plant Systematics & Evolution, 2009, v. 283, n. 1/2, p. 125, doi. 10.1007/s00606-009-0221-5

By:

Dan Shen;
Sheng Wang;
Huan Chen;
Qian-Hao Zhu;
Helliwell, Chris;
Longjiang Fan

Publication type:

Article

A Suppressor Mutation Partially Reverts the xantha Trait via Lowered Methylation in the Promoter of Genomes Uncoupled 4 in Rice.

Published in:

Frontiers in Plant Science, 2019, p. 1, doi. 10.3389/fpls.2019.01003

By:

Jiang, Meng;
Liu, Yanhua;
Li, Ruiqing;
Zheng, Yunchao;
Fu, Haowei;
Tan, Yuanyuan;
Møller, Ian Max;
Fan, Longjiang;
Shu, Qingyao;
Huang, Jianzhong

Publication type:

Article

Identification, evolution, and expression partitioning of miRNAs in allopolyploid Brassica napus.

Published in:

Journal of Experimental Botany, 2015, v. 66, n. 22, p. 7241, doi. 10.1093/jxb/erv420

By:

Enhui Shen;
Jun Zou;
Hubertus Behrens, Falk;
Li Chen;
Chuyu Ye;
Shutao Dai;
Ruiyan Li;
Meng Ni;
Xiaoxue Jiang;
Jie Qiu;
Yang Liu;
Weidi Wang;
Qian-Hao Zhu;
Chalhoub, Boulos;
Bancroft, Ian;
Jinling Meng;
Daguang Cai;
Longjiang Fan

Publication type:

Article

Gene Modules Co-regulated with Biosynthetic Gene Clusters for Allelopathy between Rice and Barnyardgrass.

Published in:

International Journal of Molecular Sciences, 2019, v. 20, n. 16, p. 3846, doi. 10.3390/ijms20163846

By:

Sultana, Most. Humaira;
Liu, Fangjie;
Alamin, Md.;
Mao, Lingfeng;
Jia, Lei;
Chen, Hongyu;
Wu, Dongya;
Wang, Yingying;
Fu, Fei;
Wu, Sanling;
Wang, Weidi;
Ye, Chuyu;
Zhu, Qian-Hao;
Qiu, Jie;
Fan, Longjiang

Publication type:

Article

Identification and Characterization of γ-Ray-Induced Mutations in Rice Cytoplasmic Genomes by Whole-Genome Sequencing.

Published in:

Cytogenetic & Genome Research, 2020, v. 160, n. 2, p. 100, doi. 10.1159/000506033

By:

Zheng, Yunchao;
Li, Shan;
Huang, Jianzhong;
Fan, Longjiang;
Shu, Qingyao

Publication type:

Article

A complete physical map of a wild beet (Beta procumbens) translocation in sugar beet.

Published in:

Molecular Genetics & Genomics, 2006, v. 275, n. 5, p. 504, doi. 10.1007/s00438-006-0108-x

By:

Daniela Schulte;
Daguang Cai;
Michael Kleine;
Longjiang Fan;
Sheng Wang;
Christian Jung

Publication type:

Article

Asymmetric variation in DNA methylation during domestication and de-domestication of rice.

Published in:

Plant Cell, 2023, v. 35, n. 9, p. 3429, doi. 10.1093/plcell/koad160

By:

Cao, Shuai;
Chen, Kai;
Lu, Kening;
Chen, Shiting;
Zhang, Xiyu;
Shen, Congcong;
Zhu, Shuangbin;
Niu, Yanan;
Fan, Longjiang;
Chen, Z Jeffrey;
Xu, Jianlong;
Song, Qingxin

Publication type:

Article

TOD-CUP: a gene expression rank-based majority vote algorithm for tissue origin diagnosis of cancers of unknown primary.

Published in:

Briefings in Bioinformatics, 2021, v. 22, n. 2, p. 2106, doi. 10.1093/bib/bbaa031

By:

Shen, Yifei;
Chu, Qinjie;
Yin, Xinxin;
He, Yinjun;
Bai, Panpan;
Wang, Yunfei;
Fang, Weijia;
Timko, Michael P;
Fan, Longjiang;
Jiang, Weiqin

Publication type:

Article

Characteristics of plant circular RNAs.

