Department of Genetics

YAN Jianbing





Updated in January. 2020



Jianbing Yan

Associate Director of National Key Laboratory of Crop Genetic Improvement and Dean of College of Plant Science and Technology, Huazhong Agricultural University (HZAU), China

Shizishan Street 1#, Hongshan District, 430070 Wuhan, China


Home page: 

TEL: 86-27-87280110



Education Backgrounds

1998/9 - 2003/6  Ph. D. Plant Genetics, Huazhong Agricultural University, China

                             (Supervisors: Dr. Yonglian Zheng and Dr. Jiansheng Li)

       1995/9 - 1999/6  B. S. Biotechnology, Huazhong Agricultural University, China

Professional positions

2010/09 -  Present Professor, College   of   Life   Science   and   Technology/ 

National Key Laboratory of Crop Genetic Improvement, 

Huazhong Agricultural University

2009/09 - 2011/03  Scientist, International Maize and Wheat Improvement Center 


2008/10 - 2009/08 Associate Scientist, CIMMYT

2006/10 - 2008/09 Joint Post-Doctoral Associate, CIMMYT (With Dr. Marilyn

                                     Warburton) and Cornell University (With Dr. Edward S Buckler)

2005/10–2009/07 Associate Professor, College of Agronomy and biotechnology,

                              China Agricultural University

2003/12–2005/09 Lecture, College of Agronomy and biotechnology,

                              China Agricultural University




Research Interests

        Genetic basis of quantitative traits in maize 

        Innovative theories and techniques for breeding

        Maize genomics and molecular breeding


2010: Japan International Award for Yong Agricultural Researchers

2011: DuPont Young Professor Award

2011: Chutian Scholar Professor, awarded by the Hubei Provincial Government, China

2011: The New Century Excellent Talents in University, awarded by the Ministry of   

           Education, China

2012: The National Natural Science Foundation for Excellent Youth, awarded by the

           National Science Foundation of China

2013: The National Youth Top-notch Talent Support Program, awarded by the

          Organization Department of the Central Committee of the CPC, China

2014: Outstanding Alumni Award of CIMMYT

2015: The National Science Fund for Distinguished Young Scholars, awarded by the

           National Science Foundation of China 

2015: Chair Professor of Cheung Kong Scholars Programme, awarded by the Ministry of   

           Education, China

   2016: China Youth Science and Technology Award, awarded by the Organization  

Department of the Central Committee of the CPC, China, Ministry of Human

Resources and Social Security and China Association for Science and Technology


Services in Editorial Boards

      Theoretical and Applied Genetics (2011- )      

Molecular Breeding (2013-2017)

Acta Agronomica Sinica (2014-)

BMC Plant Biology (2015-)

Journal of Integrative Plant Biology (2016 -2020)

Plant Genome (2017 - 2019)

Science China Life Sciences (2017 -)

Genome Biology (2019 -)

Plant Journal (2020 -)


Selected Conference Talks

1) Jianbing Yan (Invited speaker). The development and application of single cell sequencing technology in maize. The 5th International Conference on Agricultural and Biological Sciences (ABS 2019). Macao, July 21-24, 2019

2) Jianbing Yan (Invited speaker). A roadmap for future maize breeding revealed by the CUBIC population. Plant & Animal Genome Asia 2019 Conference. Shen Zhen, June 6-8, 2019

3) Jianbing Yan (Plenary speaker). A roadmap for future maize breeding revealed by the CUBIC population. International Plant & Animal Genome XXVII. San Diego, USA, January 12-16, 2019

4) Jianbing Yan (Selected speaker). A roadmap for future maize breeding revealed by the CUBIC population. World Life Science Conference. Beijing, China, October 27-29, 2018

5) Jianbing Yan (Plenary speaker). CUBIC: A new genetic design promises study on maize-microbe interactions. Sino-German Symposium: Microbiomics and Plant Health. Wuhan, China, October 22-25, 2018

6) Jianbing Yan (Plenary speaker). From trait prediction to individual selection: an integrated genomic breeding approach in maize. 5th International Symposium on Genomics and Crop Genetic Improvement-Heterosis Presented by the Huazhong Agricultural University. Wuhan, China, September 25-28, 2018

7) Jianbing Yan (Selected speaker). Genetic Architecture Dissertation of Vitamin E Contents in Maize Kernels. the Agricultural Bioscience International Conference 2018 (ABIC 2018), Weifang, China, September 15-18, 2018

8) Jianbing Yan (Plenary speaker). Genetic dissection of tocopherol content and composition in maize kernel. The 4th International Conference on Plant Metabolism (ICPM 2017), Dalian, China, July 16-20, 2017

9) Jianbing Yan (Invited speaker). Genomic study for Enhancing Maize Genetic Improvement. European Molecular Maize Symposium 2017, Ghent, Belgium, May 3-5, 2017

10) Jianbing Yan (Invited speaker). Association mapping for enhancing maize genetic improvement. 7th International Crop Science Congress, Beijing, China, August 14-19, 2016

11) Jianbing Yan (Invited speaker). High nutritional maize for poor. The International Symposium on Advances in Cereal Science for Asia, Yangzhou, China, November 5-8, 2015 

12) Jianbing Yan (Invited speaker). Association mapping for enhancing maize genetic improvement. Agricultural Genomics 2015: From Variation to Improved Production, November 11-15, 2015

13) Jianbing Yan (Invited speaker). Dissecting meiotic recombination based on tetrad analysis by single-microspore sequencing in maize. 13th International Symposium on Rice Functional Genomics, Wuhan, China, September 21-24, 2015

14) Jianbing Yan (Invited speaker). Association mapping for enhancing maize genetics improvement. The 1st Molecular Plant International Symposium: From Model Species to Crops, Shanghai, China, August 5-8, 2015

15) Jianbing Yan (Invited speaker). Dissecting meiotic recombination based on tetrad analysis by single-microspore sequencing in maize. The 4th International Symposium on Plant Reproductive Development, Shanghai, China, August 2-4, 2015

16) Jianbing Yan (Plenary speaker). Genome-Wide Association of Traits for Maize Oil Improvement. The fourth Gordon Research Conference on "Plant Lipids: Structure, Metabolism, and Function", Galveston, TX, USA, February 1-6, 2015

