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Jia-Xing Yue, Ph.D. - Publications

Affiliations: 
2003-2007 School of Life Sciences Nanjing University, Nanjing Shi, Jiangsu Sheng, China 
 2007-2010 School of Life Sciences Nanjing University, Nanjing Shi, Jiangsu Sheng, China 
 2010-2015 Ecology and Evolutionary Biology Rice University, Houston, TX 
 2015-2019 Institute for Research in Cancer and Aging, Nice (IRCAN) Centre National de la Recherche Scientifique, Rennes, Bretagne, France 
 2019- State Key Laboratory of Oncology in South China sun yat-sen university cancer center 
Area:
evolutionary genomics
Website:
www.evomicslab.org
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37 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Miao Z, Wang H, Tu X, Huang Z, Huang S, Zhang X, Wang F, Huang Z, Li H, Jiao Y, Gao S, Zhou Z, Shan CM, Li J, Yue JX. GetPrimers: A generalized PCR-based genetic targeting primer designer enabling easy and standardized targeted gene modification across multiple systems. Yeast (Chichester, England). PMID 38041528 DOI: 10.1002/yea.3916  0.423
2023 Li J, Stenberg S, Yue JX, Mikhalev E, Thompson D, Warringer J, Liti G. Genome instability footprint under rapamycin and hydroxyurea treatments. Plos Genetics. 19: e1011012. PMID 37931001 DOI: 10.1371/journal.pgen.1011012  0.687
2023 O'Donnell S, Yue JX, Saada OA, Agier N, Caradec C, Cokelaer T, De Chiara M, Delmas S, Dutreux F, Fournier T, Friedrich A, Kornobis E, Li J, Miao Z, Tattini L, et al. Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae. Nature Genetics. PMID 37524789 DOI: 10.1038/s41588-023-01459-y  0.758
2023 El Maï M, Bird M, Allouche A, Targen S, Şerifoğlu N, Lopes-Bastos B, Guigonis JM, Kang D, Pourcher T, Yue JX, Ferreira MG. Gut-specific telomerase expression counteracts systemic aging in telomerase-deficient zebrafish. Nature Aging. PMID 37142828 DOI: 10.1038/s43587-023-00401-5  0.238
2023 Tu X, Wang F, Liti G, Breitenbach M, Yue JX, Li J. Spontaneous Mutation Rates and Spectra of Respiratory-Deficient Yeast. Biomolecules. 13. PMID 36979436 DOI: 10.3390/biom13030501  0.685
2022 D'Angiolo M, Yue JX, De Chiara M, Barré BP, Panis MG, Gilson E, Liti G. Telomeres are shorter in wild Saccharomyces cerevisiae isolates than in domesticated ones. Genetics. PMID 36563016 DOI: 10.1093/genetics/iyac186  0.776
2022 Stenberg S, Li J, Gjuvsland AB, Persson K, Demitz-Helin E, González Peña C, Yue JX, Gilchrist C, Ärengård T, Ghiaci P, Larsson-Berghund L, Zackrisson M, Smits S, Hallin J, Höög JL, et al. Genetically controlled mtDNA deletions prevent ROS damage by arresting oxidative phosphorylation. Elife. 11. PMID 35801695 DOI: 10.7554/eLife.76095  0.752
2022 Li J, Llorente B, Liti G, Yue JX. RecombineX: A generalized computational framework for automatic high-throughput gamete genotyping and tetrad-based recombination analysis. Plos Genetics. 18: e1010047. PMID 35533184 DOI: 10.1371/journal.pgen.1010047  0.729
2021 Krogerus K, Magalhães F, Castillo S, Peddinti G, Vidgren V, De Chiara M, Yue JX, Liti G, Gibson B. Lager Yeast Design Through Meiotic Segregation of a × Hybrid. Frontiers in Fungal Biology. 2: 733655. PMID 37744092 DOI: 10.3389/ffunb.2021.733655  0.616
2021 Mozzachiodi S, Tattini L, Llored A, Irizar A, Škofljanc N, D'Angiolo M, De Chiara M, Barré BP, Yue JX, Lutazi A, Loeillet S, Laureau R, Marsit S, Stenberg S, Albaud B, et al. Aborting meiosis allows recombination in sterile diploid yeast hybrids. Nature Communications. 12: 6564. PMID 34772931 DOI: 10.1038/s41467-021-26883-8  0.821
