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 Plant Germplasm Introduction and Testing Research: Pullman, WA
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ARS Home Pacific West Area Pullman, Washington Plant Germplasm Introduction and Testing Research People & Locations







Long-Xi  Yu
                        Plant Germplasm Introduction and Testing Research

                        




                        
                        Research Geneticist (Plants)
                        Phone: (509) 786-9259
                        
                        
                        Fax: (Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsGenetic Improvement of Alfalfa for Enhanced Productivity under Abiotic Stress
                                                    In-House Appropriated
                                                                    (D)Accession Number: 445776**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Genetic mapping of tolerance to bacterial stem blight caused by Pseudomonas syringae pv. syringae in alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Moya, Y.S., Medina, C., Herrera, B., Chamba, F., Yu, L., Xu, Z., Samac, D.A. 2023. Genetic mapping of tolerance to bacterial stem blight caused by Pseudomonas syringae pv. syringae in alfalfa (Medicago sativa L.). Plants. 12(1). Article 110. https://doi.org/10.3390/plants13010110.Structural reorganization in two alfalfa mitochondrial genome assemblies and mitochondrial evolution in Medicago species
                                                        

- (Peer Reviewed Journal)He, X., Zhang, X., Deng, Y., Yang, R., Yu, L., Jia, S., Zhang, T. 2023. Structural reorganization in two alfalfa mitochondrial genome assemblies and mitochondrial evolution in Medicago species. International Journal of Molecular Sciences. 24:17334. https://doi.org/10.3390/ijms242417334.Development of a mid-density genotyping platform for alfalfa and its application in a drought tolerance breeding program

- (Abstract Only)Sandercock, A.M., Sapkota, M., Medina, C.M., Xu, Z., Yu, L., Zhao, D., Mejia-Guerra, K., Mollinari, M., Samac, D.A., Irish, B.M., Heller-Uszynska, K., Beil, C.T., Sheehan, M.J. 2024. Development of a mid-density genotyping platform for alfalfa and its application in a drought tolerance breeding program. Plant and Animal Genome Conference. San Diego, California. January 12-17, 2024.Linking phenotypes to protein characteristics in 3D structures predicted by AlphaFold
                                                        

- (Other)Parajuli, A., Brueggeman, R., Wagner, S., Warburton, M.L., Peel, M., Yu, L., See, D.R., Zhang, Z. 2023. Linking phenotypes to protein characteristics in 3D structures predicted by AlphaFold. Preprints. https://doi.org/10.20944/preprints202305.1102.v1.Bulked target capture sequencing identified numerous genetic loci associated with alfalfa growth vigor during inbreeding
                                                        

- (Other)Parajuli, A., Brueggeman, R., Wagner, S., Warburton, M.L., Peel, M., Yu, L., See, D.R., Zhang, Z. 2023. Bulked target capture sequencing identified numerous genetic loci associated with alfalfa growth vigor during inbreeding. Preprints. https://doi.org/10.20944/preprints202305.0898.v1.Identification of genetic loci associated with five agronomic traits in alfalfa using multi-environment trials
                                                        

- (Peer Reviewed Journal)Lin, S., Medina, C., Wang, G., Combs, D., Shewmaker, G., Fransen, S., Llewellyn, D., Norberg, S., Yu, L. 2023. Identification of genetic loci associated with five agronomic traits in alfalfa using multi-environment trials. Journal of Theoretical and Applied Genetics. 136. Article 121. https://doi.org/10.1007/s00122-023-04364-4.Mapping disease resistance genes in alfalfa

- (Abstract Only)Samac, D.A., Medina, C.A., Yu, L., Sierra-Moya, Y., Zhao, D., Lin, M., Mejia-Guerra, K., Beil, C., Sheehan, M. 2023. Mapping disease resistance genes in alfalfa. Plant and Animal Genome. January 13-18, 2023. San Diego, California.Accuracy of genomic selection for alfalfa biomass yield in two full-sib populations
                                                        

