2011
1、Ni, J. and Herzschuh, U. 2011. Simulating biome distribution on the Tibetan Plateau using a modified global vegetation model. Arctic, Antarctic, and Alpine Research 43(3): 429-441.
2、Ni, J. 2011. Impacts of climate change on Chinese ecosystems: key vulnerable regions and potential thresholds. Regional Environmental Change 11(suppl. 1): S49-S64.
3、Wang, H., Ni, J. and Prentice, I.C. 2011. Sensitivity of potential natural vegetation in China to projected changes in temperature, precipitation and atmospheric CO2. Regional Environmental Change 11(3): 715-727.
4、Herzschuh, U., Ni, J., Birks, H.J.B. and Böhner, J. 2011. Driving forces of mid-Holocene vegetation shifts on the upper Tibetan Plateau, with emphasis on changes in atmospheric CO2 concentrations. Quaternary Science Reviews 30(15-16): 1907-1917.
5、Meng, M., Ni, J. and Zong, M.J. 2011. Impacts of changes in climate variability on regional vegetation in China: NDVI-based analysis from 1982 to 2000. Ecological Research 26(2): 421-428.
6、Prentice, I.C., Meng, T.T., Wang, H., Harrison, S.P., Ni, J. and Wang, G.H. 2011. Evidence of a universal scaling relationship for leaf CO2 drawdown along an aridity gradient. New Phytologist 190(1): 169-180.
7、Wang, G.H., Li, H., An, M., Ni, J., Ji, S.J. and Wang, J. 2011. A regional-scale consideration of the effects of species richness on above-ground biomass in temperate natural grasslands of China. Journal of Vegetation Science 22(3): 414-424.
8、董丹, 倪健(通讯作者). 2011. 利用CASA模型模拟西南喀斯特植被净第一性生产力. 生态学报 31(7): 1855-1866.
9、田秀玲, 夏婧, 夏焕柏, 倪健(通讯作者). 2011. 贵州省森林生物量及其空间格局. 应用生态学报 22(2): 287-294.
10、张忠华, 胡刚, 祝介东, 倪健(通讯作者). 2011. 喀斯特森林土壤养分的空间异质性及对物种分布的影响. 植物生态学报 35(10): 1038-1049.
11、祝介东, 孟婷婷, 倪健(通讯作者) , 苏宏新, 谢宗强, 张守仁, 郑元润, 肖春旺. 2011. 不同气候带间成熟林植物叶性状间异速生长关系随功能型的变异. 植物生态学报 35(7): 687-698.

2010
12、Ni, J., Yu, G., Harrison, S.P. and Prentice, I.C. 2010. Palaeovegetation in China during the late Quaternary: Biome reconstructions based on a global scheme of plant functional types. Palaeogeography, Palaeoclimatology, Palaeoecology 289(1-4): 44-61.
13、Chen, Y., Ni, J. (corresponding author) and Herzschuh, U. 2010. Quantifying modern biomes based on surface pollen data in China. Global and Planetary Change 74(3-4): 114-131.
14、Ashiq, M.W., Zhao, C.Y., Ni, J. and Akhtar, M. 2010. GIS based high-resolution spatial interpolation of precipitation in mountain-plain areas of Upper Pakistan for regional climate change impact studies. Theoretical and Applied Climatology 99(3-4): 239-253.
15、Harrison, S.P., Prentice, I.C., Barboni, D., Kohfeld, K., Ni, J. and Sutra, J.-P. 2010. Ecophysiological and bioclimatic foundations for a global plant functional classification. Journal of Vegetation Science 21(2): 300-317.
16、Herzschuh, U., Birks, H.J.B., Ni, J., Zhao, Y., Liu, H.Y. Liu, X.Q. and Grosse, G. 2010. Holocene land-cover changes on the Tibetan Plateau. The Holocene 20(1): 91-104.
17、Zhang, Y., Kong, Z.C., Wang, G.H. and Ni, J. (corresponding author). 2010. Anthropogenic and climatic impacts on surface pollen assemblages along a precipitation gradient in north-eastern China. Global Ecology and Biogeography 19(5): 621-631.
18、Zhang, Z.H., Hu, G., Zhu, J.D., Luo, D.H. and Ni, J. (corresponding author). 2010. Spatial patterns and interspecific associations of dominant tree species in two old-growth karst forests, SW China. Ecological Research 25(6): 1151-1160.
19、田秀玲, 倪健. 2010. 西南喀斯特山区石漠化治理的原则、途径与问题. 干旱区地理 33(4): 532-538.
20、倪健, 陈瑜, Ulrike Herzschuh, 董丹. 2010. 中国第四纪晚期孢粉记录整理. 植物生态学报 34(8): 1000-1005.
21、于维莲, 董丹, 倪健(通讯作者). 2010. 中国西南山地喀斯特与非喀斯特森林的生物量与生产力比较. 亚热带资源与环境学报 5(2): 25-30.
22、罗东辉, 夏婧, 袁婧薇, 张忠华, 祝介东, 倪健(通讯作者). 2010. 我国西南山地喀斯特植被的根系生物量初探. 植物生态学报 34(5): 611-618.
23、张忠华, 胡刚, 倪健(通讯作者). 2010. 茂兰喀斯特森林群落的种间分离特征. 生态学报 30(9): 2235-2245.

