Development of cutting-edge genomic tools

Recent advances in next-generation sequencing (NGS) technologies open up the '-omics' era for potentially any organisms, and development of cost-efficient genomic tools is key to the success of implementing NGS in traditional less-studied organisms.

Our group have greatly contributed in this research area by developing several efficient genomic tools that meet diverse research purposes, including: (i) 2b-RAD technique for genome-wide genotyping (Nature Methods, 2012); (ii) MethylRAD technique for genome-wide profiling of DNA methylation (Open Biology, 2015); (iii) Multi-isoRAD technique for joint genetic and epigenetic analyses (Nature Protocols, 2016); (iv) RadMap technique for whole-genome restriction mapping  (Genetics, 2017); (v) HD-marker technique for targeted genotyping (Genome Research, 2018; Engineering, 2022); (vi) 2bRAD-M technique for microbime profiling (Genome Biology, 2022); (vii) MolluscDB database for molluscan functional and evolutionary genomics (Nucleic Acids Research, 2021) and EDomics database for animal evo-devo and multi-omics (Nucleic Acids Research, 2023).

New genomic tools are always needed to propel marine genomics into cost-efficiently gaining more comprehensive and deeper insights. Currently, our efforts for developing new genomic tools focus on multi-omics and single-cell based approaches. These approaches, if successfully applied, will greatly expand our research scopes in both model and non-model organisms and would provide unprecedented insights into biology and evolution of marine molluscs.

Selected Publications

1. Wang S#,*, Meyer E#,*, McKay JK, Matz MV. 2b-RAD: a simple and flexible method for genome-wide genotyping. Nature Methods. 2012, 9: 808-810.  

2. Wang S#, Lv J#, Zhang L#, Dou J, Sun Y, Li X, Fu X, Dou H, Mao J, Hu X, Bao Z*. MethylRAD: a simple and scalable method for genome-wide DNA methylation profiling using methylation-dependent restriction enzymes. Open Biology. 2015, 5: 150130.

3. Wang S#,*, Liu P#, Lv J, Li Y, Cheng T, Zhang L, Xia Y, Sun H, Hu X, Bao Z*. Serial sequencing of isolength RAD tags for cost-efficient genome-wide profiling of genetic and epigenetic variations. Nature Protocols. 2016, 11: 2189-2200.

4. Dou J#, Dou H#, Mu C, Zhang L, Li Y, Wang J, Li T, Li Y, Hu X, Wang S*, Bao Z*. Whole-genome restriction mapping by “subhaploid”-based RAD sequencing: an efficient and flexible approach for physical mapping and genome scaffolding. Genetics. 2017, 206: 1237-1250.

5. Lv J#, Jiao W#, Guo H#, Liu P, Wang R, Zhang L, Zeng Q, Hu X, Bao Z, Wang S*. HD-Marker: a highly multiplexed and flexible approach for targeted genotyping of more than 10,000 genes in a single-tube assay. Genome Research. 2018, 28: 1919-1930.

6. Liu P#, Lv J#,*, Ma C, Zhang T, Huang X, Yang Z, Zhang L, Hu J, Wang S, Bao Z*. Targeted genotyping of a whole-gene repertoire by an ultrahigh-multiplex and flexible HD-Marker approach. Engineering. 2022, 13:186-196.

7. Sun Z#, Huang S#,*, Zhu P, Tzehau L, Zhao H, Lv J, Zhang R, Zhou L, Niu Q, Wang X, Zhang M, Jing G, Bao Z, Liu J, Wang S*, Xu J*. Species-resolved sequencing of low-biomass or degraded microbiomes using 2bRAD-M. Genome Biology. 2022, 23: 36.

8. Liu F, Li Y*, Yu H, Zhang L, Hu J, Bao Z, Wang S*. MolluscDB: an integrated functional and evolutionary genomics database for the hyper-diverse animal phylum Mollusca. Nucleic Acids Research. 2021, 49: D988-D997.

9. Wei J#, Liu P#, Liu F#, Jiang A, Qiao J, Pu Z, Wang B, Zhang J, Jia D, Li Y*, Wang S*, Dong B*. EDomics: a comprehensive and comparative multi-omics database for animal evo-devo. Nucleic Acids Research. 2023, 51: D913–D923.


We bring the right people together.

Sincerely welcome all students with the spirit of exploration to join the research group!

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