Recent publications

Wang, Y.; Ni, J.; Pan, J.; Feng, R.; Li, W.; Zhang, X.; Gao, C.; Liao, L.; Zhang, Z.; Yue, H.; Zhang, K.; Zhang, L.; Feng, C.; Yao, D.; Han, Y.; Li, X.; Zhou, X.; Deng, Z.; Zhang, J.; Zhou, P.; Jing, G.; Zhang, Y.; Chen, L.; Pan, X.; Chen, X.; Bai, Y.; Yan, Y.; Huang, J.; Ye, Z.; Shen, X.; Tian, M.; Zufall, R.A., Wang, P.; Lynch, M.; Long, H. 2026. Cross-domain transfer of trehalose biosynthesis genes contributes to adaptation in high-altitude environments. National Science Review 13: nwag117 [Wang et al. NSR 2026.pdf]

Pan, J.; Ni, J.; Wang, Y.; Deng, Z.; Yue, H.; Dong, K.; Li, Y.; Lei, Z.; Ma, Z.; Hu, G.; Chi, R.; Chang, Z.; Chen, Q.; Cai, Y.; Shen, H.; Shi, R.; Yang, W.; Fan, X.; Li, W.; Ye, Z.; Lynch, M.; Zhang, Y.; Long, H. 2026. Biocontrol potential and molecular basis of predation in a marine raptorial ciliate. The ISME Journal 20: wrag053 [Pan et al. ISME J 2026.pdf]

Ni, J.; Hao, Y.; Jimenez-Marin, B.; Ali, F.; Pan, J.; Wang, Y.; Deng, Z.; Gout, J.-F.; Zhang, Y.; Lynch, M.; Long, H. 2025. Whole-genome duplications revealed by macronuclear genomes of five rare species of the model ciliates Paramecium. Science China Life Sciences 68: 3633–3645 [Ni et al. SCLS 2025.pdf]

Pan, J.; Wang, Y.; Li, C.; Zhang, S.; Ye, Z.; Ni, J.; Li, H.; Li, Y.; Yue, H.; Ruan, C.; Zhao, D.; Jiang, Y.; Wu, X.; Shen, X.; Zufall, R.A.; Zhang, Y.; Li, W.; Lynch, M.; Long, H. 2024. Molecular basis of phenotypic plasticity in a marine ciliate. The ISME Journal 18: wrae136 [Pan et al. ISME J 2024.pdf]

Long, H.; Johri, P.; Gout, J.F.; Ni, J.; Hao, Y.; Licknack, T.; Wang, Y.; Pan, J.; Berenice Jiménez-Marín; Lynch, M. 2023. Paramecium genetics, genomics and evolution. Annual Review of Genetics 57: 391-410 [Long et al. ARG 2023.pdf]

Lynch, M.; Ali, F.; Lin, T.; Wang, Y.; Ni, J.; Long, H. 2023 The divergence of mutation rates and spectra across the Tree of Life. EMBO Reports e57561 [Lynch et al. EMBO Reports 2023.pdf]

Pan, J.; Li, W.; Ni, J.; Wu, K.; Konigsberg, I.; Rivera, C.; Tincher, C.; Gregory, C.; Zhou, X.; Doak, T.; Lee, H.; Wang, Y.; Gao, X.; Lynch, M.; Long, H. 2022. Rates of mutations and transcript errors in the foodborne pathogen Salmonella enterica subsp. enterica. Molecular Biology and Evolution 39(4): msac081[Pan et al. MBE 2022.pdf]

Long, H.; Sung, W.; Kucukyildirim,S.; Williams,E.; Miller, S.;Guo, W.; Patterson, C.; Gregory, C.; Strauss, C.; Stone, C.; Berne, C.; Kysela, D.; Shoemaker, W.; Muscarella, M.; Luo, H.; Lennon, J.; Brun, Y.; Lynch, M. 2018. Evolutionary determinants of genome-wide nucleotide composition. Nature Ecology and Evolution 2: 237-240. [Long et al Nat Ecol Evol 2018.pdf]

Long, H.; Miller, S.F.; Strauss, C.; Zhao, C.; Cheng, L.; Ye, Z.; Griffin, K.; Te, R.; Lee, H.; Chen, C.; Lynch, M. 2016. Antibiotic treatment enhances the genome-wide mutation rate of target cells. PNAS 113(18): E2498-E2505. [Long et al. PNAS 2016.pdf]