代表性论文专著:
Jin L, Liu JJ, Li QM, Lin LX, Shao XN, Xiao TW, Li BH, Mi XC, Ren HB, Zhu Y, Qiao XJ, Lian JY, Wang XG, Du H, Jin GZ, Svenning JC, Hao G, Ge XJ*. 2024. Stronger latitudinal phylogenetic patterns in woody angiosperm assemblages with higher dispersal abilities in China. Journal of Biogeography, 51: 269-279.
Wang ZH, Jiang Y, Zhang MH, Chu CJ, Chen YF, Fang S, Jin GZ, Jiang MX, Lian JY, Li YP, Liu Y, Ma KP, Mi XC, Qiao XJ, Wang XH, Wang XG, Xu H, Ye WH, Zhu L, Zhu Y, He FL*, Kembel SW*. 2023. Diversity and biogeography of plant phyllosphere bacteria are governed by latitude‐dependent mechanisms. New Phytologist, 240: 1534-1547.
Xu SW, Su HX, Ren SY, Hou JH, Zhu Y*. 2023. Functional traits and habitat heterogeneity explain tree growth in a warm temperate forest. Oecologia, 203: 371-381.
Wang F, Mi XC, Chen L, Xu WB, Durka W, Swenson NG, Johnson DJ, Worthy SJ, Xue JH, Zhu Y, Schmid B, Liang Y,* Ma KP*. 2022. Differential impacts of adult trees on offspring and non-offspring recruits in a subtropical forest. Science China Life Sciences, 65: 1905-1913.
Zhao C, Zhu Y, Meng J*. 2022. Effects of Plot Design on Estimating Tree Species Richness and Species Diversity. Forests,. 13: 2003.
Liu Z, Zhu Y, Wang J, Ma W and Meng J*. 2019. Species association of the dominant tree species in an old-growth forest and implications for enrichment planting for the restoration of natural degraded forest in subtropical China. Forests, 10: 957.
Zhu Y*, Queenborough SA, Condit R, Hubbell SP, Ma K, Comita LS. 2018. Density dependent survival varies with species life‐history strategy in a tropical forest. Ecology Letters, 21: 506-515.
Krishnadas M*, Beckman NG, Penagos Zuluaga JC, Zhu Y, Whitacre J, Wenzel JW, Queenborough SA, Comita LS. 2018. Environment and past land use together predict functional diversity in a temperate forest. Ecological Applications, 28: 2142-2152.
Zhu Y, Comita LS, Hubbell SP, Ma K*. 2015. Conspecific and phylogenetic density-dependent survival differs across life stages in a tropical forest. Journal of Ecology, 103: 957–966.
Comita LS*, Queenborough SA, Murphy S, Eck J, Xu K, Krishnadas M, Beckman N, Zhu Y. 2014. Testing predictions of the Janzen-Connell hypothesis: A meta-analysis of experimental evidence for distance- and density-dependent seed and seedling survival. Journal of Ecology, 102: 845–856.
Zhu Y, Getzin S, Wiegand T, Ren H, Ma K*. 2013. The relative importance of Janzen-Connell effects in influencing the spatial patterns at the Gutianshan subtropical forest. PLOS ONE, 8: e74560.
Zhu Y, Mi X, Ren H, Ma K*. 2010. Density dependence is prevalent in a heterogeneous subtropical forest. Oikos, 119: 109-119.
邓婷婷, 魏岩, 任思远, 祝燕. 2023. 北京东灵山暖温带落叶阔叶林地形和林分结构对林下草本植物物种多样性的影响. 生物多样性, 31:22671.
谢宗强, 申国珍, 周友兵, 樊大勇, 徐文婷, 高贤明, 杜彦君, 熊高明, 赵常明, 祝燕, 赖江山. 2017. 神农架自然遗产地的全球突出普遍价值及其保护(神农架自然遗产地专题). 生物多样性, 25: 490-497.
王婷, 任思远, 袁志良, 祝燕, 潘娜, 李鹿鑫, 叶永忠. 2014. 密度制约对宝天曼落叶阔叶林锐齿栎死亡前后分布格局的影响. 生物多样性, 22: 449-457.
任思远, 王婷, 祝燕, 叶永忠, 袁志良, 李聪, 潘娜, 李鹿鑫. 2014. 暖温带–北亚热带过渡 带落叶阔叶林群落不同径级系统发育结构的变化. 生物多样性, 22: 574-582.
祝燕, 白帆, 刘海丰, 李文超, 李亮, 李广起, 王顺忠, 桑卫国. 2011. 北京暖温带次生林种群分布格局与种间空间关联性. 生物多样性, 19: 252-259.
李亮, 白帆, 刘海丰, 祝燕, 李广起, 李文超, 桑卫国. 2011. 东灵山4种落叶阔叶次生林的物种组成与群落结构. 生物多样性, 19: 243-251.
祝燕, 马克平. 2012. 点格局分析及其在植物空间分布格局研究中的应用. 见马克平主编 中国生物多样性保护与研究进展IX. 北京:气象出版社, 319-331.
祝燕, 米湘成, 马克平. 2009. 植物群落物种共存机制: 负密度制约假说. 生物多样性, 17: 594–604.
白帆, 杨宗贵, 桑卫国, 苏宏新, 刘海丰, 朱丽, 祝燕, 周庆华, 李文超. 2009. 中国生态系统定位观测与研究数据集. 北京站. 北京:中国农业出版社.
祝燕, 赵谷风, 张俪文, 沈国春, 米湘成, 任海保, 于明坚, 陈建华, 陈声文,方 腾, 马克平. 2008. 古田山中亚热带常绿阔叶林动态监测样地-群落组成与空间结构. 植物生态学报, 32: 262–273.