Dr. Ming Li

Picture
Biology
Building M, Room M825a
University of Konstanz
Universitätsstr. 10
78457 Konstanz
Tel: +49 (0) 7531 884405

E-mail: ming.li@uni-konstanz.de
Linking genomic variation and phenotypic diversity has always been a key challenge in evolutionary and genetic studies. My research mainly focuses on identifying genomic variation of different animals through the analysis of large-scale genomic data, and inferring the evolutionary process and genetic basis of key economic/ecological traits through pangenome analysis, genome selection analysis, genome-wide association analysis, and other omics methods including RNA-seq, Hi-C, ChIP-seq, ATAC-seq, etc. My previous projects were involved chicken, duck, goat, and sheep which are important domestic animals with enormous phenotypic diversity. And my current project focuses on the Midas cichlid species complex, an ideal system for rapid sympatric speciation studies. I also collaborated extensively with other researchers on many genomics-related projects.
 
My previous key research projects include:
  1. Identifying comprehensive genomic variants through pan-genome analysis in chicken, pig, and human.
  2. The genetic basis underlying the domestication of duck, chicken and goat.
  3. Genetic variation underlying phenotypic trait changes in duck (body size and plumage color) and sheep (thoracic vertebrae number).
  4. Identifying the source and direction of introgression from closely related species to facilitate local adaptations.

You can download my full CV here

Publications

Google Scholar Profile

(#equally contributing authors *Corresponding author)

2022
18. Li C.#, Wu Y.-J.#, Chen B.-C.#, Cai Y.-D.#, Guo J.-Z.#, Leonard A.S., Kalds P., Zhou S.-W., Zhang J.-C., Zhou P., Gan S.-Q., Jia T., Pu T.-C., Suo L.-D., Li Y., Zhang K., Li L., Purevdorj M., Wang X.-H., Li M., Wang Y., Liu Y., Huang S.-H., Sonstegard T., Wang M.-S., Kemp S., Pausch H., Chen Y.-L., Han J.-L.*, Jiang Y.*, Wang X.-L.* 2022. Markhor-derived Introgression of a Genomic Region Encompassing PAPSS2 Confers High-altitude Adaptability in Tibetan Goats. Molecular Biology and Evolution. 39(12):msac253 doi: 10.1093/molbev/msac253.
17. Xu N.-Y., Liu Z.-Y., Yang Q.-M., Bian P.-P., Li M., Zhao X.* 2022. Genomic Analyses for Selective Signatures and Genes Involved in Hot Adaptation Among Indigenous Chickens From Different Tropical Climate Regions. Frontiers in Genetics. 13:906447 doi: 10.3389/fgene.2022.906447.
16. Yang Z.-R.#, Li J.-X.#, Zheng Z.-Q., Zhao C., Wang Y., Li M., Nanaei H.A., Dai X.-L., Li Y.-J., Li R., Cao C.-N., Li M., Jiang Y.*, Zheng W.-X.*, Wang X.-H.* 2022. Allele-specific expression analyses reveal immune divergences between ibex and goat species. Zoological Research. 43(4):671-674 doi: 10.24272/j.issn.2095-8137.2022.003.
15. Li M.#, Sun C.-J.#, Xu N.-Y.#, Bian P.-P.#, Tian X.-M.#, Wang X.-H.#, Wang Y.-Z.#, Jia X.-Z., Heller R., Wang M.-S., Wang F., Dai X.-L., Luo R.-S., Guo Y.-W., Wang X.-N., Yang P., Hu D.-X., Liu Z.-Y., Fu W.-W., Zhang S.-J., Li X.-C., Wen C.-L., Lan F.-R., Siddiki A.Z., Suwannapoom C., Zhao X., Nie Q.-H., Hu X.-X.*, Jiang Y.*, Yang N.* 2022. De Novo Assembly of 20 Chicken Genomes Reveals the Undetectable Phenomenon for Thousands of Core Genes on Microchromosomes and Subtelomeric Regions. Molecular Biology and Evolution. 39(4):msac066 doi: 10.1093/molbev/msac066. (cover story)
 