17) Jianbing Yan (Invited speaker). Genome Wide Association Study of Metabolites in Maize. The Plant &Animal Genomes (PAG) XXIII Conference, San Diego, USA, January 10-14, 2015

18) Jianbing Yan (Invited speaker). Genome wide association study of metabolites in maize kernel. 3rd International Conference on Plant Metabolism, Xiamen, China, July 2-5, 2014

19) Jianbing Yan (Invited speaker). Association Mapping for Enhancing Maize Genetic Improvement. Plant Biology Europe FESPB/EPSO 2014 Congress, Dublin, Ireland, June 22-26, 2014

20) Jianbing Yan (Selected speaker). Genome-Wide Association Study Dissects the Genetic Architecture of quantitative traits. The 55th Maize Genetic Conference, St. Charles, Illions, USA, March 14-17, 2013 

21) Jianbing Yan (Invited speaker). Genome-Wide Association Study Dissects the Genetic Architecture of Oil Biosynthesis in Maize Kernels. The Plant& Animal Genome XXI, San Diego, USA, January 12-16, 2013

22) Jianbing Yan (Invited speaker). The genetic architecture of vitamin E biosynthesis in maize grain. The Plant& Animal Genome XX, San Diego, USA, January 14-18, 2012 

23) Jianbing Yan (Invited speaker). Enhancing Vitamin E and Oil Content in Maize: Molecular perspective. The 11th Asian Maize Conference, Nanning, China, November 7-11, 2010

24) Jianbing Yan. Association Mapping for Enhancing Maize Genetic Improvement. The 3rd International Conference on Plant Breeding, Beijing, China, September 6-9, 2010

25) Jianbing Yan (Invited speaker). Associaiton mapping in maize to improve drought tolerance. Interdrought III, Shanghai, China, October 12-16, 2009

26) Jianbing Yan (Selected speaker). HYDB1 and its Interaction with LCYE Influence β-carotene Synthesis and Improve Provitamin A Content in Maize. The 50th Maize Genetics Conference, Washington, DC, USA, February 27-March 2, 2008


Supervision and training

Ø Have (co-)supervised 16 PhD and 17 MSc students (graduated: 6 PhD and 10 MSc)

Ø Have supervised 6 post-doctoral associates  


Research funding 

Ongoing Projects

1. National Science Fund for Distinguished Young Scholars (NSFC), PI  (Maize genomics and molecular breeding) 2016.01-2020.12 ¥3.5M RMB

2. National Natural Science Foundation of China (NSFC), PI (Dissecting the Genetic and Molecular Mechnism of Maize Haploid Inductin) 2018.01-2022.12 ¥3.0M RMB

3. the National Key Research and Development Program of China, PI (Functional Genomics and Regulatory Network of Yield and Quality Traits in Maize) 2016.07-2020.12 ¥2.8/8.2M RMB

4. National Natural Science Foundation of China (NSFC), PI (Towards knowledge-based crop yield enhancement by combining -omics strategies and emerging technologies) 2019.01-2021.12 ¥2M RMB

5. National Natural Science Foundation of China (NSFC), PI (Dissertation of Genetic Basis of Sweet Corn Quality and Key Genes Mining and Utilization) 2020.01-2023.12 ¥1.7/2.62M RMB

6. International collaboration program with Dow Agrosciences, PI (Identify major QTLs controlling grain dry-down, test weight and bulk grain moisture at harvest) 2013.04-2016.04 $596K

7. International collaboration program with DuPont-Pioneer, PI (Gene discovery for disease and agronomic traits in maize) 2011.04-2023.12 $2.1M


Finished projects

8. Hi-Tech Research and Development Program of China (863), PI (The platform construction of resource, technology and information for maize functional genomic study and functional gene mining) 2012.01-2015.12 ¥1.6/6.6M RMB

9. National Natural Science Foundation of China (NSFC), PI (Genetic dissection and molecular improvement of resistance to three major maize foliar diseases in China based on joint linkage-association mapping) 2012.01-2016.12 ¥2.1M RMB

10. National Natural Science Foundation of China (NSFC), PI (Genome-wide association studies of important traits of rice and maize) 2011.01-2015.12 ¥1.5/3M RMB

11. National Natural Science Foundation of China (NSFC), PI (Last Report of Cloning and Functional Analysis of Major QTLs for Controlling Corn and Rice Grain Weight) 2014.01-2016.12 ¥1M RMB

12. National Research and Development Project of Transgenic Crops of the Ministry of Agriculture of China, PI (Maize genomics and molecular breeding) 2013.01-2015.12 ¥0.81/1.82M RMB

13. National Youth Top-notch Talent Support Program, PI (Identification and fine mapping of QTL for vitamin E content in maize) 2013.01-2015.12 ¥2.4M RMB

14. National collaboration program with Longping High-Tech Company, PI (Heterosis prediction and genome-wide selection) 2018.01-2019.12 ¥1.0M RMB


Publications: (*corresponding author)

(H-index=50, total citations=9343, based on Scholargoogle, 2020/1/12)

1. Gui S, Yang L, Li J, Luo J, Xu X, Yuan J, Chen L, Li W, Yang X, Wu S, Li S, Wang Y, Zhu Y, Gao Q, Yang N*, Yan J* (2020) ZEAMAP, a comprehensive database adapted to the maize multi-omics era. bioRxiv, doi: org/10.1101/2020.01.04.894626

2. Huang J, Lu G, Liu L, Raihan MS, Xu J, Jian L, Zhao L, Thu M.Tran, Zhang Q, Liu J, Li W, Wei C, Braun D, Li Q, Fernie AR, Jackson D *, Yan J* (2020) qKW9 encodes a pentatricopeptide repeat protein affecting photosynthesis and grain filling in maize. bioRxiv, doi: org/10.1101/847145

3. Liu J*, Fernie AR, Yan J*(2019) The past, present and future of maize improvement – domestication, genomics and functional genomic routes towards crop enhancement. Plant Commun, DOI: org/10.1016/j.xplc.2019.100010

4. Peng Y#, Xiong D#, Zhao L, Ouyang W, Wang S, Sun J, Zhang Q, Guan P, Xie L, Li W, Li G, Yan J*, Li X* (2019) Chromatin interaction maps reveal genetic regulation for quantitative traits in maize. Nat Commun, 10(1):2632