- (Peer Reviewed Journal)He, X., Zhang, F., He, F., Shen, Y., Yu, L., Zhang, T., Kang, J. 2022. Accuracy of genomic selection for alfalfa biomass yield in two full-sib populations. Frontiers in Plant Science. 13. Article 1037272. https://doi.org/10.3389/fpls.2022.1037272.Identification of QTL and candidate genes associated with biomass yield and feed quality in response to water deficit in alfalfa (Medicago sativa L.) using linkage mapping and RNA-Seq
                                                        

- (Peer Reviewed Journal)Jiang, X., Yu, A., Zhang, F., Yang, T., Wang, C., Gao, T., Yang, Q., Yu, L., Wang, Z., Kang, J. 2022. Identification of QTL and candidate genes associated with biomass yield and feed quality in response to water deficit in alfalfa (Medicago sativa L.) using linkage mapping and RNA-Seq. Frontiers in Plant Science. 13. Article 996672. https://doi.org/10.3389/fpls.2022.996672.Recent structural variations in the Medicago chloroplast genomes and their horizontal transfer into nuclear chromosomes
                                                        

- (Peer Reviewed Journal)Jiao, Y., He, X., Song, R., Wang, X., Zhang, H., Aili, R., Chao, Y., Shen, Y., Yu, L., Zhang, T., Jia, S. 2022. Recent structural variations in the Medicago chloroplast genomes and their horizontal transfer into nuclear chromosomes. Journal of Systematics and Evolution. 61(4):627-642. https://doi.org/10.1111/jse.12900.Two linked resistance genes function divergently in defence against Verticillium wilt in alfalfa
                                                        

- (Peer Reviewed Journal)Lin, S., Niu, Y., Medina, C., Yu, L. 2022. Two linked resistance genes function divergently in defence against Verticillium wilt in alfalfa. Plant Biotechnology Journal. 20(4):619-621. https://doi.org/10.1111/pbi.13779.Genome assembly of alfalfa cultivar Zhongmu-4 and identification of SNPs associated with agronomic traits
                                                        

- (Peer Reviewed Journal)Long, R., Zhang, F., Zhang, Z., Li, M., Chen, L., Wang, X., Liu, W., Zhang, T., Yu, L., He, F., Jiang, X., Yang, X., Yang, C., Wang, Z., Kang, J., Yang, Q. 2022. Genome assembly of alfalfa cultivar Zhongmu-4 and identification of SNPs associated with agronomic traits. Genomics, Proteomics and Bioinformatics. 20(1):14-28. https://doi.org/10.1016/j.gpb.2022.01.002.Strategies to increase prediction accuracy in genomic selection of complex traits in alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Medina, C., Kaur, H., Ray, I., Yu, L. 2021. Strategies to increase prediction accuracy in genomic selection of complex traits in alfalfa (Medicago sativa L.). Cells. 10(12). Article 3372. https://doi.org/10.3390/cells10123372.Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Medina, C., Samac, D.A., Yu, L. 2021. Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in alfalfa (Medicago sativa L.). Scientific Reports. 11. Article 17203. https://doi.org/10.1038/s41598-021-96712-x.Genetic and genomic assessments for improving drought resilience in alfalfa
                                                        

- (Book / Chapter)Yu, L., Medina, C., Peel, M. 2021. Genetic and genomic assessments for improving drought resilience in alfalfa. In: Yu LX., Kole C., editors. The Alfalfa Genome. Compendium of Plant Genomes. Springer. Cham, Switzerland. p.235-253. https://doi.org/10.1007/978-3-030-74466-3_14.Developing SNPs and strategies for genomic analysis in alfalfa
                                                        

- (Book / Chapter)Medina, C., Yu, L. 2021. Developing SNPs and strategies for genomic analysis in alfalfa. In: Yu LX., Kole C., editors. The Alfalfa Genome. Compendium of Plant Genomes. Springer. Cham, Switzerland. pp.159-175. https://doi.org/10.1007/978-3-030-74466-3_10.Self-incompatibility, inbreeding depression, and potential to develop inbred lines in alfalfa
                                                        