2021
14. Xu N.-Y., Si W., Li M., Gong M., Lariviere J.-M., Nanaei H.A., Bian P.-P., Jiang Y.*, Zhao X.* 2021. Genome-wide scan for selective footprints and genes related to cold tolerance in Chantecler chickens. Zoological Research. 42(6):710-720 doi: 10.24272/j.issn.2095-8137.2021.189.
13. Wang M.-S.#, Zhang J.-J.#, Guo X.#, Li M.#, Meyer R.#, Ashari H.#, Zheng Z.-Q., Wang S., Peng M.-S., Jiang Y., Thakur M., Suwannapoom C., Esmailizadeh A., Hirimuthugoda N.Y., Zein M.S.A., Kusza S., Kharrati-Koopaee H., Zeng L., Wang Y.-M., Yin T.-T., Yang M.-M., Li M.-L., Lu X.-M., Lasagna E., Ceccobelli S., Gunwardana H.G.T.N., Senasig T.M., Feng S.-H., Zhang H., Bhuiyan A.K.F.H., Khan M.S., Silva G.L.L.P., Thuy L.T., Mwai O.A., Ibrahim M.N.M., Zhang G., Qu K.-X., Hanotte O., Shapiro B., Bosse M.*, Wu D.-D.*, Han J.-L.*, Zhang Y.-P.* 2021. Large-scale genomic analysis reveals the genetic cost of chicken domestication. BMC Biology. 19(1):118 doi: 10.1186/s12915-021-01052-x.
12. Pan X.-Y#., Cai Y.-D.#, Li Z.-J.#, Chen X.-Q.#, Heller R.#, Wang N.-N.#, Wang Y., Zhao C., Wang Y., Xu H., Li S.-H., Li M., Li C.-Y., Hu S.-W., Li H., Wang K., Chen L., Wei B., Zheng Z.-Q., Fu W.-W., Yang Y., Zhang T.-T., Hou Z.-T., Yan Y.-Y., Lv X.-Y., Sun W., Li X.-Y., Huang S.-S., Liu L.-X., Mao S.-Y., Liu W.-Q., Hua J.-L., Li Z.-P., Zhang G.-J., Chen Y.-L., Wang X.-H., Qiu Q., Dalrymple B.P., Wang W.*, Jiang Y.* 2021. Modes of genetic adaptations underlying functional innovations in the rumen. Science China Life Sciences. 64(1):1-21 doi: 10.1007/s11427-020-1828-8.
 
2020
11. Li R.#, Yang P.#, Li M.#, Fang W.-W., Yue X.-P., Nanaei H.A., Gan S.-Q., Du D., Cai Y.-D., Dai X.-L., Yang Q.-M., Cao C.-N., Deng W.-D., He S.-G., Li W.-R., Ma R.-L., Liu M.-J., Jiang Y.* 2020. A Hu sheep genome with the first ovine Y chromosome reveal introgression history after sheep domestication. Science China Life Sciences. 64(7):1116-1130 doi: 10.1007/s11427-020-1807-0.
10. Zheng Z.-Q.#, Wang X.-H.#, Li M.#, Li Y.-J.#, Yang Z.-R.#, Wang X.-L.#, Pan X.-Y., Gong M., Zhang Y., Guo Y.-W., Wang Y., Liu J., Cai Y.-D., Chen Q.-M., Okpeku M., Colli L., Cai D.-W., Wang K., Huang S.-S., Sonstegard T.S., Esmailizadeh A., Zhang W.-G., Zhang T.-T., Xu Y.-B., Xu N.-Y., Yang Y., Han J.-L., Chen L., Lesur J., Daly K.G., Bradley D.G., Heller R., Zhang G.-J., Wang W., Chen Y.-L.*, Jiang Y.* 2020. The origin of domestication genes in goats. Science Advances. 6(21):eaaz5216 doi: 10.1126/sciadv.aaz5216. (cover story)
9. Wang M.-S.#, Thakur M.#, Peng M.-S.#, Jiang Y.#, Frantz L.A.F.#, Li M.#, Zhang J.-J., Wang S., Peters J., Otecko N.O., Suwannapoom C., Guo X., Zheng Z.-Q., Esmailizadeh A., Hirimuthugoda N.Y., Ashari H., Suladari S., Zein M.S.A., Kusza S., Sohrabi S., Kharrati-Koopaee H., Shen Q.-K., Zeng L., Yang M.-M., Wu Y.-J., Yang X.-Y., Lu X.-M., Jia X.-Z., Nie Q.-H., Lamont S.J., Lasagna E., Ceccobelli S., Gunwardana H.G.T.N., Senasige T.M., Feng S.-H., Si J.-F., Zhang H., Jin J.-Q., Li M.-L., Liu Y.-H., Chen H.-M., Ma C., Dai S.-S., Bhuiyan A.K.F.H., Khan M.S., Silva G.L.L.P., Le T.-T., Mwai O.A., Ibrahim M.N.M., Supple M., Shapiro B., Hanotte O., Zhang G., Larson G., Han J.-L.*, Wu D.-D.*, Zhang Y.-P.* 2020. 863 genomes reveal the origin and domestication of chicken. Cell Research. 30(8):693-701 doi: 10.1038/s41422-020-0349-y. (cover story)
 