5. Zhan W, Liu J, Pan Q, Wang H, Yan S, Li K, Deng M, Li W, Liu N, Kong Q, Fernie AR, Yan J* (2019) An allele of ZmPORB2 encoding a protochlorophyllide oxidoreductase promotes tocopherol accumulation in both leaves and kernels of maize. Plant J, 100(1):114-127

6. Yang N#, Liu J#, Gao Q#, Gui S, Chen L, Yang L, Huang J, Deng T, Luo J, He L, Wang Y, Xu P, Peng Y, Shi Z, Lan L, Ma Z, Yang X, Zhang Q, Bai M, Li S, Li W, Liu L, Jackson D, Yan J* (2019) Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement. Nat Genet, 51(6):1052-1059

7. Fernie AR*, Yan J* (2019) De Novo Domestication: An Alternative Route toward New Crops for the Future. Mol Plant, 12(5):615-631

8. Li K#, Wen W#, Alseekh S, Yang X, Guo H, Li W, Wang L, Pan Q, Zhan W, Liu J, Li Y, Wu X, Brotman Y, Willmitzer L, Li J*, Fernie AR*, Yan J* (2019) Large-scale metabolite quantitative trait locus analysis provides new insights for high-quality maize improvement. Plant J, 99(2):216-230

9. Li X#, Chen L#, Zhang Q, Sun Y, Li Q*, Yan J* (2019) BRIF-Seq: Bisulfite-Converted Randomly Integrated Fragments Sequencing at the Single-Cell Level. Mol Plant, 12(3):438-446

10. Luo C#, Li X*#, Zhang Q, Yan J*(2019) Single gametophyte sequencing reveals that crossover events differ between sexes in maize. Nat Commun, 10(1):785

11. Li N, Lin B, Wang H, Li X, Yang F, Ding X, Yan J, Chu Z* (2019) Natural variation in ZmFBL41 confers banded leaf and sheath blight resistance in maize. Nat Genet. 51(10):1540-1548

12. Xu J#, Chen G#, Hermanson PJ, Xu Q, Sun C, Chen W, Kan Q, Li M, Crisp PA, Yan J, Li L, Springer NM*, Li Q* (2019) Population-level analysis reveals the widespread occurrence and phenotypic consequence of DNA methylation variation not tagged by genetic variation in maize. Genome Biol, 20:243

13. Zhang L, Zhang X, Wang X, Xu J, Wang M, Li L, Bai G, Fang H, Hu S, Li J, Yan J, Li J, Yang X* (2019) SEED CAROTENOID DEFICIENT Functions in Isoprenoid Biosynthesis via the Plastid MEP Pathway. Plant Physiol, 179:1723-1738

14. Li H, Thrash A, Tang JD, He L, Yan J, Warburton ML* (2019) Leveraging GWAS data to identify metabolic pathways and networks involved in maize lipid biosynthesis. Plant J, 98(5):853-863

15. Li C#, Song W#, Luo Y#, Gao S#, Zhang R, Shi Z, Wang X, Wang R, Wang F, Wang J, Zhao Y, Su A, Wang S, Li X, Luo M, Wang S, Zhang Y, Ge J, Tan X, Yuan Y, Bi X, He H, Yan J, Wang Y*, Hu S*, Zhao J* (2019) The HuangZaoSi Maize Genome Provides Insights into Genomic Variation and Improvement History of Maize. Mol Plant, 12(3):402-409

16. Fang H#, Fu X#, Wang Y#, Xu J, Feng H, Li W, Xu J, Jittham O, Zhang X, Zhang L, Yang N, Xu G, Wang M, Li X, Li J, Yan J, Yang X* (2019) Genetic basis of kernel nutritional traits during maize domestication and improvement. Plant J, DOI: 10.1111/tpj.14539

17. Wen W#, Jin M#, Li K, Liu H, Xiao Y, Zhao M, Alseekh S, Li W, de Abreu E Lima F, Brotman Y, Willmitzer L, Fernie AR*, Yan J* (2018) An Integrated Multi-layered Analysis of the Metabolic Networks of Different Tissues Uncovers Key Genetic Components of Primary Metabolism in Maize. Plant J, 93(6): 1116–1128

18. Wang H, Xu S, Fan Y, Liu N, Zhan W, Liu H, Xiao Y, Li K, Pan Q, Li W, Deng M, Liu J, Jin M, Yang X, Li J, Li Q*, Yan J* (2018) Beyond pathways: genetic dissection of tocopherol content in maize kernels by combining linkage and association analyses. Plant Biotechnol J, 16(8):1464-1475

19. Liu H*, Yan J*(2018) Crop genome-wide association study: A harvest of biological relevance. Plant J, 97(1): 8-18

20. Jin M, Liu X*, Jia W, Liu H, Li W, Peng Y, Du Y, Wang Y, Yin Y, Zhang X, Liu Q, Deng M, Li N, Cui C, Hao D, Yan J* (2018) ZmCOL3, a CCT gene represses flowering in maize by interfering circadian clock and activating expression of ZmCCT. J Integr Plant Biol, 60(6):465-480

21. Ma H, Li G, Würschum T, Zhang Y, Zheng D, Yang X, Li J, Liu W*, Yan J*, Chen S* (2018) Genome-Wide Association Study of Haploid Male Fertility in Maize (Zea Mays L.). Front Plant Sci, 9:974

22. Chen Q#, Han Y#, Liu H#, Wang X, Sun J, Zhao B, Li W, Tian J, Liang Y, Yan J, Yang X*, Tian F* (2018) Genome-Wide Association Analyses Reveal the Importance of Alternative Splicing in Diversifying Gene Function and Regulating Phenotypic Variation in Maize. Plant Cell, 30(7):1404-1423

23. Sun J#, Liu H#, Liu J, Cheng S, Peng Y, Zhang Q, Yan J, Liu HJ*, Chen LL* (2018) CRISPR-Local: a local single-guide RNA (sgRNA) design tool for nonreference plant genomes. Bioinformatics, doi: 10.1093/bioinformatics/bty970

24. Liu N, Liu J, Li W, Pan Q, Liu J, Yang X, Yan J, Xiao Y* (2018) Intraspecific variation of residual heterozygosity and its utility for quantitative genetic studies in maize. BMC Plant Biol, 18(1):66