- (Book / Chapter)Parajuli, A., Yu, L., Peel, M., See, D.R., Wager, S., Norberg, S., Zhang, Z. 2021. Self-incompatibility, inbreeding depression, and potential to develop inbred lines in alfalfa. In: Yu LX., Kole C., editors. The Alfalfa Genome. Compendium of Plant Genomes. Springer. Cham, Switzerland. p.255-269. https://doi.org/10.1007/978-3-030-74466-3_15.Identification and characterization of disease resistance genes in alfalfa and Medicago truncatula for breeding improved cultivars
                                                        

- (Book / Chapter)Samac, D.A., Yu, L., Missaoui, A.M. 2021. Identification and characterization of disease resistance genes in alfalfa and Medicago truncatula for breeding improved cultivars. In: Yu,X. and Kole, C., editors. The Alfalfa Genome, Compendium of Plant Genomics. Springer, Cham:Switzerland. p. 211-233. https://doi.org/10.1007/978-3-030-74466-3_13.Genome-wide association studies identifying multiple loci associated with alfalfa forage quality
                                                        

- (Peer Reviewed Journal)Lin, S., Medina, C., Norberg, S., Combs, D., Wang, G., Shewmaker, G., Fransen, S., Llewellyn, D., Yu, L. 2021. Genome-wide association studies identifying multiple loci associated with alfalfa forage quality. Journal of Genetics and Genomics. 12. Article 648192. https://doi.org/10.3389/fpls.2021.648192.Validation of UAV-based alfalfa biomass predictability using photogrammetry with fully automatic plot segmentation
                                                        

- (Peer Reviewed Journal)Tang, Z., Parajuli, A., Chen, C., Hu, Y., Revolinski, S., Medina, C., Lin, S., Zhang, Z., Yu, L. 2021. Validation of UAV-based alfalfa biomass predictability using photogrammetry with fully automatic plot segmentation. Scientific Reports. 11(1). Article 3336. https://doi.org/10.1038/s41598-021-82797-x.Alfalfa (Medicago sativa L.) crop vigor and yield characterization using high resolution aerial multispectral and thermal infrared imaging technique
                                                        

- (Peer Reviewed Journal)Chandel, A., Khot, L., Yu, L. 2021. Alfalfa (Medicago sativa L.) crop vigor and yield characterization using high resolution aerial multispectral and thermal infrared imaging technique. Computers and Electronics in Agriculture. 182. Article 105999. https://doi.org/10.1016/j.compag.2021.105999.Self-incompatibility, inbreeding depression, and potential to develop inbred lines in alfalfa: A review
                                                        

- (Pre-print Publication)Parajuli, A., Yu, L., Peel, M., See, D.R., Wager, S., Norberg, S., Zhang, Z. 2020. Self-incompatibility, inbreeding depression, and potential to develop inbred lines in alfalfa: A review. Preprints. 1-18. https://doi.org/10.20944/preprints202011.0390.v1.Identification of genetic loci associated with forage quality in response to water deficit in autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Lin, S., Medina, C., Boge, B., Hu, J., Fransen, S., Norberg, S., Yu, L. 2020. Identification of genetic loci associated with forage quality in response to water deficit in autotetraploid alfalfa (Medicago sativa L.). Biomed Central (BMC) Plant Biology. 20. https://doi.org/10.1186/s12870-020-02520-2.Construction of high-density genetic linkage map and mapping quantitative trait loci (QTL) for flowering time in autotetraploid alfalfa (Medicago sativa L.) using genotyping by sequencing
                                                        

