Advanced search
1 file | 882.19 KB Add to list

Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in ophthalmotilapia cichlids

Author
Organization
Abstract
The detection of external and internal cues alters gene expression in the brain which in turn may affect neural networks that underly behavioral responses. Previous studies have shown that gene expression profiles differ between major brain regions within individuals and between species with different morphologies, cognitive abilities and/or behaviors. A detailed description of gene expression in all macroanatomical brain regions and in species with similar morphologies and behaviors is however lacking. Here, we dissected the brain of two cichlid species into six macroanatomical regions. Ophthalmotilapia nasuta and O. ventralis have similar morphology and behavior and occasionally hybridize in the wild. We use 3' mRNA sequencing and a stage-wise statistical testing procedure to identify differential gene expression between females that were kept in a social setting with other females. Our results show that gene expression differs substantially between all six brain parts within species: out of 11,577 assessed genes, 8,748 are differentially expressed (DE) in at least one brain part compared to the average expression of the other brain parts. At most 16% of these DE genes have vertical bar log(2)FC vertical bar significantly higher than two. Functional differences between brain parts were consistent between species. The majority (61-79%) of genes that are DE in a particular brain part were shared between both species. Only 32 genes show significant differences in fold change across brain parts between species. These genes are mainly linked to transport, transmembrane transport, transcription (and its regulation) and signal transduction. Moreover, statistical equivalence testing reveals that within each comparison, on average 89% of the genes show an equivalent fold change between both species. The pronounced differences in gene expression between brain parts and the conserved patterns between closely related species with similar morphologies and behavior suggest that unraveling the interactions between genes and behavior will benefit from neurogenomic profiling of distinct brain regions.
Keywords
cerebellum, social behavior, cichlid fish, equivalence testing, gene-level FDR, neurogenomics, SOCIAL-BEHAVIOR NETWORK, DIFFERENTIAL EXPRESSION, MECHANISMS, PATTERNS, BIOCONDUCTOR, AGGRESSION, PLASTICITY, RECEPTORS, DISCOVERY, COGNITION

Downloads

  • fnins-12-00136.pdf
    • full text
    • |
    • open access
    • |
    • PDF
    • |
    • 882.19 KB

Citation

Please use this url to cite or link to this publication:

MLA
Derycke, Sofie et al. “Neurogenomic Profiling Reveals Distinct Gene Expression Profiles Between Brain Parts That Are Consistent in Ophthalmotilapia Cichlids.” FRONTIERS IN NEUROSCIENCE 12 (2018): n. pag. Print.
APA
Derycke, S., Kéver, L., Herten, K., Van den Berge, K., Van Steenberge, M., Van Houdt, J., Clement, L., et al. (2018). Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in ophthalmotilapia cichlids. FRONTIERS IN NEUROSCIENCE, 12.
Chicago author-date
Derycke, Sofie, Loic Kéver, Koen Herten, Koen Van den Berge, Maarten Van Steenberge, Jeroen Van Houdt, Lieven Clement, Pascal Poncin, Eric Parmentier, and Erik Verheyen. 2018. “Neurogenomic Profiling Reveals Distinct Gene Expression Profiles Between Brain Parts That Are Consistent in Ophthalmotilapia Cichlids.” Frontiers in Neuroscience 12.
Chicago author-date (all authors)
Derycke, Sofie, Loic Kéver, Koen Herten, Koen Van den Berge, Maarten Van Steenberge, Jeroen Van Houdt, Lieven Clement, Pascal Poncin, Eric Parmentier, and Erik Verheyen. 2018. “Neurogenomic Profiling Reveals Distinct Gene Expression Profiles Between Brain Parts That Are Consistent in Ophthalmotilapia Cichlids.” Frontiers in Neuroscience 12.
Vancouver
1.
Derycke S, Kéver L, Herten K, Van den Berge K, Van Steenberge M, Van Houdt J, et al. Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in ophthalmotilapia cichlids. FRONTIERS IN NEUROSCIENCE. 2018;12.
IEEE
[1]
S. Derycke et al., “Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in ophthalmotilapia cichlids,” FRONTIERS IN NEUROSCIENCE, vol. 12, 2018.
@article{8565732,
  abstract     = {The detection of external and internal cues alters gene expression in the brain which in turn may affect neural networks that underly behavioral responses. Previous studies have shown that gene expression profiles differ between major brain regions within individuals and between species with different morphologies, cognitive abilities and/or behaviors. A detailed description of gene expression in all macroanatomical brain regions and in species with similar morphologies and behaviors is however lacking. Here, we dissected the brain of two cichlid species into six macroanatomical regions. Ophthalmotilapia nasuta and O. ventralis have similar morphology and behavior and occasionally hybridize in the wild. We use 3' mRNA sequencing and a stage-wise statistical testing procedure to identify differential gene expression between females that were kept in a social setting with other females. Our results show that gene expression differs substantially between all six brain parts within species: out of 11,577 assessed genes, 8,748 are differentially expressed (DE) in at least one brain part compared to the average expression of the other brain parts. At most 16% of these DE genes have vertical bar log(2)FC vertical bar significantly higher than two. Functional differences between brain parts were consistent between species. The majority (61-79%) of genes that are DE in a particular brain part were shared between both species. Only 32 genes show significant differences in fold change across brain parts between species. These genes are mainly linked to transport, transmembrane transport, transcription (and its regulation) and signal transduction. Moreover, statistical equivalence testing reveals that within each comparison, on average 89% of the genes show an equivalent fold change between both species. The pronounced differences in gene expression between brain parts and the conserved patterns between closely related species with similar morphologies and behavior suggest that unraveling the interactions between genes and behavior will benefit from neurogenomic profiling of distinct brain regions.},
  articleno    = {136},
  author       = {Derycke, Sofie and Kéver, Loic and Herten, Koen and Van den Berge, Koen and Van Steenberge, Maarten and Van Houdt, Jeroen and Clement, Lieven and Poncin, Pascal and Parmentier, Eric and Verheyen, Erik},
  issn         = {1662-453X},
  journal      = {FRONTIERS IN NEUROSCIENCE},
  keywords     = {cerebellum,social behavior,cichlid fish,equivalence testing,gene-level FDR,neurogenomics,SOCIAL-BEHAVIOR NETWORK,DIFFERENTIAL EXPRESSION,MECHANISMS,PATTERNS,BIOCONDUCTOR,AGGRESSION,PLASTICITY,RECEPTORS,DISCOVERY,COGNITION},
  language     = {eng},
  pages        = {12},
  title        = {Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in ophthalmotilapia cichlids},
  url          = {http://dx.doi.org/10.3389/fnins.2018.00136},
  volume       = {12},
  year         = {2018},
}

Altmetric
View in Altmetric
Web of Science
Times cited: