Heavy metal contamination of bottom sediments of the Changjiang River is widely reported, however, the potential source and methods of transportation of these heavy metals in the contaminated sediments is poorly defined. This paper examines the correlation between heavy metals and geochemical indices, including Fe 2 O 3 , Al 2 O 3 , total organic carbon (TOC) and black carbon (BC), as well as magnetic susceptibility (MS). Using these indices we investigate the contamination characteristics of heavy metals in the sediments by with Principal Component Analysis (PCA). Results from 83 sediment samples collected in the lower reach of Changjiang River (from Nanjing to Shanghai) show that the first principal component accounts for 52.23% of the total variance, corresponding to the heavy metals, Co, Cr, Cu, Ni and Zn, and conservative components of Fe 2 O 3 , Al 2 O 3 and TOC. This result indicates that heavy metal distributions are controlled by the transportation and sedimentation of fine particles which is also confirmed by particle size analysis. The second principal component explains 24.81% of the variance and is dominated by Cd, Pb and MS, which, collectively, result chiefly from industrial and transportation activities and, for MS, fly ash production. The third principal component accounts for 7.91% of the variance and corresponds solely to Hg. Principal component analysis/multiple linear regression (PCA/MLR) was used to estimate the contribution of the three principal components to each heavy metal. PCA/MLR results suggest that more than 50% of Co, Cr, Cu, Ni and Zn were influenced by the particle size effect. Particle size effect and fly ash account for 37.1% and 27.7% of As. Cd and Pb were mainly explained by fly ash. 98.9% of Hg was related to PC3, which represented black carbon (BC). Our study indicates that the combination of geochemical and multivariable statistical methods clearly characterizes the geochemistry of heavy metals in sediment of the lower reaches of the Changjiang River and suggests that power plants are the main source of heavy metal pollution. ► PCA/MLR indicated that the particle size influenced distributions of Co, Cr, Cu, Ni and Zn by over 50%. ► Fly ash production should be a main carrier of heavy metals, especially for Cd and Pb. ► Black carbon (BC) showed good correlation with Hg.