25. Liu J*, Tian Z, Xiao Y, Liu H, Hao S, Zhang X, Wang C, Sun J, Yu H, Yan J (2018) Gene Regulatory Relationship Mining Using Improved Three-Phase Dependency Analysis Approach. IEEE/ACM Trans Comput Biol Bioinform, doi: 10.1109/TCBB.2018.287299

26. de Abreu E Lima F#, Li K#, Wen WYan JNikoloski Z*, Willmitzer LBrotman Y (2018) Unraveling lipid metabolism in maize with time-resolved multi-omics data. Plant J, 93(6):1102-1115

27. Chen L#, Zhang P#, Fan Y#, Lu Q, Li Q, Yan J, Muehlbauer GJ, Schnable PS, Dai M, Li L*(2018) Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize. New Phytol, 217(3):1292-1306

28. Ju C#*, Zhang W#, Liu Y, Gao Y, Wang X, Yan J, Yang X, Li J* (2018) Genetic analysis of seedling root traits reveals the association of root trait with other agronomic traits in maize.BMC Plant Biol, 18(1):171

29. Zhang R#, Xu G#, Li J, Yan J, Li H*, Yang X* (2018) Patterns of genomic variation in Chinese maize inbred lines and implications for genetic improvement. Theor Appl Genet, 131(6):1207-1221

30. Liu C#, Li X#, Meng D#, Zhong Y, Chen C, Dong X, Xu X, Chen B, Li W, Li L, Tian X, Zhao H, Song W, Luo H, Zhang Q, Lai J, Jin W*, Yan J*(2017) A 4-bp Insertion at ZmPLA1 Encoding a Putative Phospholipase A Generates Haploid Induction in Maize. Mol Plant, 10(3):520-522

31. Liu H#, Luo X#, Niu L, Xiao Y, Chen L, Liu J, Wang X, Jin M, Li W, Zhang Q, Yan J*(2017) Distant eQTLs and non-coding sequences play critical roles in regulating gene expression and quantitative trait variation in maize. Mol Plant, 10(3):414-426

32. Zhang X#, Huang C#, Wu D, Qiao F, Li W, Duan L, Wang K, Xiao Y, Chen G, Liu Q, Xiong L, Yang W*, Yan J*(2017) High-throughput phenotyping and QTL mapping reveals the genetic architecture of maize plant growth. Plant Physiol, 173(3):1554-1564

33. Xiao Y#, Liu H#, Wu L#, Warburton M, Yan J*(2017) Genome-wide association studies in maize:praise and stargaze. Mol Plant, 10(3):359-374

34. Liu J, Huang J, Guo H, Lan L, Wang H, Xu Y, Yang X, Li W, Tong H, Xiao Y, Pan Q, Qiao F, Raihan MS, Liu HJ, Zhang X, Yang N, Wang X, Deng M, Jin M, Zhao L, Luo X, Zhou Y, Li X, Zhan W, Liu N, Wang H, Chen G, Li Q*, Yan J*(2017) The Conserved and Unique Genetic Architecture of Kernel Size and Weight in Maize and Rice. Plant Physiol, 175(2):774-785

35. Yang N#, Xu X#, Wang R, Peng W, Cai L, Song J, Li W, Luo X, Niu L, Wang Y, Jin M, Chen L, Luo J, Deng M, Wang L, Pan Q, Liu F, Jackson D, Yang X, Chen L*, Yan J*(2017) Contributions of Zea mays subspecies mexicana haplotypes to modern maize. Nat Commun, 8(1):1874

36. Li X#, Meng D#, Chen S, Luo H, Zhang Q, Jin W*, Yan J* (2017) Single nucleus sequencing reveals spermatid chromosome fragmentation as a possible cause of maize haploid induction. Nat Commun, 8(1):991

37. Deng M, Li D, Luo J, Xiao Y, Liu H, Pan Q, Zhang X, Jin M, Zhao M, Yan J*(2017) The genetic architecture of amino acids dissection by association and linkage analysis in maize. Plant Biotechnol J, 15(10):1250-1263

38. Pan Q, Xu Y, Li K, Peng Y, Zhan W, Li W, Li L*, Yan J*(2017) The Genetic Basis of Plant Architecture in 10 Maize Recombinant Inbred Line Populations. Plant Physiol, 175(2):858-873

39. Liu H*, Yan J*(2017) RICE DOMESTICATION An imperfect African solution. Nat Plants, 3:17083

40. Jin M#, Zhang X#, Zhao M, Deng M, Du Y, Zhou Y, Wang S, Tohge T, Fernie AR, Willmitzer L, Brotman Y, Yan J, Wen W*(2017) Integrated genomics-based mapping reveals the genetics underlying maize flavonoid biosynthesis. BMC Plant Biol, 17(1):17

41. Pan Q, Deng M, Yan J, Li L*(2017) Complexity of genetic mechanisms conferring nonuniformity of recombination in maize. SCI REP-UK, 7(1):1205

42. Raihan MS, Liu J, Huang J, Guo H, Pan QC, Yan J*2016Multi-environment QTL analysis of grain morphology traits and fine mapping of a kernel-width QTL in Zheng58 × SK maize population. Theor Appl Genet, 129:1465–1477

43. PanQ, LiL, YangX, TongH, XuS, LiZ, LiW,MuehlbauerG, LiJ, YanJ* (2016) Genome-wide recombination dynamics are associated with phenotypic variation in maize. New Phytol, 210(3):1083-94

44. XiaoY, TongH, YangX, XuS, PanQ, QiaoF, RaihanM, LuoY, LiuH, ZhangX, YangN, WangX, DengM,JinM, ZhaoL, LuoX, ZhouY, LiX, LiuJ, ZhanWei, LiuN, WangH, ChenG, CaiY, XuG, WangW, ZhengD,YanJ* (2016) Genome-wide dissection of the maize ear genetic architecture by using multiple populations. New Phytol, 210(3):1095-106

45. Jin M, Liu H,He C, Fu J*, Xiao Y, Wang Y, Xie W, Wang G, Yan J*(2016) Maize pan-transcriptome provides novel insights into genome complexity and quantitative trait variation. Sci Rep-UK6:18936