- (Peer Reviewed Journal)Zhang, F., Kang, J., Long, R., Yu, L., Sun, Y., Wang, Z., Zhao, Z., Zhang, T., Yang, Q. 2020. Construction of high-density genetic linkage map and mapping quantitative trait loci (QTL) for flowering time in autotetraploid alfalfa (Medicago sativa L.) using genotyping by sequencing. The Plant Genome. 13(3). Article e20045. https://doi.org/10.1002/tpg2.20045.Quantitative trait locus mapping of yield and plant height in autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)He, F., Long, R., Zhang, T., Zhang, F., Wang, Z., Yang, X., Jiang, X., Yang, C., Zhi, X., Li, M., Yu, L., Kang, J., Yang, Q. 2020. Quantitative trait locus mapping of yield and plant height in autotetraploid alfalfa (Medicago sativa L.). The Crop Journal. 8(5):812-818. https://doi.org/10.1016/j.cj.2020.05.003.Genome-wide association and prediction of traits related to salt tolerance in autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Medina, C., Hawkins, C., Liu, X., Peel, M., Yu, L. 2020. Genome-wide association and prediction of traits related to salt tolerance in autotetraploid alfalfa (Medicago sativa L.). International Journal of Molecular Sciences. 21:3361. https://doi.org/10.3390/ijms21093361.Construction of high-density linkage maps and identification of quantitative trait loci associated with verticillium wilt resistance in autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Yu, L., Zhang, F., Culma, C., Lin, S., Niu, Y., Zhang, T., Yang, Q., Smith, M., Hu, J. 2020. Construction of high-density linkage maps and identification of quantitative trait loci associated with verticillium wilt resistance in autotetraploid alfalfa (Medicago sativa L.). Plant Disease. 104(5):1439-1444. https://doi.org/10.1094/PDIS-08-19-1718-RE.Genetic mapping of leaf-related traits in autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)He, F., Kang, J., Zhang, F., Long, R., Yu, L., Wang, Z., Zhao, Z., Zhang, T., Yang, Q. 2019. Genetic mapping of leaf-related traits in autotetraploid alfalfa (Medicago sativa L.). Molecular Breeding. 39. https://doi.org/10.1007/s11032-019-1046-8.High-density linkage map construction and mapping QTLs for yield and yield components in autotetraploid alfalfa using RAD-seq
                                                        

- (Peer Reviewed Journal)Zhang, F., Kang, J., Long, R., Yu, L., Wang, Z., Zhao, Z., Zhang, T., Yang, Q. 2019. High-density linkage map construction and mapping QTLs for yield and yield components in autotetraploid alfalfa using RAD-seq. Biomed Central (BMC) Plant Biology. 19(165):1-12. https://doi.org/10.1186/s12870-019-1770-6.Mark E. Sorrells: Plant breeder, geneticist, innovator, mentor
                                                        

- (Book / Chapter)Gul, A., Diepenbock, C., Munkvold, J., Paterson, A., Kucek, L.K., Souze, E., La Rota, M., Yu, L. 2019. Mark E. Sorrells: Plant breeder, geneticist, innovator, mentor. In: Goldman, I., editor. Plant Breeding Reviews, Volume 42. Hoboken, NJ: John Wiley & Sons, Inc. p. 1-38. https://doi.org/10.1002/9781119521358.ch1.Genetic loci associated with salt tolerance in advanced breeding populations of tetraploid alfalfa using genome-wide association studies
                                                        

- (Peer Reviewed Journal)Liu, X., Hawkins, C., Peel, M., Yu, L. 2019. Genetic loci associated with salt tolerance in advanced breeding populations of tetraploid alfalfa using genome-wide association studies. The Plant Genome. 12:180026. https://doi.org/10.3835/plantgenome2018.05.0026.Genetic mapping of resistance to Aphanomyces root rot in alfalfa

- (Proceedings)Genetic mapping of resistance to Aphanomyces root rot in alfalfa

- (Abstract Only)Samac, D.A., Dornbusch, M.R., Bucciarelli, B., Miller, S.S., Yu, L. 2018. Genetic mapping of resistance to Aphanomyces root rot in alfalfa. North American Alfalfa Improvement Conference. June 4-6, 2018, Logan, Utah.Enhancing faba bean (Vicia faba L.) germplasm for resilience to temperature extremes

- (Abstract Only)Recent progress in alfalfa (Medicago sative L.) genomics and genomic selection
                                                        

- (Peer Reviewed Journal)Hawkins, C., Yu, L. 2018. Recent progress in alfalfa (Medicago sative L.) genomics and genomic selection. The Crop Journal. https://doi.org/10.1016/j.cj.2018.01.006.Genomic Architecture and Phenotypic Plasticity of Forage Quality in Response to Water Deficit in Alfalfa (Medicago sativa L.)

