@article{173b41ea3da243a581746584441d7341,
title = "A high-throughput neurohistological pipeline for brain-wide mesoscale connectivity mapping of the common marmoset",
abstract = "Understanding the connectivity architecture of entire vertebrate brains is a fundamental but difficult task. Here we present an integrated neuro-histological pipeline as well as a grid-based tracer injection strategy for systematic mesoscale connectivity mapping in the common marmoset (Callithrix jacchus). Individual brains are sectioned into ~1700 20 mm sections using the tape transfer technique, permitting high quality 3D reconstruction of a series of histochemical stains (Nissl, myelin) interleaved with tracer labeled sections. Systematic in-vivo MRI of the individual animals facilitates injection placement into reference-atlas defined anatomical compartments. Further, by combining the resulting 3D volumes, containing informative cytoarchitectonic markers, with in-vivo and ex-vivo MRI, and using an integrated computational pipeline, we are able to accurately map individual brains into a common reference atlas despite the significant individual variation. This approach will facilitate the systematic assembly of a mesoscale connectivity matrix together with unprecedented 3D reconstructions of brain-wide projection patterns in a primate brain.",
author = "Lin, {Meng Kuan} and Takahashi, {Yeonsook Shin} and Huo, {Bing Xing} and Mitsutoshi Hanada and Jaimi Nagashima and Junichi Hata and Tolpygo, {Alexander S.} and Keerthi Ram and Lee, {Brian C.} and Miller, {Michael I.} and Rosa, {Marcello Gp} and Erika Sasaki and Atsushi Iriki and Hideyuki Okano and Partha Mitra",
note = "Funding Information: The authors would like to acknowledge Tetsuo Yamamori, Akiya Watakabe and Hiroaki Mizukami at RIKEN Center for Brain Science (CBS) for providing the virus tracers. We thank Noritaka Ichinohe and Yoko Yamaguchi at RIKEN CBS as well as Daniel Ferrante from CSHL Mitra Lab for helping with computational aspects of the pipeline. We acknowledge the effort from our previous technicians, Kevin Weber and Khurshida Hossain (RIKEN) and the support from Erika Sasaki at the Central Institute for Experimental Animals for providing marmosets used in this project. We thank staff of the Biomedicine Discovery Institute, (Monash University) for providing a detailed protocol for injection surgeries (Katrina Worthy), helping perform surgeries (Jonathan Chan), and providing helpful insight on the development of the web infrastructure (Shi Bai and Piotr Majka). We acknowledge James Bourne, Inaki-Carril Mundinano and William Kwan (Australian Regenerative Medicine Institute, Mon-ash University), who performed MRI-guided stereotaxic brain injections in deep brain structures. We acknowledge the support from Jaikishan Jayakumar at IIT Madras on neuroanatomical questions, as well as Xu Li from CSHL machine vision algorithms for process detection. This project is supported by the Brain Mapping of Integrated Neurotechnologies for Disease Studies (Brain/MINDS) from the Japan Agency for Medical Research and Development, AMED under grant number JP17dm0207001, the Crick-Clay Professorship (CSHL), the Mathers Foundation, the H N Mahabala Chair at IIT Madras, the ARC Centre of Excellence for Integrative Brain Function and Monash University. Funding Information: Australian Research Council CE140100007 Marcello GP Rosa Japan Agency for Medical Re- search and Development JP17dm0207001 Hideyuki Okano Clay Mathematics Institute Crick-Clay Professorship Partha Mitra Indian Institute of Technology Madras HN Mahabala Chair Partha Mitra Mathers Foundation Partha Mitra The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication. Publisher Copyright: {\textcopyright} Lin et al.",
year = "2019",
month = feb,
doi = "10.7554/eLife.40042",
language = "English",
volume = "8",
journal = "eLife",
issn = "2050-084X",
publisher = "eLife Sciences Publications",
}