A time for atlases and atlases for time

Spatial registration of neuron morphologies based on maximization of volume overlap

BACKGROUND

Morphological features are widely used in the study of neuronal function and pathology. Invertebrate neurons are often structurally stereotypical, showing little variance in gross spatial features but larger variance in their fine features. Such variability can be quantified using detailed spatial analysis, which however requires the morphologies to be registered to a common frame of reference.

RESULTS

We outline here new algorithms - Reg-MaxS and Reg-MaxS-N - for co-registering pairs and groups of morphologies, respectively. Reg-MaxS applies a sequence of translation, rotation and scaling transformations, estimating at each step the transformation parameters that maximize spatial overlap between the volumes occupied by the morphologies. We test this algorithm with synthetic morphologies, showing that it can account for a wide range of transformation differences and is robust to noise. Reg-MaxS-N co-registers groups of more than two morphologies by iteratively calculating an average volume and registering all morphologies to this average using Reg-MaxS. We test Reg-MaxS-N using five groups of morphologies from the Droshophila melanogaster brain and identify the cases for which it outperforms existing algorithms and produce morphologies very similar to those obtained from registration to a standard brain atlas.

CONCLUSIONS

We have described and tested algorithms for co-registering pairs and groups of neuron morphologies. We have demonstrated their application to spatial comparison of stereotypic morphologies and calculation of dendritic density profiles, showing how our algorithms for registering neuron morphologies can enable new approaches in comparative morphological analyses and visualization.

Long-term changes in the morphology and synaptic distributions of adult-born neurons

The adult mammalian olfactory bulb (OB) is continuously supplied with adult-born neurons. While some new neurons die shortly after arrival into the OB, others persist throughout the life of the animal. Here we followed the long-term morphological changes in adult-born periglomerular neurons and granule cells from the mouse OB well after they mature. We present a dataset of dendritic morphology and synaptic distributions from >100 adult-born neurons as imaged in vivo and reconstructed in 3D. The dataset currently includes a substantial range of neuronal ages (0.5-11 months old). Using this dataset, we show that the morphological steady-state which adult-born periglomerular neurons reach soon after maturation is not maintained in older neurons. Rather, total dendritic length decreases after 6 months of age. We find that this morphological decrease in "old" periglomerular neurons is regulated by the age of the animal, and is independent of neuronal age. This suggests that morphological development of adult-born neurons is regulated extrinsically. Our dendritic morphology dataset of 3D reconstructions is made available to the scientific community so it may serve as a useful resource for comparative morphological studies of the OB, and in particular of adult neurogenesis.

The human connectome: a complex network

The human brain is a complex network. An important first step toward understanding the function of such a network is to map its elements and connections, to create a comprehensive structural description of the network architecture. This paper reviews current empirical efforts toward generating a network map of the human brain, the human connectome, and explores how the connectome can provide new insights into the organization of the brain's structural connections and their role in shaping functional dynamics. Network studies of structural connectivity obtained from noninvasive neuroimaging have revealed a number of highly nonrandom network attributes, including high clustering and modularity combined with high efficiency and short path length. The combination of these attributes simultaneously promotes high specialization and high integration within a modular small-world architecture. Structural and functional networks share some of the same characteristics, although their relationship is complex and nonlinear. Future studies of the human connectome will greatly expand our knowledge of network topology and dynamics in the healthy, developing, aging, and diseased brain.

Technical and organizational considerations for the long-term maintenance and development of digital brain atlases and web-based databases

Digital brain atlas is a kind of image database that specifically provide information about neurons and glial cells in the brain. It has various advantages that are unmatched by conventional paper-based atlases. Such advantages, however, may become disadvantages if appropriate cares are not taken. Because digital atlases can provide unlimited amount of data, they should be designed to minimize redundancy and keep consistency of the records that may be added incrementally by different staffs. The fact that digital atlases can easily be revised necessitates a system to assure that users can access previous versions that might have been cited in papers at a particular period. To inherit our knowledge to our descendants, such databases should be maintained for a very long period, well over 100 years, like printed books and papers. Technical and organizational measures to enable long-term archive should be considered seriously. Compared to the initial development of the database, subsequent efforts to increase the quality and quantity of its contents are not regarded highly, because such tasks do not materialize in the form of publications. This fact strongly discourages continuous expansion of, and external contributions to, the digital atlases after its initial launch. To solve these problems, the role of the biocurators is vital. Appreciation of the scientific achievements of the people who do not write papers, and establishment of the secure academic career path for them, are indispensable for recruiting talents for this very important job.