46. Wang X, Wang H, Liu S, Ferjani A, Li J, Yan J, Yang X, Qin F (2016) Genetic variation in ZmVPP1 contributes to drought tolerance in maize seedlings. Nat Genet,48(10):1233-41

47. Liu H, Wang F, Xiao Y, Tian Z, Wen W, Zhang X, Chen X, Liu N, Li W, Liu L, Liu J, Yan J, Liu J*2016MODEM: multi-omics data envelopment and mining in maize. Database,2016. pii: baw117

48. Wen W,Brotman Y, Willmitzer L, Yan J, Fernie AR*2016Broacening Our Po :olio in the Genetic Improvement of Maize Chemical Composition. Trends Genet,32(8):459-69

49. Zhang X, Warburton ML, Setter T, Liu H, Xue Y, Yang N, Yan J, Xiao Y*2016Genome-wide association studies of drought-related metabolic changes in maize using an enlarged SNP panel. Theor Appl Genet, 129:1449–1463

50. Liang X, Wang K, Huang C, Zhang X, Yan J, Yang W*(2016) A high-throughput maize kernel traits scorer based on line-scan imaging. Measurement, 90.453-460

51. Li Z, Chen J, Han L, Wen J, Chen G, Li H, Wang Y, Zhao R, Zhang X, Xia Z, Yan J, Wu J, Ding J*(2016) Association mapping resolving the major loci Scmv2 conferring resistance to sugarcane mosaic virus in maize. EUR J PlantPathol,145(2):385-391

52. Hu H,Schrag TA,Peis R,Unterseer S,Schipprack W, Chen S, Lai J, Yan J, Prasanna BM, Nair SK,Chaikam V,Rotarenco V,Shatskaya OA,Zavalishina A, Scholten S, Schon CC,Melchinger AE(2016)The Genetic Basis of Haploid Induction in Maize Identified with a Novel Genome-Wide Association Method. Genetics,202(4):1267-76

53. Wen W*, Liu H, Zhou Y, Jin M, Yang N, Li D, Luo J, Xiao Y, Pan Q, Tohge T, Fernie A, Yan J (2016) Combining quantitative genetics approaches with regulatory network analysis to dissect the complex metabolism of the maize kernel. Plant Physiol, 170(1): 136-46

54. Chen G ,Wang X, Long S, Jaqueth J, Li B, Yan J, Ding J* (2016) Mapping of QTL conferring resistance to northern corn leaf blight using high-density SNPs in maize. Mol Breeding, 36:4

55. Liu J, Deng M, Guo H, Raihan D, Luo J, Xu Y, Dong X, Yan J* (2015) Maize orthologs of rice GS5 and their trans-regulator are associated with kernel development. J Integr Plant Biol,57(11):943-953

56. Ding J, Ali F, Chen G, Li H, Mahuku G, Yang N, Narro L, Magorokosho C, Makumbi D, Yan J*(2015) Genome-wide association mapping reveals novel sources of resistance to northern corn leaf blight in maize. BMC Plant Biol,15:206

57. Wen W, Li K, Alseekh S, Omranian N, Zhao L, Zhou Y, Xiao Y, Jin M, Yang N, Liu H, Florian A, Li W, Pan Q, Nikoloski Z, Yan J*, Fernie A* (2015) Genetic Determinants of the Network of Primary Metabolism and Their Relationships to Plant Performance in a Maize Recombinant Inbred Line Population. Plant Cell, 27: 1839–1856

58. Xing A, Gao Y, Ye L, Zhang W, Cai L, Ching A, Llaca V, Johnson B, Liu L, Yang XH, Kang D*, Yan J*, Li J* (2015) A rare SNP mutation in Brachytic2 moderately reduces plant height and increases yield potential in maize. J Exp Bot,66 (13): 3791-3801

59. Liu H, Wang X, Warburton M, Wen W, Jin M, Deng M, Liu J, Tong H, Pan Q, Yang X, Yan J*(2015) Genomic, Transcriptomic, and Phenomic Variation Reveals the Complex Adaptation of Modern Maize Breeding. Mol Plant, 8(6): 871-84

60. Li X, Li L, Yan J* (2015) Dissecting meiotic recombination based on tetrad analysis by single microspore sequencing in maize. Nat Commun,6: 6648

61. Wang T, Wang M, Hu S, Xiao Y, Tong H, Pan Q, Xue J, Yan J, Li J, Yang X2015Genetic basis of maize kernel starch content revealed by high-density single nucleotide polymorphism markers in a recombinant inbred line population. BMC Plant Biol,15:288

62. Chen G,Wang X, Hao J, Yan J, Ding J* (2015) Genome-Wide Association Implicates Candidate Genes Conferring Resistance to Maize Rough Dwarf Disease in Maize. PLoS ONE,10(11): e0142001

63. Liu L, Du Y, Shen X, Li M, Sun W, Huang J, Liu Z, Tao Y, Zheng Y, Yan J, Zhang Z* (2015) KRN4 controls quantitative variation in maize kernel row number. PLoS Genet, 11(11): e1005670

64. Liu L,Du Y,Huo D,Wang M,Shen X,Yue B, Qiu F, Zheng Y, Yan J, Zhang Z*.(2015)  Genetic Architecture of Maize Kernel Row Number and Whole Genome Prediction. Theor Appl Genet ,128:2243–2254

65. Feng Y, Zheng Q, Song H, Wang Y, Wang H, Jiang L, Yan J, Zheng Y, Yue B* (2015) Multiple loci not only Rf3 involved in the restoration ability of pollen fertility, anther exsertion and pollen shedding to S type cytoplasmic male sterile in maize. Theor Appl Genet28:2341-2350

66. Mao H, Wang H, Liu S, Li Z, Yang X, Yan J, Li J, Tran LS, Qin F*(2015) A transposable element in a NAC gene isassociated with drought tolerance in maize seedlings. Nat Commun, 6:8326

67. Zuo W, Chao Q, Zhang N, Ye J, Tan G, Li B, Xing Y, Zhang B, Liu H, Fengler KA, Zhao J, Zhao X, Chen Y, Lai J, Yan J, Xu M* (2015) A maize wall-associated kinase confers quantitative resistance to head smut. Nat Genet, 47:151-157

