Pannabecker, Thomas L., and William H. Dantzler. Threedimensional architecture of inner medullary vasa recta. Am J Physiol Renal Physiol 290: F1355-F1366, 2006. First published December 27, 2006 doi:10.1152/ajprenal.00481.2005The manner in which vasa recta function and contribute to the concentrating mechanism depends on their three-dimensional relationships to each other and to tubular elements. We have examined the three-dimensional architecture of vasculature relative to tubular structures in the central region of rat kidney inner medulla from the base through the first 3 mm by combining immunohistochemistry and semiautomated image acquisition techniques with graphical modeling software. Segments of descending vasa recta (DVR), ascending vasa recta (AVR), descending thin limb (DTL), ascending thin limb (ATL), and collecting duct (CD) were identified with antibodies against segment-specific proteins associated with solute and water transport (urea channel B, PV-1, aquaporin-1, ClC-K1, aquaporin-2, respectively) by immunofluorescence. Results indicate: 1) DVR, like DTLs, are excluded from CD clusters that we have previously shown to be the organizing element for the inner medulla; 2) AVR, like ATLs, are nearly uniformly distributed transversely across the entire inner medulla outside of and within CD clusters; 3) DVR and AVR outside CD clusters appear to be sufficiently juxtaposed to permit good countercurrent exchange; 4) within CD clusters, about four AVR closely abut each CD, surrounding it in a highly symmetrical fashion; and 5) AVR abutting each CD and ATLs within CD clusters form repeating nodal interstitial spaces bordered by a CD on one side, one or more ATLs on the opposite side, and one AVR on each of the other two sides. These relationships may be highly significant for both establishing and maintaining the inner medullary osmotic gradient. three-dimensional reconstruction; PV-1; urea channel B; aquaporin; ClC-K; 鈵-crystallin; countercurrent multiplier; concentrating mechanism; vasa recta AMONG ALL FUNCTIONAL DOMAINS within the kidney, the concentrating mechanism in the inner medulla (IM) is perhaps the most complicated and, certainly, the least well understood. Recent characterization of proteins associated with epithelial and endothelial membrane transport in defined vascular and tubular segments of the IM has provided new information for models of the concentrating mechanism. However, interactions of the transport of fluid and small solutes that these proteins enable depend profoundly on the three-dimensional (3-D) architecture of the nephrons, collecting ducts (CDs), blood vessels, and interstitial cells and matrix. We have previously described some of the 3-D relationships of the inner medullary thin limbs of Henle's loops and CDs and the location of some of the transport or channel proteins along them (19,20). This information helped us to propose one possible model for the concentrating mechanism in the IM (9). However, these studies did not include information on the inner medullary vascula...