Dr. Fu Yan

    Personal information

    Full name: Fu Yan 

    Title: Professor

    Nationality: USA

    College of Coastal Agriculture, Department of Biotechnology


    ORCID ID0000-0003-1658-7494

    Education and Honors 

    Postdoctoral fellow (2006) in Bioinformatics, data mining, genomics, and molecular evolution, Donald Danforth Plant Science Center, Saint Louis, MO, USA

    Ph.D. in Genetics (2005) with minor in Bioinformatics and Computational Biology, Iowa State University, Ames, IA , USA. Dissertation: Analysis of the maize (Zea mays L.) genome using molecular, genetic and computational approaches (Gamma Sigma Delta Honor Society, 2002)

    M.S. in Crop Genetics and Breeding (1998), South China Agricultural University, Guangzhou, P. R. China

    B.S. in Genetics (1995), Wuhan University, Wuhan, P. R. China (The first prize of WU People Scholarship in 1992 and 1993)

    Publication List

    As Corresponding author (4)

    1. Tang Y, Fu Y. Class 2 CRISPR/Cas: an expanding biotechnology toolbox for and beyond genome editing. Cell & Biosci. 2018 Nov 12;8:59. doi: 10.1186/s13578-018-0255-x. PMID: 30459943; PMCID: PMC6233275.  

    2. Lü, P., He, Y., Lin, F., Pan, Y., Yu, Q., Guo, Z., Li, C., Wang, H., Yao, Q., Fu, Y. and Chen, K., 2019. Rapid detection of Bombyx mori bidensovirus by loop-mediated isothermal amplification based lateral flow dipstick assay for field applications. Journal of invertebrate pathology, 163, pp.75-81.

    3. Zhang, B., Zhao, N., Liu, Y., Jia, L., Fu, Y., He, X., Liu, K., Xu, Z. and Bao, B., 2019. Novel molecular markers for high-throughput sex characterization of Cynoglossus semilaevis. Aquaculture, 513, p.734331. 

    4. Zhang, H., Yu, X., Zhang, Z., Liu, Z., Tang, C., Zhao, K., ... & Fu, Y. (2020). Nanoliter-scale next-generation sequencing library-mediated high-throughput 16S rRNA microbial community profiling. BioTechniques, 68(4), 204-210.

    As first or co-first author (9)

    1. Yan Fu, An-Ping Hsia, Ling Guo, Patrick S. Schnable. (2004) Types and frequencies of sequencing errors in methylation-filtered and high-Cot maize genome survey sequences. Plant Physiol.135: 2040-20455

    2. Yan Fu, Scott J. Emrich, Ling Guo, Tsui-Jung Wen, Srinivas Aluru, Daniel A. Ashlock, and Patrick S. Schnable (2005) Quality assessment of maize assembled genomic islands (MAGIs) and large-scale experimental verification of predicted novel genes. Proc Natl Acad Sci U S A. 102:12282-7.

    3. Wei, Hui, Yan Fu, and Rajeev Arora (2005) Intron-flanking EST–PCR markers: from genetic marker development to gene structure analysis in Rhododendron. Theoretical and applied genetics 111, no. 7: 1347-1356. 

    4. Fu Y, TJ Wen, YI Ronin, HD Chen, L Guo, DI Mester, Y Yang, M Lee, AB Korol, DA Ashlock, PS Schnable (2006) Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize. Genetics, 174(3): 1671-1683.

    5. Wei, Hui, Yan Fu, and Rajeev Arora. "Utilization of intron-flanking EST-specific markers in the phylogenetic analysis and parentage identification of Rhododendron species and hybrids." Journal of the American Society for Horticultural Science 131, no. 6 (2006): 814-819.

    6. Yan Fu, Bannach O, Chen H, Teune JH, Schmitz A, Steger G, Xiong LM, and Barbazuk WB. (2009) Alternative Splicing of Anciently Exonized 5S rRNA Regulates Plant Transcription Factor TFIIIA. Genome Research. 2009 May;19(5):913-21.

