.2010] a region-based mathematical model was formulated for the urine concentrating mechanism in the renal medulla of the rat kidney. In the present study, we investigated model sensitivity to some of the fundamental structural assumptions. An unexpected finding is that the concentrating capability of this region-based model falls short of the capability of models that have radially homogeneous interstitial fluid at each level of only the inner medulla (IM) or of both the outer medulla and IM, but are otherwise analogous to the region-based model. Nonetheless, model results reveal the functional significance of several aspects of tubular segmentation and heterogeneity: 1) the exclusion of ascending thin limbs that reach into the deep IM from the collecting duct clusters in the upper IM promotes urea cycling within the IM; 2) the high urea permeability of the lower IM thin limb segments allows their tubular fluid urea content to equilibrate with the surrounding interstitium; 3) the aquaporin-1-null terminal descending limb segments prevent water entry and maintain the transepithelial NaCl concentration gradient; 4) a higher thick ascending limb Na ϩ active transport rate in the inner stripe augments concentrating capability without a corresponding increase in energy expenditure for transport; 5) active Na ϩ reabsorption from the collecting duct elevates its tubular fluid urea concentration. Model calculations predict that these aspects of tubular segmentation and heterogeneity promote effective urine concentrating functions.kidney; loops of Henle; aquaporin-1; collecting duct; Na ϩ transport; urea transport IN A COMPANION PAPER (19), which we refer to as study 1, we formulated a region-based mathematical model of the urine concentrating mechanism in the renal medulla of the rat kidney. The general aim of study 1, and of this study, which we call study 2, is to investigate the effects of structural heterogeneity in the urine concentrating mechanism of the renal medulla.As noted in our recent reviews (22, 34), we believe that the urine concentrating mechanism should be considered in light of the radial and axial inhomogeneity revealed in anatomic studies. Kriz and colleagues (13,14,16,18) have reported that the organization of tubules and vessels is highly structured in the outer medulla (OM) of a number of mammalian species, including rats and mice. Tubules are organized around tightly packed vascular bundles, with the collecting ducts (CDs) and thick ascending limbs (TALs) found distant from vascular bundles and descending limbs positioned nearer the bundles. Cluster of CDs form the dominant organizing structural elements for the arrangement of the tubules and vessels in the inner medulla (IM) (30, 32). In the upper IM, the descending thin limbs of Henle's loops and descending vasa recta (DVR) are nearly always located outside and surrounding the CD clusters (31, 32). In contrast, the ascending thin limbs and ascending vasa recta (AVR) are arranged nearly uniformly across the IM, both inside and outside the CD cl...