68. Guo T, Yang N, Tong H, Pang Q, Yang X, Tang J, Wang J, Li J, Yan J* (2014) Genetic basis of grain yield heterosis in an “immortalized F2s” maize population. Theor Appl Genet,127: 2149-2158

69. Yang N, Lu Y, Yang X, Huang J, Zhou Y, Ali F, Wen W, Liu J, Li J, Yan J*(2014) Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel. PLoS Genet, 10(9):e1004573

70. Wen W, Li D, Li X, Gao Y, Li W, Li H, Liu J, Liu H, Chen W, Luo J*, Yan J* (2014) Metabolome-based genome-wide association study of maize kernel leads to novel biochemical insights. Nat Commun,5:3438

71. Li K, Yan J, Li J, Yang X (2014) Genetic architecture of rind penetrometer resistance in two maize recombinant inbred line populations. BMC Plant Biol,14:152

72. Fu J, Cheng Y, Linghu J, Yang X, Kang L, Zhang Z, Zhang J, He C, Du X, Peng Z, Wang B, Zhai L, Dai C, Xu J, Wang W, Li X, Zheng J, Chen L, Luo L, Liu J, Qian X, Yan J*, Wang J*, Wang G* (2013) RNA sequencing reveals the complex regulatory network in the maize kernel. Nat Commun,4:2832

73. Yang Q, Li Z, Li W, Ku L, Ye J, Li K, Yang N, Li Y, Zhong T, Li J, Chen Y*, Yan J*, Yang X*, Xu M* (2013) CACTA-like transposable element in ZmCCT attenuated photoperiod sensitivity and accelerated the postdomestication spread of maize. Proc Natl Acad Sci USA,110(42):16969-16974

74. Xue Y, Warburton ML, Sawkins M, Zhang X, Setter T, Xu Y, Grudloyma P, Gethi J, Ribaut JM, Li W, Zhang X, Zheng Y, Yan J* (2013) Genome-wide association analysis for nine agronomic traits in maize under well-watered and water-stressed conditions. Theor Appl Genet, 126(10): 2587-2596

75. Ali F, Pan Q, Chen G, Zahid KR, Yan J* (2013) Evidence of multiple disease resistance (MDR) and implication of meta-analysis in marker assisted selection. PLoS ONE, 8 (7): e68150

76. Fu Z, Chai Y, Zhou Y, Yang X, Warburton ML, Xu S, Cai Y, Zhang D, Li J, Yan J* (2013) Natural variation in the sequence of PSY1 and frequency of favorable polymorphisms among tropical and temperate maize germplasm. Theor Appl Genet,126(4): 923-35

77. Li H, Peng Z, Yang X, Wang W, Fu J, Wang J, Han Y, Chai Y, Guo T, Yang N, Liu J, Warburton ML, Cheng Y, Hao X, Zhang P, Zhao J, Liu Y, Wang G*, Li J*, Yan J*(2013) Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels. Nat Genet, 45: 43-50

78. Osman K, Tang B, Wang Y, Chen J, Yu F, Li L, Han X, Zhang Z, Yan J, Zheng Y, Yue B, Qiu F (2013) Dynamic QTL Analysis and Candidate Gene Mapping for Waterlogging Tolerance at Maize Seedling Stage. PLoS ONE, 8 (11): e79305

79. Liu S, Wang X, Wang H, Xin H, Yang X, Yan J, Li J, Tran LSP, Shinozaki K, Yamaguchi-Shinozaki K, Qin F* (2013) Genome-wide analysis of ZmDREB genes and their association with natural variation in drought tolerance at seedling stage of Zea mays L. PLoS Genet, 9(9): e1003790

80. Feng F, Deng F, Zhou P, Yan J, Wang Q, Yang R, Li X (2013) QTL mapping for the tocopherols at milk stage of kernel development in sweet corn. Euphytica,193 (3): 409-417

81. Zhang X, Tang B, Yu F, Li L, Wang M, Xue Y, Zhang Z, Yan J, Yue B, Zheng Y, Qiu F* (2013) Identification of major QTL for waterlogging tolerance using genome-wide association and linkage mapping of maize seedlings. Plant Mol Biol Rep,31(3): 594-606

82. Babu R, Rojas NP, Gao S, Yan J, Pixley K (2013) Validation of the effects of molecular marker polymorphisms in LcyE and CrtRB1 on provitaminA concentrations for 26 tropical maize populations. Theor Appl Genet, 126 (2): 389-399

83. Guo T, Li H, Yan J, Tang J, Li J, Zhang Z, Zhang L, Wang J* (2013) Performance prediction of F1 hybrids between recombinant inbred lines derived from two elite maize inbred lines. Theor Appl Genet,126 (1): 189-201

84. Pan Q, Ali F, Yang X, Li J, Yan J* (2012) Exploring the genetic characteristics of two recombinant inbred line populations via high-density SNP markers in maize. PLoS ONE, 7(12): e52777

85. Xu S, Zhang D, Cai Y, Zhou Y, Shah T, Ali F, Li Q, Li Z, Wang W, Li J, Yang X, Yan J* (2012) Dissectingtocopherols content in maize (Zea mays L.), using two segregating populations and high-density single nucleotide polymorphism markers. BMC Plant Biol, 12:201

86. Li Q, Yang X, Xu S, Cai Y, Zhang D, Han Y, Li L, Zhang Z, Gao S, Li J*, Yan J* (2012) Genome-wide association studies identified three independent polymorphisms associated with α-tocopherol content in maize kernels. PLoS ONE, 7 (5): e36807

87. Ali F, Yan J* (2012) Disease resistance in maize and the role of molecular breeding in defending against global threat. J Integr Plant Biol,54(3): 134-151

88. Zhang P, Allen W, Nagasawa N, Ching A, Heppard E, Li H, Hao X, Li X, Yang X, Yan J, Nagato Y, Sakai H, Shen B, Li J (2012) A transposable element insertion within ZmGE2 gene is associated with increase in embryo to endosperm ratio in maize. Theor Appl Genet,125 (7): 1463-1471

89. Wang M, Yan J, Zhao J, Song W, Zhang X, Xiao Y, Zheng Y (2012) Genome-wide association study (GWAS) of resistance to head smut in maize. Plant Sci,196:125-31