    7. Fu Y, Springer NM, Ying K, Yeh C-T, Iniguez AL, et al. 2010 High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes. PLoS ONE 5(12): e14178. 

    8. Yan Fu, NM. Springer, DJ. Gerhardt, K Ying, C-T Yeh, W Wu, R Swanson-Wagner, N Aoyama, T. Richmond, WB Barbazuk, Jeffrey A. Jeddeloh, PS. Schnable. (2010) Repeat subtraction-mediated sequence capture from a complex genome. Plant Journal. 2010 Jun 1:62(5):898-909(Epub: 4 Mar 2010; Cover image; Selected by journal editors as a "Featured Article"; Selected as an Editors' Choice by MaizeGDB, 09/2010)  

    9. Wei, Hui, Yan Fu, Lauren Magnusson, John O. Baker, Pin-Ching Maness, Qi Xu, Shihui Yang et al. Comparison of transcriptional profiles of Clostridium thermocellum grown on cellobiose and pretreated poplar using RNA-Seq. Frontiers in Microbiology.  2014 Apr 11;5:142

    Other publications (18)

    1. Chuxiong Zhuang, Yan Fu, Guiquan Zhang, Mantong Mei, Yonggen Lu. (2002) Molecular mapping of S-c, an F1 pollen sterility gene in cultivated rice. Euphytica 127:133-138

    2. Scott J. Emrich, Srinivas Aluru, Yan Fu, Tsui-Jung Wen, Mahesh Narayanan, Ling Guo, Daniel A. Ashlock and Patrick S. S. (2004) A Strategy for Assembling the Maize (Zea mays L.) Genome. Bioinformatics. 20(2): 140-147. 

    3. Hong Yao, Ling Guo, Yan Fu, Lisa A. Borsuk, Tsui-Jung Wen, David S. Skibbe Xiangqin Cui, Brian E. Scheffler, Jun Cao, Scott J. Emrich, Daniel A. Ashlock and Patrick S. Schnable. (2005) Evaluation of seven ab initio gene prediction programs for the discovery of maize genes. Plant Molecular Biology. 57(3): 445-460.

    4. Hui Wei, Anik L. Dhanaraj, Lisa J. Rowland, Yan Fu, Stephen L. Krebs and Rajeev Arora. (2005) Comparative analysis of expressed sequence tags from cold acclimated and non-acclimated leaves of Rhododendron catawbiense Michx. Planta. 221(3): 406-416.

    5. Hui Wei, Anik L. Dhanaraj, Rajeev Arora, Lisa J. Rowland, Yan Fu, and Li Sun (2006) Identification of cold acclimation responsive Rhododendron genes for lipid metabolism, membrane transport, and lignin biosynthesis: importance of moderately abundant ESTs in genomic studies. Plant, Cell & Environment. 29:558-570.  

    6. Diana Dembinsky, Katrin Woll, Muhammad Saleem, Yan Liu, Yan Fu, Lisa A. Borsuk, Tobias Lamkemeyer, Claudia Fladerer, Johannes Madlung, Brad Barbazuk, Alfred Nordheim, Dan Nettleton, Patrick S. Schnable, and Frank Hochholdinger (2007) Transcriptomic and proteomic analyses of pericycle cells of the maize (Zea mays L.) primary root. Plant Physiol. Nov;145(3):575-88.

    7. Scott J Emrich, Li Li, Tsui-Jung Wen, Marna D Yandeau, Yan Fu, Ling Guo, Hui-Hsien Chou, Srinivas Aluru, Daniel A Ashlock, and Patrick S Schnable (2007) Nearly identical paralogs (NIPs): implications for maize (Zea mays L.) genome evolution. Genetics. 175(1): 429-39.