2019
8. Li R.#, Tian X.-M.#, Yang P., Fan Y.-Z., Li M., Zheng H.-X., Wang X.-H., Jiang Y.* 2019. Recovery of non-reference sequences missing from the human reference genome. BMC Genomics. 20(1):746 doi: 10.1186/s12864-019-6107-1.
7. Li C.-Y.#, Li M.#, Li X.-Y.#, Ni W.*, Xu Y.-R., Yao R., Wei B., Zhang M.-D., Li H.-X., Zhao Y., Liu L., Ullah Y., Jiang Y.*, Hu S.-W.* 2019. Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep. Frontiers in Genetics. 10:674 doi: 10.3389/fgene.2019.00674.
6. Wang Y., Gao S., Zhao Y., Chen W.-H., Shao J.-J., Wang N.-N., Li M., Zhou G.-X., Wang L., Shen W.-J., Xu J.-T., Deng W.-D., Wang W., Chen Y.-L., Jiang Y.* 2019. Allele-specific expression and alternative splicing in horsexdonkey and cattlexyak hybrids. Zoological Research. 40(4):293-304 doi: 10.24272/j.issn.2095-8137.2019.042.
5. Cheng H.#, Liu J.#, Wen J.#, Nie X.-J.#, Xu L.-H., Chen N.-B., Li Z.-X., Wang Q.-L., Zheng Z.-Q., Li M., Cui L.-C., Liu Z.-H., Bian J.-X., Wang Z.-H., Xu S.-B., Yang Q., Appels R., Han D.-J., Song W.-N.*, Sun Q.-X.*, Jiang Y.* 2019. Frequent intra- and inter-species introgression shapes the landscape of genetic variation in bread wheat. Genome Biology. 20(1):136 doi: 10.1186/s13059-019-1744-x.
4. Tian X.-M.#, Li R.#, Fu W.-W.#, Li Y.#, Wang X.-H., Li M., Du D., Tang Q.-Z., Cai Y.-D., Long Y.-M., Zhao Y., Li M.-Z.*, Jiang Y.* 2020. Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data. Science China Life Sciences. 63(5):750-763 doi: 10.1007/s11427-019-9551-7.
3. Wang Y.#, Zhang C.-Z.#, Wang N.-N.#, Li Z.-P.#, Heller R.#, Liu R.#, Zhao Y.#, Han J.-G.#, Pan X.-Y., Zheng Z.-Q., Dai X.-Q., Chen C.-S., Dou M.-L., Peng S.-J., Chen X.-Q., Liu J., Li M., Wang K., Liu C., Lin Z.-S., Chen L., Hao F., Zhu W.-B., Song C.-C., Zhao C., Zheng C.-L., Wang J.-M., Hu S.-W., Li C.-Y., Yang H., Jiang L., Li G.-Y., Liu M.-J., Sonstegard T.S., Zhang G.-J., Jiang Y.*, Wang W.*, Qiu Q.* 2019. Genetic basis of ruminant headgear and rapid antler regeneration. Science. 364(6446):eaav6335 doi: 10.1126/science.aav6335. (cover story)
 
2018
2. Fan W.-L., Xu L.-Y., Cheng H., Li M., Liu H.-H., Jiang Y., Guo Y.-M., Zhou Z.-K.*, Hou S.-S.* 2018. Characterization of Duck (Anas platyrhynchos) Short Tandem Repeat Variation by Population-Scale Genome Resequencing. Frontiers in Genetics. 9:520 doi: 10.3389/fgene.2018.00520.
1. Zhou Z.-K.#, Li M.#, Cheng H.#, Fan W.-L.#, Yuan Z.-R.#, Gao Q., Xu Y.-X., Guo Z.-B., Zhang Y.-S., Hu J., Liu H.-H., Liu D.-P., Chen W.-H., Zheng Z.-Q., Jiang Y., Wen Z.-G., Liu Y.-M., Chen H., Xie M., Zhang Q., Huang W., Wang W., Hou S.-S.*, Jiang Y.* 2018. An intercross population study reveals genes associated with body size and plumage color in ducks. Nature Communications. 9(1):2648 doi: 10.1038/s41467-018-04868-4.