Published in:

Briefings in Bioinformatics, 2020, v. 21, n. 1, p. 135, doi. 10.1093/bib/bby111

By:

Chu, Qinjie;
Bai, Panpan;
Zhu, Xintian;
Zhang, Xingchen;
Mao, Lingfeng;
Zhu, Qian-Hao;
Fan, Longjiang;
Ye, Chu-Yu

Publication type:

Article

High-throughput single-microbe RNA sequencing reveals adaptive state heterogeneity and host-phage activity associations in human gut microbiome.

Published in:

Protein & Cell, 2025, v. 16, n. 3, p. 211, doi. 10.1093/procel/pwae027

By:

Shen, Yifei;
Qian, Qinghong;
Ding, Liguo;
Qu, Wenxin;
Zhang, Tianyu;
Song, Mengdi;
Huang, Yingjuan;
Wang, Mengting;
Xu, Ziye;
Chen, Jiaye;
Dong, Ling;
Chen, Hongyu;
Shen, Enhui;
Zheng, Shufa;
Chen, Yu;
Liu, Jiong;
Fan, Longjiang;
Wang, Yongcheng

Publication type:

Article

A diverse set of miRNAs responsive to begomovirus-associated betasatellite in Nicotiana benthamiana.

Published in:

BMC Plant Biology, 2014, v. 14, n. 1, p. 1, doi. 10.1186/1471-2229-14-60

By:

Bingguang Xiao;
Xiuling Yang;
Chu-Yu Ye;
Yang Liu;
Chenhai Yan;
Yu Wang;
Xiuping Lu;
Yongping Li;
Longjiang Fan

Publication type:

Article

A Tourist-like MITE insertion in the upstream region of the BnFLC.A10 gene is associated with vernalization requirement in rapeseed (Brassica napus L.).

Published in:

BMC Plant Biology, 2012, v. 12, n. 1, p. 1, doi. 10.1186/1471-2229-12-238

By:

Raman, Harsh;
Xiaoxiao Zou;
Jing Wang;
Shutao Dai;
Qinqin Xiao;
Cong Li;
Longjiang Fan;
Bin Liu;
Jinling Meng;
Jinna Hou;
Yan Long

Publication type:

Article

A Tourist-like MITE insertion in the upstream region of the BnFLC.A10 gene is associated with vernalization requirement in rapeseed (Brassica napus L.).

Published in:

BMC Plant Biology, 2012, v. 12, n. 1, p. 238, doi. 10.1186/1471-2229-12-238

By:

Jinna Hou;
Yan Long;
Harsh Raman;
Xiaoxiao Zou;
Jing Wang;
Shutao Dai;
Qinqin Xiao;
Cong Li;
Longjiang Fan;
Bin Liu;
Jinling Meng

Publication type:

Article

Sequence variation and selection of small RNAs in domesticated rice.

Published in:

BMC Evolutionary Biology, 2010, v. 10, p. 119, doi. 10.1186/1471-2148-10-119

By:

Yu Wang;
Dan Shen;
Shiping Bo;
Huan Chen;
Jian Zheng;
Qian-Hao Zhu;
Daguang Cai;
Chris Helliwell;
Longjiang Fan

Publication type:

Article

Patterns of selective constraints in noncoding DNA of rice.

Published in:

BMC Evolutionary Biology, 2007, v. 7, p. 208, doi. 10.1186/1471-2148-7-208

By:

Xingyi Guo;
Yu Wang;
Keightley, Peter D.;
Fan, Longjiang

Publication type:

Article

PcircRNA_finder: a software for circRNA prediction in plants.

Published in:

Bioinformatics, 2016, v. 32, n. 22, p. 3528, doi. 10.1093/bioinformatics/btw496

By:

Li Chen;
Yongyi Yu;
Xinchen Zhang;
Chen Liu;
Chuyu Ye;
Longjiang Fan

Publication type:

Article

snRNA-seq of long-preserved FFPE samples from colorectal liver metastasis lesions with diverse prognoses.

