A major challenge in neuroscience is to accurately decipher in vivo the entire brain circuitry (connectome) at a microscopic level. Currently, the only methodology providing a global noninvasive window into structural brain connectivity is diffusion tractography. The extent to which the reconstructed pathways reflect realistic neuronal networks depends, however, on data acquisition and postprocessing factors. Through a unique combination of approaches, we designed and evaluated herein a framework for reliable fiber tracking and mapping of the living mouse brain connectome. One important wiring scheme, connecting gray matter regions and passing fibercrossing areas, was closely examined: the lemniscal thalamocortical (TC) pathway. We quantitatively validated the TC projections inferred from in vivo tractography with correlative histological axonal tracing in the same wild-type and reeler mutant mice. We demonstrated noninvasively that changes in patterning of the cortical sheet, such as highly disorganized cortical lamination in reeler, led to spectacular compensatory remodeling of the TC pathway.fiber tracking validation | brain developmental plasticity M apping the brain's neural architecture and its connectivity fingerprints is essential in experimental neuroscience and neurology because connectivity patterns constrain or even define functional neuronal networks (1). Methods for tracing connections in the animal brain have a long history and evolved from silver impregnation (2) of degenerating fibers to the ex vivo visualization of axonally transported tracers injected in different brain nuclei (3), and finally to high-resolution technologies using viral and genetic tracers (4). Exploiting the active transport mechanisms along the axons, the histological tract-tracing methods are of extreme value in addressing neuroanatomical questions in experimental animals, especially when associated with electrophysiological and behavioral observations (5). One challenging and intensively investigated issue is the dynamic interplay between the formation of cortical connectivity and cortical patterning (6). Because of the regional and laminar specificity of axonal targeting, the thalamocortical projection (TCP) system is a primary research focus (7-9); it offers the possibility of examining the way in which cortical patterning and thalamocortical (TC) wiring shape and constrain each other. Axonal tracer studies have produced a large body of evidence concerning TC architecture in experimental animals, suggesting that changes in patterning of the cortical sheet might result in alterations of TC connectivity (10-12). However, axonal tract-tracing is not suitable for monitoring plastic connectivity changes over time in the same individual. Histological visualization of the transported substance is highly invasive and requires the sacrifice of the animal; it allows the identification of only a limited number of pathways terminating in, or originating from, the injection site in a single animal.One of the most exciting recent deve...