1. Xinyun Cui, Fanqi Meng, Xian Pan, Xiaoxiao Qiu, Sixuan Zhang, Caili Li* and Shanfa Lu*. Chromosome-level genome assembly of Aristolochia contorta provides insights into the biosynthesis of benzylisoquinoline alkaloids and aristolochic acids. Horticulture Research, 2022, 9: uhac005.

2. Shanfa Lu*. Biosynthesis and regulatory mechanisms of bioactive compounds in Salvia miltiorrhiza, a model system for medicinal plant biology. Critical Reviews in Plant Sciences, 2021, 40(3): 243-283.

3. Shanfa Lu*. Recent advances in biosynthesis and regulation of bioactive compounds in medicinal plants. Current Pharmaceutical Biotechnology, 2021, 22(6): 712-713.

4. Caili Li, Meizhen Wang, Xiaoxiao Qiu, Hong Zhou, Shanfa Lu*. Noncoding RNAs in medicinal plants and their regulatory roles in bioactive compound production. Current Pharmaceutical Biotechnology, 2021, 22(3): 341-359.

5. Mei Jiang, Haimei Chen, Jingting Liu, Qing Du, Shanfa Lu*, Chang Liu*. Genome-wide identification and functional characterization of natural antisense transcripts in Salvia miltiorrhiza. Scientific Reports, 2021, 11(1): 4769.

6. Caili Li, Meizhen Wang*. Application of hairy root culture for bioactive compounds production in medicinal plants. Current Pharmaceutical Biotechnology, 2021, 22(5), 584-600.

7. Meizhen Wang, Xiaoxiao Qiu, Xian Pan, Caili Li*. Transcriptional factor-mediated regulation of active component biosynthesis in medicinal plants. Current Pharmaceutical Biotechnology, 2021, 22(6): 838-856.

8. Mei Jiang, Liqiang Wang, Bin Wu, Shanfa Lu*. Noncoding RNAs in Lingzhi Mushroom. In: Liu C. (eds) The Lingzhi Mushroom Genome. Compendium of Plant Genomes. Springer, Cham, Switzerland, 2021, pp 69-81.

9. Junjie Shao, Liqiang Wang, Yang Liu, Qianru Qi, Bin Wang, ShanfaLu*, ChangLiu*. Identification of milRNAs and their target genes in Ganoderma lucidum by high-throughput sequencing and degradome analysis. Fungal Genetics and Biology, 2020, 136: 103313.

10. Shanfa Lu*. De novo origination of MIRNAs through generation of short inverted repeats in target genes. RNA Biology, 2019, 16(6): 846-859.

11. Miaomiao Liu, Yimian Ma, Qing Du, Xuemin Hou, Meizhen Wang, Shanfa Lu*. Functional analysis of polyprenyl diphosphate synthase genes involved in plastoquinone and ubiquinone biosynthesis in Salvia miltiorrhiza. Frontiers in Plant Science, 2019, 10: 893. 

12. Yujie Chang, Meizhen Wang, Jiang Li, Shanfa Lu*. Transcriptomic analysis reveals potential genes involved in tanshinone biosynthesis in Salvia miltiorrhiza. Scientific Reports, 2019, 9: 14929.

13. Miaomiao Liu, Xiang Chen, Meizhen Wang, Shanfa Lu*. SmPPT, a 4-hydroxybenzoate polyprenyl diphosphate transferase gene involved in ubiquinone biosynthesis, confers salt tolerance in Salvia miltiorrhiza. Plant Cell Reports, 2019, 38(12):1527-1540.

14. Caili Li, Dongqiao Li, Hong Zhou, Jiang Li, Shanfa Lu*. Analysis of the laccase gene family and miR397-/miR408-mediated posttranscriptional regulation in Salvia miltiorrhiza. PeerJ, 2019, 7:e7605.

15. Hong Zhou, Caili Li, Xiaoxiao Qiu, Shanfa Lu^*. Systematic analysis of alkaline/neutral invertase genes reveals the involvement of Smi-miR399 in regulation of SmNINV3 and SmNINV4 in Salvia miltiorrhiza. Plants (Basel), 2019, 8(11): 490.

16. 刘苗苗, 王梅珍, 卢善发*.丹参中尿黑酸茄尼酯转移酶基因的克隆及其生物信息学分析. 基因组学与应用生物学, 38(8): 3614-3621.

17. Shanfa Lu*. The Salvia miltiorrhiza genome. Compendium of Plant Genomes. Springer, Cham, Switzerland, 2019. pp 1-192. 

18. Shanfa Lu*. Salvia miltiorrhiza: an economically and academically important medicinal plant. In: Lu S. (eds) The Salvia miltiorrhiza Genome. Springer, Cham, Switzerland, 2019. pp 1-15.

19. Xiaoxiao Qiu, Hong Zhou, Shanfa Lu*. Salvia miltiorrhiza epigenetics. In: Lu S. (eds) The Salvia miltiorrhiza Genome. Compendium of Plant Genomes. Springer, Cham, Switzerland, 2019. pp 69-81.

20. Meizhen Wang, Shanfa Lu*.  Genetic transformation of Salvia miltiorrhiza. In: Lu S. (eds) The Salvia miltiorrhiza Genome. Compendium of Plant Genomes. Springer, Cham, Switzerland, 2019, pp 173-192.

21. 卢善发等编著.《药用植物品质生物学》，科学出版社，北京，2019.

22. Yuxing Deng, Caili Li, Heqin Li, Shanfa Lu*. Identification and characterization of flavonoid biosynthetic enzyme genes in Salvia miltiorrhiza (Lamiaceae). Molecules, 2018, 23(6): 1467.

23. Heqin Li, Caili Li, Yuxing Deng, Xuwen Jiang, Shanfa Lu*. The pentatricopeptide repeat gene family in Salvia miltiorrhiza: Genome-wide characterization and expression analysis. Molecules, 2018, 23(6): 1364.

24. Jiang Li, Caili Li, Shanfa Lu*. Systematic analysis of DEMETER-like DNA glycosylase genes shows lineage-specific Smi-miR7972 involved in SmDML1 regulation in Salvia miltiorrhiza. Scientific Reports, 2018, 8: 7143.

25. Jiang Li, Caili Li, Shanfa Lu*. Identification and characterization of the cytosine-5 DNA methyltransferase gene family in Salvia miltiorrhiza. PeerJ, 2018, 6: e4461.