Published in:

Scientific Data, 2024, v. 11, n. 1, p. 1, doi. 10.1038/s41597-024-04323-8

By:

Chen, Hongyu;
Zhang, Xiang;
Cheng, Qing;
Shen, Xiner;
Zeng, Linghui;
Wang, Yongcheng;
Fan, Longjiang;
Jiang, Weiqin

Publication type:

Article

Widespread noncoding circular RNAs in plants.

Published in:

New Phytologist, 2015, v. 208, n. 1, p. 88, doi. 10.1111/nph.13585

By:

Ye, Chu‐Yu;
Chen, Li;
Liu, Chen;
Zhu, Qian‐Hao;
Fan, Longjiang

Publication type:

Article

Identification and characterization of micro RNAs in oilseed rape ( Brassica napus) responsive to infection with the pathogenic fungus Verticillium longisporum using Brassica AA ( Brassica rapa) and CC ( Brassica oleracea) as reference genomes.

Published in:

New Phytologist, 2014, v. 204, n. 3, p. 577, doi. 10.1111/nph.12934

By:

Shen, Dan;
Suhrkamp, Ina;
Wang, Yu;
Liu, Shenyi;
Menkhaus, Jan;
Verreet, Joseph‐Alexander;
Fan, Longjiang;
Cai, Daguang

Publication type:

Article

Genomic dissection of small RNAs in wild rice ( Oryza rufipogon): lessons for rice domestication.

Published in:

New Phytologist, 2012, v. 196, n. 3, p. 914, doi. 10.1111/j.1469-8137.2012.04304.x

By:

Wang, Yu;
Bai, Xuefei;
Yan, Chenghai;
Gui, Yiejie;
Wei, Xinghua;
Zhu, Qian-Hao;
Guo, Longbiao;
Fan, Longjiang

Publication type:

Article

Molecular evolution and selection of a gene encoding two tandem microRNAs in rice

Published in:

FEBS Letters, 2007, v. 581, n. 24, p. 4789, doi. 10.1016/j.febslet.2007.09.002

By:

Wang, Sheng;
Zhu, Qian-Hao;
Guo, Xingyi;
Gui, Yijie;
Bao, Jiandong;
Helliwell, Chris;
Fan, Longjiang

Publication type:

Article

Evidence of selectively driven codon usage in rice: Implications for GC content evolution of Gramineae genes

Published in:

FEBS Letters, 2007, v. 581, n. 5, p. 1015, doi. 10.1016/j.febslet.2007.01.088

By:

Guo, Xingyi;
Bao, Jiandong;
Fan, Longjiang

Publication type:

Article

African Cultivated, Wild and Weedy Rice (Oryza spp.): Anticipating Further Genomic Studies.

Published in:

Biology (2079-7737), 2024, v. 13, n. 9, p. 697, doi. 10.3390/biology13090697

By:

Kehinde, Babatunde O.;
Xie, Lingjuan;
Song, Beng-Kah;
Zheng, Xiaoming;
Fan, Longjiang

Publication type:

Article

Transcriptomic profiling reveals candidate allelopathic genes in rice responsible for interactions with barnyardgrass.

Published in:

Frontiers in Plant Science, 2023, v. 14, p. 1, doi. 10.3389/fpls.2023.1104951

By:

Sultana, Most. Humaira;
Alamin, Md.;
Jie Qiu;
Longjiang Fan;
Chuyu Ye

Publication type:

Article

Single-cell transcriptome of Nepeta tenuifolia leaves reveal differentiation trajectories in glandular trichomes.

Published in:

Frontiers in Plant Science, 2022, v. 13, p. 1, doi. 10.3389/fpls.2022.988594

By:

Peina Zhou;
Hongyu Chen;
Jingjie Dang;
Zunrui Shi;
Yongfang Shao;
Chanchan Liu;
Longjiang Fan;
Qinan Wu

Publication type:

Article