Digital atlas of the zebra finch (Taeniopygia guttata) brain: a high-resolution photo atlas

Karten, H. J., Brzozowska-Prechtl, A., Lovell, P. V., Tang, D. D., Mello, C. V., Wang, H., Mitra, P. P. (November 2013) Digital atlas of the zebra finch (Taeniopygia guttata) brain: a high-resolution photo atlas. Journal of Comparative Neurology, 521 (16). pp. 3702-15. ISSN 1096-9861 (Electronic) 0021-9967 (Linking)

DOI: 10.1002/cne.23443


We describe a set of new comprehensive, high-quality, high-resolution digital images of histological sections from the brain of male zebra finches (Taeniopygia guttata) and make them publicly available through an interactive website ( These images provide a basis for the production of a dimensionally accurate and detailed digital nonstereotaxic atlas. Nissl- and myelin-stained brain sections are provided in the transverse, sagittal, and horizontal planes, with the transverse plane approximating the more traditional Frankfurt plane. In addition, a separate set of brain sections in this same plane is stained for tyrosine hydroxylase, revealing the distribution of catecholaminergic neurons (dopaminergic, noradrenergic, and adrenergic) in the songbird brain. For a subset of sagittal sections we also prepared a corresponding set of drawings, defining and annotating various nuclei, fields, and fiber tracts that are visible under Nissl and myelin staining. This atlas of the zebra finch brain is expected to become an important tool for birdsong research and comparative studies of brain organization and evolution.

Item Type: Paper
Subjects: Investigative techniques and equipment
organism description > animal > bird
organs, tissues, organelles, cell types and functions > organs types and functions > brain
Investigative techniques and equipment > imaging
CSHL Authors:
Communities: CSHL labs > Mitra lab
Depositing User: Matt Covey
Date: November 2013
Date Deposited: 18 Feb 2014 19:55
Last Modified: 03 Feb 2017 15:28
PMCID: PMC3931548
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