90. Yang X, Ma H, Zhang P, Yan J, Guo Y, Song T, Li J (2012) Characterization of QTL for oil content in maize kernel. Theor Appl Genet, 125 (6): 1169-1179

91. Ullah H, Khalil I, Durrishahwar I, Khalil I, Fayaz M, Yan J, Ali F (2012) Selecting high yielding and stable mungbean [Vignaradiata (L.) Wilczek] genotypes using GGE biplottechniques.Can J Plant Sci,92(5): 951-960

92. Chai Y, Hao X, Yang X, Allen WB, Li J, Yan J, Shen B, Li J (2012) Validation of DGAT1-2 polymorphisms associated with oil content and development of functional markers for molecular breeding of high-oil maize. Mol Breeding,29 (4): 939-949

93. Wen W, Guo T, Tovar VHC, Li H, Yan J, Taba S (2012) The strategy and potential utilization of temperate germplasm for tropical germplasm improvement: a case study of maize (Zea mays L.). Mol Breeding, 29 (4): 951-962

94. Zhou Y, Han Y, Li Z, Fu Y, Fu Z, Xu S, Li J, Yan J, Yang X (2012) ZmcrtRB3 encodes a carotenoid hydroxylase that affects the accumulation of α-carotene in maize kernel. J Integr Plant Biol,54 (4): 260-269

95. Wen W, Franco J, Chavez-Tovar VH, Yan J, Taba S (2012) Genetic characterization of a core set of a tropical maize race Tuxpeño for further use in maize improvement. PLoS ONE, 7 (3): e32626

96. Yang X, Gao S, Xu S, Zhang Z, Prasanna BM, Li L, Li J, Yan J* (2011) Characterization of a global germplasm collection and its potential utilization for analysis of complex quantitative traits in maize. Mol Breeding, 28 (4): 511-526

97. Wen W, Araus JL, Shah T, Cairns J, Mahuku G, Bänziger M, Torres JL, Sánchez C, Yan J* (2011) Molecular characterization of a diverse maize inbred line collection and its potential utilization for stress tolerance improvement. Crop Sci,51 (6): 2569-2581

98. Li L, Li H, Li Q, Yang X, Zheng D, Warburton ML, Chai Y, Zhang P, Guo Y, Yan J*, Li J* (2011) An 11-bp Insertion in Zea mays fatb reduces the palmitic acid content of fatty acids in maize grain. PLoS ONE, 6 (9): e24699

99. Yang X, Xu Y, Shah T, Li H, Han Z, Li J, Yan J* (2011) Comparison of SSRs and SNPs in assessment of genetic relatedness in maize. Genetica,139 (8): 1045-1054

100. Ali F*, Muneer M, Rahman H, Noor M, Durrishahwar, Shaukat S, Yan J (2011) Heritability estimates for yield and related traits based on testcross progeny performance of resistant maize inbred lines. J Food Agric Environ, 9 (3-4): 438-443

101. Yan J*, Warburton ML, Crouch J (2011) Association mapping for enhancing maize (Zea mays L.) genetic improvement. Crop Sci,51 (2): 433-449

102. Zhou J, Guo Y, Gao Y, Li J, Yan J* (2011)A SSR linkage map of maize × teosinte F2 population and analysis of segregation distortion. AgrSci China, 10 (2): 166-174

103. Wen W, Taba S, Shah T, Tovar VHC, Yan J* (2011) Detection of genetic integrity of conserved maize (Zea mays L.) germplasm in genebanks using SNP markers. Genet Resour Crop Ev,58 (2): 189-207

104. Zhou L, Zhang J, Yan J, Song R (2011) Two transposable element insertions are causative mutations for the major domestication gene teosintebranched 1 in modern maize. Cell Res, 21 (8): 1267-1270

105. Liu Y, Subhash C, Yan J, Song C, Zhao J, Li J (2011) Maize leaf temperature responses to drought: Thermal imaging and quantitative trait loci (QTL) mapping. Environ Exp Bot,71(2): 158-165

106. Setter TL, Yan J, Warburton ML, Ribaut JM, Xu Y, Sawkins M, Buckler ES, Zhang Z, Gore MA (2011) Genetic association mapping identifies single nucleotide polymorphisms in genes that affect abscisic acid levels in maize floral tissues during drought. J Exp Bot,62 (2): 701-716

107. Yang X, Yan J*, Shah T, Warburton ML, Li Q, Li L, Gao Y, Chai Y, Fu Z, Zhou Y, Xu S, Bai G, Meng Y, Zheng Y, Li J* (2010) Genetic analysis and characterization of a new maize association mapping panel for quantitative trait loci dissection. Theor Appl Genet, 121 (3): 417-431

108. Li Q, Li L, Yang X, Warburton M, Bai G, Dai J, Li J, Yan J* (2010) Relationship, evolutionary fate and function of two maize co-orthologs of rice GW2 associated with kernel size and weight. BMC Plant Biol,10 (1): 143

109. Li L, Li H, Li J, Xu S, Yang X, Li J, Yan J* (2010) A genome-wide survey of maize lipid-related genes: Candidate genes mining, digital gene expression profiling and co-location with QTL for maize kernel oil. Sci China Life Sci,53(6): 690-700

110. Yan J*, Yang X, Shah T, Sánchez-Villeda H, Li J, Warburton ML, Zhou Y, Crouch JH, Xu Y* (2010) High-throughput SNP genotyping with the GoldenGate assay in maize. Mol Breeding, 25 (3): 441-451

111. Li Q, Yang X, Bai G, Warburton ML, Mahuku G, Gore M, Dai J, Li J*, Yan J* (2010) Cloning and characterization of a putative GS3ortholog involved in maize kernel development. Theor Appl Genet, 120 (4): 753-763

112. Yan J#, Kandianis C#, Harjes C, Bai L, Kim E, Yang X, Skinner D, Fu Z, Mitchell S, Li Q, Fernandez M, Zaharieva M, Babu R, Fu Y, Palacios N, Li J, Dellapenna D, Brutnell T, Buckler ES, Warburton ML, Rocheford T (2010) Rare genetic variation at Zea mays crtRB1 increases β-carotene in maize grain. Nat Genet, 42 (4): 322-327