- (Abstract Only)Yu, L., Boge, W.L., Hawkins, C., Fransen, S. 2018. Genomic Architecture and Phenotypic Plasticity of Forage Quality in Response to Water Deficit in Alfalfa (Medicago sativa L.). Meeting Abstract. https://pag.confex.com/pag/xxvi/meetingapp.cgi/Person/38114.Genetic diversity and phenotypic variation for drought resistance in alfalfa (Medicago sativa L.) germplasm collected for drought tolerance
                                                        

- (Peer Reviewed Journal)Zhang, T., Kesoju, S., Greene, S.L., Frasen, S., Hu, J., Yu, L. 2017. Genetic diversity and phenotypic variation for drought resistance in alfalfa (Medicago sativa L.) germplasm collected for drought tolerance. Genetic Resources and Crop Evolution. 65(2):471-484. https://doi.org/10.1007/s10722-017-0546-9.Identification of single-nucleotide polymorphic loci associated with biomass yield under water deficit in alfalfa (Medicago sativa L.) using genome-wide sequencing and association mapping
                                                        

- (Peer Reviewed Journal)Yu, L. 2017. Identification of single-nucleotide polymorphic loci associated with biomass yield under water deficit in alfalfa (Medicago sativa L.) using genome-wide sequencing and association mapping. Frontiers in Plant Science. 8:1152. https://doi.org/10.3389/fpls.2017.01152.Identification of loci Associated with Resistance to Root-Rot Diseases in Autotetraploid Alfalfa using Genome-Wide Sequencing and Association Mapping

- (Abstract Only)Identification of markers associated with race-specific resistance to Aphanomyces root rot in alfalfa

- (Abstract Only)Samac, D.A., Bucciarelli, B., Dornbusch, M.R., Miller, S.S., Yu, L. 2017. Identification of markers associated with race-specific resistance to Aphanomyces root rot in alfalfa. American Phytopathological Society. August 5-9, 2017. San Antonio, Texas.Genome-wide association mapping of loci associated with plant growth and forage production under salt stress in alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Liu, X., Yu, L. 2017. Genome-wide association mapping of loci associated with plant growth and forage production under salt stress in alfalfa (Medicago sativa L.). Frontiers in Plant Science. 8:853. https://doi.org/10.3389/fpls.2017.00853.The impact of genotyping-by-sequencing pipelines on SNP discovery and identification of markers associated verticillium wilt resistance in autotetraploid alfalfa (Medicago sativa l.)
                                                        

- (Peer Reviewed Journal)Yu, L., Zheng, P., Bhamidimarri, S., Liu, X., Main, D. 2017. The impact of genotyping-by-sequencing pipelines on SNP discovery and identification of markers associated verticillium wilt resistance in autotetraploid alfalfa (Medicago sativa l.). Frontiers in Plant Science. 8:89. https://doi.org/10.3389/fpls.2017.00089.Identification and validation of single nucleotide polymorphic markers linked to Ug99 stem rust resistance in spring wheat
                                                        

- (Peer Reviewed Journal)Yu, L., Chao, S., Singh, R., Sorrells, M. 2017. Identification and validation of single nucleotide polymorphic markers linked to Ug99 stem rust resistance in spring wheat. PLoS One. doi: 10.1371/journal.pone.0171963.Genome-wide association study identifies loci for salt tolerance during germination in autotetraploid alfalfa (Medicago sativa L.) using genotyping-by-sequencing
                                                        