2021 Parts L, Batté A, Lopes M, Yuen MW, Laver M, San Luis BJ, Yue JX, Pons C, Eray E, Aloy P, Liti G, van Leeuwen J. Natural variants suppress mutations in hundreds of essential genes. Molecular Systems Biology. 17: e10138. PMID 34042294 DOI: 10.15252/msb.202010138  0.647
2021 Shan CM, Kim JK, Wang J, Bao K, Sun Y, Chen H, Yue JX, Stirpe A, Zhang Z, Lu C, Schalch T, Liti G, Nagy PL, Tong L, Qiao F, et al. The histone H3K9M mutation synergizes with H3K14 ubiquitylation to selectively sequester histone H3K9 methyltransferase Clr4 at heterochromatin. Cell Reports. 35: 109137. PMID 34010645 DOI: 10.1016/j.celrep.2021.109137  0.599
2020 Lin CY, Lu MJ, Yue JX, Li KL, Le Pétillon Y, Yong LW, Chen YH, Tsai FY, Lyu YF, Chen CY, Hwang SL, Su YH, Yu JK. Molecular asymmetry in the cephalochordate embryo revealed by single-blastomere transcriptome profiling. Plos Genetics. 16: e1009294. PMID 33382716 DOI: 10.1371/journal.pgen.1009294  0.642
2020 Laureau R, Dyatel A, Dursuk G, Brown S, Adeoye H, Yue JX, De Chiara M, Harris A, Ünal E, Liti G, Adams IR, Berchowitz LE. Meiotic Cells Counteract Programmed Retrotransposon Activation via RNA-Binding Translational Repressor Assemblies. Developmental Cell. PMID 33278343 DOI: 10.1016/j.devcel.2020.11.008  0.602
2020 D'Angiolo M, De Chiara M, Yue JX, Irizar A, Stenberg S, Persson K, Llored A, Barré B, Schacherer J, Marangoni R, Gilson E, Warringer J, Liti G. A yeast living ancestor reveals the origin of genomic introgressions. Nature. PMID 33177709 DOI: 10.1038/s41586-020-2889-1  0.832
2020 Simakov O, Marlétaz F, Yue JX, O'Connell B, Jenkins J, Brandt A, Calef R, Tung CH, Huang TK, Schmutz J, Satoh N, Yu JK, Putnam NH, Green RE, Rokhsar DS. Deeply conserved synteny resolves early events in vertebrate evolution. Nature Ecology & Evolution. PMID 32313176 DOI: 10.1038/S41559-020-1156-Z  0.821
2020 Barre B, Hallin J, Yue JX, Persson K, Mikhalev E, Irizar A, Holt S, Thompson D, Molin M, Warringer J, Liti G. Intragenic repeat expansion in the cell wall protein gene controls yeast chronological aging. Genome Research. PMID 32277013 DOI: 10.1101/Gr.253351.119  0.744
2020 Lototska L, Yue JX, Li J, Giraud-Panis MJ, Songyang Z, Royle NJ, Liti G, Ye J, Gilson E, Mendez-Bermudez A. Human RAP1 specifically protects telomeres of senescent cells from DNA damage. Embo Reports. e49076. PMID 32096305 DOI: 10.15252/Embr.201949076  0.639
2019 Yue JX, Liti G. simuG: a general-purpose genome simulator. Bioinformatics (Oxford, England). PMID 31116378 DOI: 10.1093/Bioinformatics/Btz424  0.718
2019 Li J, Vázquez-García I, Persson K, González A, Yue JX, Barré B, Hall MN, Long A, Warringer J, Mustonen V, Liti G. Shared molecular targets confer resistance over short and long evolutionary timescales. Molecular Biology and Evolution. PMID 30657986 DOI: 10.1093/Molbev/Msz006  0.787
2018 Yue JX, Liti G. Long-read sequencing data analysis for yeasts. Nature Protocols. 13: 1213-1231. PMID 29725120 DOI: 10.1038/Nprot.2018.025  0.751
2018 Peter J, De Chiara M, Friedrich A, Yue JX, Pflieger D, Bergström A, Sigwalt A, Barre B, Freel K, Llored A, Cruaud C, Labadie K, Aury JM, Istace B, Lebrigand K, et al. Genome evolution across 1,011 Saccharomyces cerevisiae isolates. Nature. 556: 339-344. PMID 29643504 DOI: 10.1038/S41586-018-0030-5  0.811
2017 Giordano F, Aigrain L, Quail MA, Coupland P, Bonfield JK, Davies RM, Tischler G, Jackson DK, Keane TM, Li J, Yue JX, Liti G, Durbin R, Ning Z. De novo yeast genome assemblies from MinION, PacBio and MiSeq platforms. Scientific Reports. 7: 3935. PMID 28638050 DOI: 10.1038/S41598-017-03996-Z  0.744