2009
24、Lu, N., Wilske, B., Ni, J., John, R. and Chen, J.Q. 2009. Climate change in Inner Mongolia from 1955 to 2005-trends at regional, biome and local scales. Environmental Research Letters 4: 045006 (6pp), doi: 10.1088/1748-9326/4/045006.
25、Meng, T.T., Ni, J. (corresponding author) and Harrison, S.P. 2009. Plant morphometric traits and climate gradients in northern China: a meta-analysis using quadrat and flora data. Annals of Botany 104(6): 1217-1229.
26、Zhang, Y., Kong, Z.C., Yan, S., Yang Z.J. and Ni, J (corresponding author). 2009. “Medieval Warm Period” on the northern slope of central Tianshan Mountains, Xinjiang, NW China. Geophysical Research Letters 36: L11702,doi:10.1029/2009GL037375.
27、王娟, 倪健(通讯作者). 2009. 中国北方温带地区5种锦鸡儿植物的分布模拟. 植物生态学报 33(1): 12-24.

2008
28、陈瑜, 倪健(通讯作者). 2008. 利用孢粉记录定量重建大尺度古植被格局. 植物生态学报 32(5): 1201-1212.
29、张芸, 孔昭宸, 倪健, 阎顺, 杨振京. 2008. 新疆草滩湖村湿地4550年以来的孢粉记录和环境演变. 科学通报 53(3): 306-316.
30、Zhang, Y., Kong, Z.C., Ni, J., Yan, S. and Yang, Z.J. 2008. Pollen record and environmental evolution of Caotanhu wetland in Xinjiang since 4550 cal. a BP. Chinese Science Bulletin 53(7): 1049-1061.

2007
31、Ni, J., Wang, G.H., Bai, Y.F. and Li, X.Z. 2007. Scale-dependent relationships between plant diversity and above-ground biomass in temperate grasslands, south-eastern Mongolia. Journal of Arid Environments 68(1): 132-142.
32、Zhang, Y., Kong, Z.C., Ni, J., Yan, S. and Yang, Z.J. 2007. Late Holocene palaeoenvironment change in central Tianshan of Xinjiang, northwest China. Grana 46(3): 197–213.
33、袁婧薇, 倪健(通讯作者). 2007. 中国气候变化的植物信号和生态证据. 干旱区地理 30(4): 465-473.
34、孟婷婷, 倪健(通讯作者), 王国宏. 2007. 植物功能性状与环境和生态系统功能. 植物生态学报 31(1): 150-165.

2006
35、Ni, J., Harrison, S.P., Prentice, I.C., Kutzbach, J.E. and Sitch, S. 2006. Impact of climate variability on present and Holocene vegetation: A model-based study. Ecological Modelling 191(3-4): 469-486.
36、王娟, 倪健(通讯作者). 2006. 植物种分布的模拟研究进展. 植物生态学报 30(6): 1040-1053.
37、张芸, 孔昭宸, 阎顺, 杨振京, 倪健. 2006. 天山北麓晚全新世云杉林线变化和古环境特征. 科学通报 51(12): 1450-1458.
38、Zhang, Y., Kong, Z.C., Yan, S., Yang, Z.J. and Ni, J. 2006. Fluctuation of Picea timberline and paleo-environment on the northern slope of Tianshan Mountains during the Late Holocene. Chinese Science Bulletin 51(14): 1747-1756.
39、冯晓华, 阎顺, 倪健, 孔昭宸, 杨振京. 2006. 新疆北部平原湖泊记录的晚全新世湖面波动及环境变化. 科学通报 51(增刊I): 49-55.
40、Feng, X.H., Yan, S., Ni, J., Kong, Z.C. and Yang, Z.J. 2006. Environmental changes and lake level fluctuation recorded by lakes on the plain in northern Xinjiang during the late Holocene. Chinese Science Bulletin 51(suppl. I): 60-67.

2005
41、Wang, G.H. and Ni, J. 2005. Responses of plant functional types to an environmental gradient on the Northeast China Transect. Ecological Research 20(5): 563-572.
42、Wang, Q., Ni, J. and Tenhunen, J. 2005. Application of a geographically-weighted regression analysis to estimate net primary production of Chinese forest ecosystems. Global Ecology and Biogeography 14(4): 379-393.
43、张芸, 孔昭宸, 阎顺, 杨振京, 倪健. 2005. 新疆天山北坡地区中晚全新世生物多样性特征. 植物生态学报 29(5): 836-844.
44、倪健, 郭柯, 刘海江, 张新时. 2005. 中国西北干旱区生态区划. 植物生态学报 29(2): 175-184.
45、蒋霞, 倪健. 2005. 西北干旱区10种荒漠植物地理分布与大气候的关系及其可能潜在分布区的估测. 植物生态学报29(1): 98-107.