    8. Senthil Subramanian, Yan Fu, Ramanjulu Sunkar, W. Brad Barbazuk, Jian-Kang Zhu, and Oliver Yu (2008) Novel and nodulation-regulated microRNAs in soybean roots. BMC Genomics. Apr 10; 9:160. 

    9. Brad Barbazuk, Yan Fu, Karen M. McGinnis (2008) Genome-wide analyses of alternative splicing in plants: Opportunities and Challenges. Genome Research. 18(9):1381-92. 

    10. Liu S, CT Yeh, T Ji, K Ying, H Wu, HM Tang, Yan Fu, DS Nettleton, PS Schnable (2009) Mu transposon insertion sites and meiotic recombination events co-localize with epigenetic markers for open chromatin across the maize genome. PLoS Genetics, 5(11): e1000733.

    11. Feng Liu, Yan Fu, Frank L. Meyskens, Jr. (2009) MiTF regulates cellular response to reactive oxygen species through transcriptional regulation of APE-1/Ref-1. Journal of Investigative Dermatology. 2009 Feb;129(2):422-31.

    12. Schnable PS, Ware D, Fulton RS, Stein JC, Wei F,...Fu, Y... Wilson RK. (2009) The B73 maize genome: complexity, diversity, and dynamics. Science. 326(5956):1112-5.  

    13. Springer NM, Kai Ying, Yan Fu, T Ji, CT Yeh, Y Jia, W Wu, T Richmond, J Kitzman, H Rosenbaum, AL Iniguez, WB Barbazuk, JA Jeddeloh, DS Nettleton, PS Schnable (2009) Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content. PLoS Genet. 5(11):e1000734.(Selected as an Editors' Choice by MaizeGDB, 12/2009). 

    14. Yong-Dun Xie, Wenbin Li, Dianjing Guo, Qing Zhang, Yan Fu, Dongtao Ren, Ming Peng, Yiji Xia. (2010) The Arabidopsis gene SIGMA FACTOR-BINDING PROTEIN 1 plays a role in the salicylate- and jasmonate-mediated defense responses. Plant, Cell & Environment. 2010 May; 33(5):828-39. 

    15. Lai J, R Li, X Xu, W Jin, M Xu, H Zhao, Z Xiang, W Song, K Ying, M Zhang, Y Jiao, P Ni, J Zhang, D Li, X Guo, K Ye, M Jian, B Wang, H Zheng, H Liang, X Zhang, S Wang, S Chen, J Li, Y Fu, NM Springer, H Yang, J Wang, J Dai, PS Schnable, J Wang (2010) Genome-wide patterns of genetic variation among elite maize inbred lines. Nat Genet, 42(11): 1027-1030.(Cover image; "Recommended" by the Faculty of 1000 Biology) 

    16. Nils Muthreich, Christine Majer, Mary Beatty, Anja Paschold, André Schützenmeister, Yan Fu, Waqas Ahmed Malik, Patrick S Schnable, Hans-Peter Piepho, Hajime Sakai, Frank Hochholdinger. 2013. Comparative Transcriptome Profiling of Maize Coleoptilar Nodes during Shoot-Borne Root Initiation. Plant physiology 163:1. 419-430.

    17. Feng X, Keim D, Wanjugi H, Coulibaly I, Fu Y, Schwarz J, Huesgen S, Cho S. Development of molecular markers for genetic male sterility in Gossypium hirsutum (2015). Molecular Breeding. 35(6):141. 

    18. Wen D, Sun S, Liu Y, Li J, Yang Z, Kureshi A, Fu Y, Li H, Jiang B, Jin C, Cai J, Zha L. Considering the flanking region variants of nonbinary SNP and phenotype-informative SNP to constitute 30 microhaplotype loci for increasing the discriminative ability of forensic applications. Electrophoresis. 2021 May;42(9-10):1115-1126. doi: 10.1002/elps.202000341. Epub 2021 Feb 5. PMID: 33483973




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