Dataset Information

Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system.

ABSTRACT: Rhesus macaque was the second non-human primate whose genome has been fully sequenced and is one of the most used model organisms to study human biology and disease, thanks to the close evolutionary relationship between the two species. But compared to human, where several previously unknown RNAs have been uncovered, the macaque transcriptome is less studied. Publicly available RNA expression resources for macaque are limited, even for brain, which is highly relevant to study human cognitive abilities. In an effort to complement those resources, FANTOM5 profiled 15 distinct anatomical regions of the aged macaque central nervous system using Cap Analysis of Gene Expression, a high-resolution, annotation-independent technology that allows monitoring of transcription initiation events with high accuracy. We identified 25,869 CAGE peaks, representing bona fide promoters. For each peak we provide detailed annotation, expanding the landscape of 'known' macaque genes, and we show concrete examples on how to use the resulting data. We believe this data represents a useful resource to understand the central nervous system in macaque.

SUBMITTER: Francescatto M

PROVIDER: S-EPMC5663209 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature

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Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system.

Francescatto Margherita M Lizio Marina M Philippens Ingrid I Pardo Luba M LM Bontrop Ronald R Sakai Mizuho M Watanabe Shoko S Itoh Masayoshi M Hasegawa Akira A Lassmann Timo T Severin Jessica J Harshbarger Jayson J Abugessaisa Imad I Kasukawa Takeya T Kasukawa Takeya T Carninci Piero P Hayashizaki Yoshihide Y Forrest Alistair R R ARR Kawaji Hideya H Rizzu Patrizia P Heutink Peter P

Scientific data 20171031

Rhesus macaque was the second non-human primate whose genome has been fully sequenced and is one of the most used model organisms to study human biology and disease, thanks to the close evolutionary relationship between the two species. But compared to human, where several previously unknown RNAs have been uncovered, the macaque transcriptome is less studied. Publicly available RNA expression resources for macaque are limited, even for brain, which is highly relevant to study human cognitive abi ...[more]

PMID: 29087374

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Project description:BACKGROUND:We conducted a large-scale transcriptomic profiling of selected regions of the central nervous system (CNS) across three species of honey bees, in foragers that were performing dance behavior to communicate to their nestmates the location, direction and profitability of an attractive floral resource. We used microarrays to measure gene expression in bees from Apis mellifera, dorsata and florea, species that share major traits unique to the genus and also show striking differences in biology and dance communication. The goals of this study were to determine the extent of regional specialization in gene expression and to explore the molecular basis of dance communication. PRINCIPAL FINDINGS:This "snapshot" of the honey bee CNS during dance behavior provides strong evidence for both species-consistent and species-specific differences in gene expression. Gene expression profiles in the mushroom bodies consistently showed the biggest differences relative to the other CNS regions. There were strong similarities in gene expression between the central brain and the second thoracic ganglion across all three species; many of the genes were related to metabolism and energy production. We also obtained gene expression differences between CNS regions that varied by species: A. mellifera differed the most, while dorsata and florea tended to be more similar. SIGNIFICANCE:Species differences in gene expression perhaps mirror known differences in nesting habit, ecology and dance behavior between mellifera, florea and dorsata. Species-specific differences in gene expression in selected CNS regions that relate to synaptic activity and motor control provide particularly attractive candidate genes to explain the differences in dance behavior exhibited by these three honey bee species. Similarities between central brain and thoracic ganglion provide a unique perspective on the potential coupling of these two motor-related regions during dance behavior and perhaps provide a snapshot of the energy intensive process of dance output generation. Mushroom body results reflect known roles for this region in the regulation of learning, memory and rhythmic behavior.

Dataset Information

Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system.

Publications

Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system.

Similar Datasets

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