Supporting data for "Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning"
Dataset type: Genomic, Transcriptomic
Data released on January 23, 2018
Colquitt BM; Mets DG; Brainard MS (2018): Supporting data for "Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning" GigaScience Database. http://dx.doi.org/10.5524/100398
Vocal learning in songbirds has emerged as a powerful model for sensorimotor learning. Neurobehavioral studies of Bengalese finch (Lonchura striata domestica) song, naturally more variable and plastic than songs of other finch species, have demonstrated the importance of behavioral variability for initial learning, maintenance, and plasticity of vocalizations. However, the molecular and genetic underpinnings of this variability, and the learning it supports, are poorly understood. To establish a platform for the molecular analysis of behavioral variability and plasticity, we have generated an initial draft assembly of the Bengalese finch genome from a single male animal to 151x coverage and an N50 of 3.0 MB. Furthermore, we have developed an initial set of gene models using RNA-seq data from eight samples that comprise liver, muscle, cerebellum, brainstem/midbrain and forebrain tissue from juvenile and adult Bengalese finches of both sexes. We provide a draft Bengalese finch genome and gene annotation to facilitate the study of the molecular-genetic influences on behavioral variability and the process of vocal learning. These data will directly support many avenues for the identification of genes involved in learning, including differential expression analysis, comparative genomic analysis (through comparison to existing avian genome assemblies), and derivation of genetic maps for linkage analysis. Bengalese finch gene models and sequences will be essential for subsequent manipulation (molecular or genetic) of genes and gene products, enabling novel mechanistic investigations into the role of variability in learned behavior.
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Additional details
Read the peer-reviewed publication(s):
(PubMed: 29618046)
Accessions (data generated as part of this study):
PROJECT:
PRJNA369279
Sample ID | Taxonomic ID | Common Name | Genbank Name | Scientific Name | Sample Attributes |
---|---|---|---|---|---|
SAMN06283872 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:white83orange58 Alternative names:Sample name: RNA_cb_male_adult Description:DNA extracted from the blood of adult ... ... + | |
SAMN08347896 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:purple31black90 Alternative names:Sample name: RNA_cb_male_adult Description:Total RNA from adult male Bengalese fi... ... + | |
SAMN08347897 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:orange47purple71 Alternative names:Sample name: RNA_cb_male_adult Description:Total RNA from adult female Bengalese ... ... + | |
SAMN08347898 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:yellow51brown12 Alternative names:Sample name: RNA_fb_male_adult Description:Total RNA from adult male Bengalese fi... ... + | |
SAMN08347899 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:white26orange56 Alternative names:Sample name: RNA_fb_female_juven... Description:Total RNA from juvenile female Bengale... ... + | |
SAMN08347900 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:white31orange73 Alternative names:Sample name: RNA_fb_male_juvenil... Description:Total RNA from juvenile male Bengalese... ... + | |
SAMN08347901 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:pink40green76 Alternative names:Sample name: RNA_liver_female_ad... Description:Total RNA from adult female Bengalese ... ... + | |
SAMN08347902 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:purple31black90 Alternative names:Sample name: RNA_mb-bs_male_adul... Description:Total RNA from adult male Bengalese fi... ... + | |
SAMN08347903 | 299123 | Bengalese finch | Lonchura striata domestica | Isolate:pink40green76 Alternative names:Sample name: RNA_muscle_female_a... Description:Total RNA from adult female Bengalese ... ... + |