2017 Yue JX, Li J, Aigrain L, Hallin J, Persson K, Oliver K, Bergström A, Coupland P, Warringer J, Lagomarsino MC, Fischer G, Durbin R, Liti G. Contrasting evolutionary genome dynamics between domesticated and wild yeasts. Nature Genetics. PMID 28416820 DOI: 10.1038/Ng.3847  0.804
2016 Shan CM, Wang J, Xu K, Chen H, Yue JX, Andrews S, Moresco JJ, Yates JR, Nagy PL, Tong L, Jia S. A histone H3K9M mutation traps histone methyltransferase Clr4 to prevent heterochromatin spreading. Elife. 5. PMID 27648579 DOI: 10.7554/Elife.17903  0.382
2016 Yue JX, Kozmikova I, Ono H, Nossa CW, Kozmik Z, Putnam NH, Yu JK, Holland LZ. Conserved non-coding elements in the most distant genera of cephalochordates: the Goldilocks principle. Genome Biology and Evolution. PMID 27412606 DOI: 10.1093/Gbe/Evw158  0.799
2016 Yue JX, Holland ND, Holland LZ, Deheyn DD. The evolution of genes encoding for green fluorescent proteins: insights from cephalochordates (amphioxus). Scientific Reports. 6: 28350. PMID 27311567 DOI: 10.1038/Srep28350  0.628
2016 Krogerus K, Arvas M, De Chiara M, Magalhães F, Mattinen L, Oja M, Vidgren V, Yue JX, Liti G, Gibson B. Ploidy influences the functional attributes of de novo lager yeast hybrids. Applied Microbiology and Biotechnology. PMID 27183995 DOI: 10.1007/S00253-016-7588-3  0.686
2016 Shan C, Wang J, Xu K, Chen H, Yue J, Andrews S, Moresco JJ, Yates JR, Nagy PL, Tong L, Jia S. Author response: A histone H3K9M mutation traps histone methyltransferase Clr4 to prevent heterochromatin spreading Elife. DOI: 10.7554/Elife.17903.026  0.315
2015 Simakov O, Kawashima T, Marlétaz F, Jenkins J, Koyanagi R, Mitros T, Hisata K, Bredeson J, Shoguchi E, Gyoja F, Yue JX, Chen YC, Freeman RM, Sasaki A, Hikosaka-Katayama T, et al. Hemichordate genomes and deuterostome origins. Nature. PMID 26580012 DOI: 10.1038/Nature16150  0.821
2015 Buscà R, Christen R, Lovern M, Clifford AM, Yue JX, Goss GG, Pouysségur J, Lenormand P. ERK1 and ERK2 present functional redundancy in tetrapods despite higher evolution rate of ERK1. Bmc Evolutionary Biology. 15: 179. PMID 26336084 DOI: 10.1186/S12862-015-0450-X  0.336
2015 Yue JX, Li KL, Yu JK. Discovery of germline-related genes in Cephalochordate amphioxus: A genome wide survey using genome annotation and transcriptome data. Marine Genomics. PMID 25847029 DOI: 10.1016/J.Margen.2015.03.010  0.756
2014 Yue JX, Yu JK, Putnam NH, Holland LZ. The transcriptome of an amphioxus, Asymmetron lucayanum, from the Bahamas: a window into chordate evolution. Genome Biology and Evolution. 6: 2681-96. PMID 25240057 DOI: 10.1093/Gbe/Evu212  0.797
2014 Nossa CW, Havlak P, Yue JX, Lv J, Vincent KY, Brockmann HJ, Putnam NH. Joint assembly and genetic mapping of the Atlantic horseshoe crab genome reveals ancient whole genome duplication. Gigascience. 3: 9. PMID 24987520 DOI: 10.1186/2047-217X-3-9  0.816
2012 Yue JX, Meyers BC, Chen JQ, Tian D, Yang S. Tracing the origin and evolutionary history of plant nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes. The New Phytologist. 193: 1049-63. PMID 22212278 DOI: 10.1111/J.1469-8137.2011.04006.X  0.7
2010 Yue JX, Li J, Wang D, Araki H, Tian D, Yang S. Genome-wide investigation reveals high evolutionary rates in annual model plants. Bmc Plant Biology. 10: 242. PMID 21062446 DOI: 10.1186/1471-2229-10-242  0.724
2008 Yang S, Zhang X, Yue JX, Tian D, Chen JQ. Recent duplications dominate NBS-encoding gene expansion in two woody species. Molecular Genetics and Genomics : Mgg. 280: 187-98. PMID 18563445 DOI: 10.1007/S00438-008-0355-0  0.691
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