发表的主要论文有：
Tian E. W., Yu H.*, Zhang D. Y. and Nason, J. D. 2011. Development of microsatellite loci for Blastophaga javana (Agaonidae), the pollinating wasp of Ficus hirta (Moraceae). American Journal of Botany, 98: e41-e43.
Yu, H., Nason, J. D., Ge, X. J. and Zeng, J. Q. 2010. Slatkin’s paradox: when direct observation and realized gene flow disagree: A case study in Ficus. Molecular Ecology, 19 (20), 4441-4453.
Yu, H., Zhao, N. X., Chen, Y. Z. and Herre, E. A. 2008. Male and female reproductive success in the dioecious fig, Ficus hirta Vahl. in Guangdong Province, China: implications for the relative stability of dioecy and monoecy. Symbiosis, 45: 121-128
Yu, H., Xia, N. H. and Ye, H. G. 2008. Validation of Prunus hainanensis (Rosaceae). Nordic Journal of Botany, 25(1-2): 31-32
Yu, H., Zhao, N. X., Chen, Y. Z., Deng, Y., Yao, J. Y. and Ye, H. G. 2006. Phenology and reproductive model of a common fig (Ficus hirta Vahl.) in Guangzhou. Botanical Studies, 47: 435-441
Yu, H. 2006. A new combination in Dendrobenthamia (Cornaceae). Annales Botanici Fennici, 43(4): 315-316
Yu, H. and Zhao, N. X. 2005. Synopsis on Chinese Kengia Packer (Poaceae). Annales Botanici Fennici, 42(1): 47-55
Yu, H., Deng, Y. F. and Zhao, N. X. 2004. Pseudopogonatherum filifolium, the correct name for P. capilliphyllum (Poaceae). Novon, 14(2): 244-245
Yao, J. Y., Zhao, N. X., Chen, Y. Z., Jia, X. C., Deng, Y. and Yu, H. 2005. Resource allocation for coevolved figs and fig wasps in monoecious figs: where and how seeds and wasps produced? Symbiosis, 39(3): 143-149
于慧, 赵南先, 尧金燕, 陈贻竹. 2006. 种专一性传粉模式对榕属分类系统的影响. 热带亚热带植物学报 , 14(5): 439-443
于慧, 赵南先, 陈贻竹, 邓源, 尧金燕. 2004. 粗叶榕的传粉生物学. 中山大学学报(自然科学版), 2004(增刊) (2): 268-271
于慧, 赵南先, 贾效成, 陈贻竹, 甄文全. 2004. 粗叶榕（Ficus hirta Vahl.）的繁殖特征及其共生的榕小蜂. 植物学通报, 2004(6): 682-688
于慧, 赵南先, 陈贻竹, 胡晓颖. 2003. 粗叶榕-爪哇榕小蜂共生体系的研究. 广西植物, 23(6): 573-576
于慧, 赵南先. 2004. 甘蔗亚族的地理分布. 热带亚热带植物学报, 2004(1): 29-35
于慧, 叶华谷, 叶育石, 赵南先. 2005. 广东省乐昌市珍稀濒危植物保护. 华南农业大学学报(自然科学版), 26(2): 77-80
于慧, 胡晓颖, 徐信兰, 赵南先. 2000. 须芒草族植物花粉形态观察. 热带亚热带植物学报, 2000(8): 164-170
贾效成, 赵南先, 陈贻竹, 尧金燕, 于慧, 邓源. 2004. 榕属(Ficus)与榕小蜂科(Agaonidae)的分类研究进展. 广西植物, 24(5): 407-411
尧金燕, 赵南先, 方位宽, 陈贻竹, 贾效成, 邓源, 于慧. 2004. 榕树与其共生小蜂的利益冲突及资源分配研究. 云南植物研究, 26(5): 507-512
尧金燕, 赵南先, 陈贻竹, 贾效成, 邓源, 于慧. 2004. 榕树-传粉者共生体系的协同进化与系统学研究进展与展望. 植物生态学报, 28(2): 271-277
编写广东植物志,澳门植物志,乐昌植物志等的部分科属.