- (Peer Reviewed Journal)Yu, L., Liu, X., Boge, W.L., Liu, X. 2016. Genome-wide association study identifies loci for salt tolerance during germination in autotetraploid alfalfa (Medicago sativa L.) using genotyping-by-sequencing. Frontiers in Plant Science. 7:956. https://doi.org/10.3389/fpls.2016.00956.Genomic Analysis of Verticillium Wilt Resistance and Drought Tolerance in Alfalfa

- (Abstract Only)Genotyping-by-sequencing based genome-wide association studies on Verticillium wilt resistance in heterozygous autotetraploid alfalfa (Medicago sativa L.)
                                                        

- (Peer Reviewed Journal)Yu, L., Zheng, P., Zhang, T., Rodriguez, J., Main, D. 2016. Genotyping-by-sequencing based genome-wide association studies on Verticillium wilt resistance in heterozygous autotetraploid alfalfa (Medicago sativa L.). Molecular Plant Pathology. 18(2):187-194. https://doi.org/10.1111/mpp.12389.Comparative transcriptomes between viviparous1 and wildtype maize developing endosperms in response to water deficit

- (Peer Reviewed Journal)Yu, L., Setter, T. 2015. Comparative transcriptomes between viviparous1 and wildtype maize developing endosperms in response to water deficit. Environmental and Experimental Botany. 123:116–124.Identification of loci associated with drought resistance traits in heterozygous autotetraploid alfalfa (Medicago sativa L.) using genome-wide association studies with genotyping by sequencing
                                                        

- (Peer Reviewed Journal)Zhang, T., Yu, L., Zheng, P., Li, Y., Rivera, M.C., Main, D., Greene, S.L. 2015. Identification of loci associated with drought resistance traits in heterozygous autotetraploid alfalfa (Medicago sativa L.) using genome-wide association studies with genotyping by sequencing. PLoS One. 1-17. https://doi.org/10.1371/journal.pone.0138931.Identification of molecular markers associated with verticillium wilt resistance in alfalfa (Medicago sativa l.) using high-resolution melting
                                                        

- (Peer Reviewed Journal)Zhang, T., Yu, L., Mccord, P.H., Miller, D., Bhamidimarri, S., Johnson, D., Monteros, M., Ho, J., Reisen, P., Samac, D.A. 2014. Identification of molecular markers associated with verticillium wilt resistance in alfalfa (Medicago sativa l.) using high-resolution melting. PLoS One. 1-18. https://doi.org/10.1371/journal.pone.0115953.Molecular and functional characterization of two drought-induced zinc finger proteins, ZmZnF1 and ZmZnF2 from maize kernels

- (Peer Reviewed Journal)Yu, L., Shen, X., Setter, T. 2014. Molecular and functional characterization of two drought-induced zinc finger proteins, ZmZnF1 and ZmZnF2 from maize kernels. Environmental and Experimental Botany. 111:13-20.Conserving plants in gene banks and nature: Investigating complementarity with Trifolium thompsonii Morton

- (Peer Reviewed Journal)Greene, S.L., Kisha, T.J., Yu, L., Parra-Quijano, M. 2014. Conserving plants in gene banks and nature: Investigating complementarity with Trifolium thompsonii Morton. PLoS One. 9(8):e105145.A consensus map for Ug99 stem rust resistance loci in wheat

- (Peer Reviewed Journal)Yu, L., Hugues, B., Rouse, M.N., Singh, S., Singh, R.P., Bhavani, S., Huerta-Espino, J., Sorrells, M.E. 2014. A Consensus Map for Ug99 Stem Rust Resistance Loci in Wheat. Theoretical and Applied Genetics. Available: http://link.springer.com/article/10.1007%2Fs00122-014-2326-7.Molecular and cellular characterization of the tomato pollen profilin, LePro1

- (Peer Reviewed Journal)Yu, L., Parthasarathy, M. 2014. Molecular and cellular characterization of the tomato pollen profilin, LePro1. PLoS One. DOI:10.1371/journal.pone.0086505.


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