113. Fu Z#, Yan J#, Zheng Y, Warburton ML, Crouch JH, Li J (2010) Nucleotide diversity and molecular evolution of the PSY1 gene in Zea mays compared to some other grass species. TheorAppl Genet, 120 (4): 709-720

114. Crossa J, Campos GL, Pérez P, Gianola D, Burgueño J, Araus JL, Makumbi D, Singh RP, Dreisigacker S, Yan J, Arief V, Banziger M, Braun HJ (2010) Prediction of genetic values of quantitative traits in plant breeding using pedigree and molecular markers. Genetics, 186 (2): 713-724

115. Du H, Wu H, Yan J, Li J (2010) Effects of basal media, salt concentrations, antioxidant supplements and co-effects on the Agrobacterium-mediated transformation efficiency in maize. AJB, 9 (8): 1135-1143

116. Yang X, Guo Y, Yan J, Zhang J, Song t, Rocheford T, Li J (2010) Major and minor QTL and epistasis contribute to fatty acid compositions and oil concentration in high-oil maize. Theor Appl Genet, 120 (3): 665-678

117. Ortiz R, Taba S, Tovar VHC, Mezzalama M, Xu Y, Yan J, Crouch JH (2010) Conserving and enhancing maize genetic resources as global public goods–a perspective from CIMMYT. Crop Sci, 50 (1): 13-28

118. Tang J, Yan J, Ma X, Teng W, Wu W, Dai J, Dhillon BS, Melchinger AE, Li J (2010) Dissection of the genetic basis of heterosis in an elite maize hybrid by QTL mapping in an immortalized F2 population. Theor Appl Genet, 120 (2): 333-340

119. Yan J, Shah T, Warburton ML*, Buckler ES, McMullen MD, Crouch J (2009) Genetic characterization and linkage disequilibrium estimation of a global maize collection using SNP markers. PLoS ONE, 4 (12): e8451

120. Li Q, Li L, Dai J, Li J, Yan J* (2009) Identification and characterization of CACTA transposable elements capturing gene fragments in maize. Chin Sci Bull, 54 (4), 642-651

121. Lu Y, Yan J, Guimaraes CT, Taba S, Hao Z, Gao S, Chen S, Li J, Zhang S, Vivek BS, Magorokosho C, Makumbi D, Parentoni SN, Shah T, Rong T, Crouch JH, Xu Y (2009) Molecular characterization of global maize breeding germplasm based on genome-wide single nucleotide polymorphisms. TheorAppl Genet, 120 (1): 93-115

122. Liu Z, Yang X, Fu Y, Zhang Y, Yan J, Song T, Rocheford T, Li J (2009) Proteomic analysis of early germs with high-oil and normal inbred lines in maize. Mol Biol Rep, 36 (4): 813-821

123. Chander S, Guo Y, Yang X, Yan J, Zhang Y, Song T, Li J (2008) Genetic dissection of tocopherol content and composition in maize grain using quantitative trait loci analysis and the candidate gene approach. Mol Breeding, 22 (3): 353-365

124. Ding J, Wang X, Chander S, Yan J, Li J (2008) QTL mapping of resistance to Fusarium ear rot using a RIL population in maize. Mol Breeding, 22 (3): 395-403

125. Chander S, Meng Y, Zhang Y, Yan J, Li J (2008) Comparison of nutritional traits variability in selected eighty-seven inbreds from Chinese maize (Zea mays L.) germplasm. J Agr Food Chem,56 (15): 6506-6511

126. Zhang J, Lu X, Song X, Yan J, Song T, Dai J, Rocheford T, Li J (2008) Mapping quantitative trait loci for oil, starch, and protein concentrations in grain with high-oil maize by SSR markers. Euphytica,162 (3): 335-344

127. Harjes C, Rocheford TR, Bai L, Brutnell TP, Kandianis CB, Sowinski SG, Stapleton AE, Vallabhaneni R, Williams M, Wurtzel ET, Yan J, Buckler ES (2008) Natural genetic variation in lycopene epsilon cyclase tapped for maize biofortification. Science, 319 (5861): 330

128. Chander S, Guo Y, Yang X, Zhang J, Lu X, Yan J, Song T, Rocheford T, Li J (2008) Using molecular markers to identify two major loci controlling carotenoid contents in maize grain. Theor Appl Genet, 116 (2): 223-233

129. Ma X, Tang J, Teng W, Yan J, Meng Y, Li J (2007) Epistatic interaction is an important genetic basis of grain yield and its components in maize. Mol Breeding, 20 (1): 41-51

130. Tang J, Teng W, Yan J, Ma X, Meng Y, Dai J, Li J (2007) Genetic dissection of plant height by molecular markers using a population of recombinant inbred lines in maize. Euphytica,155 (1-2): 117-124

131. Tang J, Ma X, Teng W, Yan J, Wu W, Dai J, Li J (2007) Detection of quantitative trait loci and heterotic loci for plant height using an immortalized F-2 population in maize. Chin Sci Bull, 52 (4): 477-483

132. Yan J, Tang H, HuangY, Zheng Y, Subhash C, Li J(2006)A genome scan for quantitative trait loci affecting grain yield and its components of maize both in single-and two-locus levels. Chin Sci Bull, 51 (12): 1452-1461

133. Yan J, Tang H, Huang Y, Zheng Y, Li J (2006) Quantitative trait loci mapping and epistatic analysis for grain yield and yield components using molecular markers with an elite maize hybrid. Euphytica, 149 (1-2): 121-131

134. Lu G, Tang J, Yan J, Ma X, Li J, Chen S, Ma J, Liu Z, Zhang Y, Dai J (2006) Quantitative trait loci mapping of maize yield and its components under different water treatments at flowering time. J Integr Plant Biol,48 (10): 1233-1243

135. Ju C, Zhang F, Gao Y, Zhang W, Yan J, Dai J, Li J (2006) Cloning, chromosome mapping and expression analysis of an R2R3-MYB gene under-expressed in maize hybrid. Mol Biol Rep, 33 (2): 103-110

136. Yan J, Tang H, Huang Y, Shi Y, Li J, Zheng Y (2003) Dynamic analysis of QTL for plant height at different developmental stages in maize (Zea mays L.). Sci Bull, 48 (23): 2601-2607

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