2004
46、Ni, J. 2004. Forage yield-based carbon storage in grasslands of China. Climatic Change 67(2-3): 237-246.
47、Ni, J. 2004. Forest productivity of the Altay and Tianshan Mountains in the dryland, northwestern China. Forest Ecology and Management 202(1-3): 13-22.
48、Ni, J. 2004. Estimating grassland net primary productivity from field biomass measurements in temperate northern China. Plant Ecology 174(2): 217-234.
49、Ni, J. and Wang G.H. 2004. Northeast China Transect (NECT): Ten-year synthesis and future challenges. Acta Botanica Sinica 46(4): 379-391.
50、Yu, G., Ke, X.K., Xue, B. and Ni, J. 2004. The relationships between the surface arboreal pollen and the plants of the vegetation in China. Review of Palaeobotany and Palynology 129(4): 187-198.
51、Zhang, Y., Kong, Z.C., Yang, Z.J., Yan, S. and Ni, J. 2004. Vegetation changes and environmentalevolution in the Urumqi River Head,central Tianshan Mountains since 3.6 ka B.P.: a case study of Daxigou profile. Acta Botanica Sinica 46(6): 655-667.
52、孟猛, 倪健, 张治国. 2004. 地理生态学的干燥度指数及其应用评述. 植物生态学报 28(6): 853-861.
53、张芸, 孔昭宸, 阎顺, 杨振京, 倪健. 2004. 新疆地区的“中世纪温暖期”－古尔班通古特沙漠四厂湖古环境的再研究. 第四纪研究 24(6): 701-708.

2003
54、Ni, J. 2003. Plant functional types and climate along a precipitation gradient in temperate grasslands, north-east China and south-east Mongolia. Journal of Arid Environments 53(4): 501-516.
55、Ni, J. 2003. Net primary productivity in forests of China: Scaling-up of national inventory data and comparison with model predictions. Forest Ecology and Management 176(1-3): 485-495.

2002
56、Ni, J. and Ding, S.Y. 2002. Modeling the large-scale distribution of plant diversity: A possibility inferred from climate and productivity. Acta Phytoecologica Sinica (植物生态学报) 26(5): 568-574.
57、Ni, J. 2002. Effects of climate change on carbon storage in boreal forests of China: A local perspective. Climatic Change 55(1-2): 61-75.
58、Ni, J. 2002. Carbon storage in grasslands of China. Journal of Arid Environments 50(2): 205-218.
59、倪健. 2002. BIOME系列模型: 主要原理与应用. 植物生态学报 26(4): 481-488.

2001
60、Ni, J. 2001. A biome classification of China based on plant functional types and the BIOME3 model. Folia Geobotanica 36(2): 113-129.
61、Ni, J., Zhang, X.S. and Scurlock, J.M.O. 2001. Synthesis and analysis of biomass and net primary productivity in Chinese forests. Annals of Forest Science 58(4): 351-384.
62、Ni, J. 2001. Carbon storage in terrestrial ecosystems of China: Estimates at different spatial resolutions and their responses to climate change. Climatic Change 49(3): 339-358.
63、倪健. 2001. 区域尺度的中国植物功能型与生物群区. 植物学报 43(4): 419-425.

2000
64、Ni, J. 2000. A simulation of biomes on the Tibetan Plateau and their responses to global climate change. Mountain Research and Development 20(1): 80-89.
65、Ni, J. 2000. Net primary production, carbon storage and climate change in Chinese biomes. Nordic Journal of Botany 20(4): 415-426.
66、Ni, J., Sykes, M.T., Prentice, I.C. and Cramer, W. 2000. Modeling the vegetation of China using the process-based equilibrium terrestrial biosphere model BIOME3. Global Ecology and Biogeography 9(6): 463-479.
67、Ni, J. and Zhang, X.S. 2000. Climate variability, ecological gradient and the Northeast China Transect (NECT). Journal of Arid Environments 46(3): 313-325.
68、Yu, G., Chen, X., Ni, J., Cheddadi, R., Guiot, J., Han, H., Harrison, S.P., Huang, C., Ke, M., Kong, Z., Li, S., Li, W., Liew, P., Liu, G., Liu, J., Liu, Q., Liu, K.-B., Prentice, I. C., Qui, W., Ren, G., Song, C., Sugita, S., Sun, X., Tang, L., Van Campo, E., Xia, Y., Xu, Q., Yan, S., Yang, X., Zhao, J. and Zheng, Z. 2000. Palaeovegetation of China: a pollen data-based synthesis for the mid-Holocene and last glacial maximum. Journal of Biogeography 27(3): 635-664.
69、倪健. 2000. BIOME6000计划: 重建古生物群区的最新进展. 应用生态学报 11(3): 465-471.