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    bdnf brain-derived neurotrophic factor [ Danio rerio (zebrafish) ]

    Gene ID: 58118, updated on 28-Oct-2024

    Summary

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    Official Symbol
    bdnfprovided by ZNC
    Official Full Name
    brain-derived neurotrophic factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-000412-1
    See related
    Ensembl:ENSDARG00000018817 AllianceGenome:ZFIN:ZDB-GENE-000412-1
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to enable growth factor activity and nerve growth factor receptor binding activity. Acts upstream of or within circadian behavior; multicellular organismal response to stress; and nervous system development. Predicted to be active in several cellular components, including axon; dendrite; and synaptic vesicle. Is expressed in several structures, including blastoderm; digestive system; kidney; nervous system; and oral region. Human ortholog(s) of this gene implicated in several diseases, including cocaine dependence; cognitive disorder (multiple); congenital central hypoventilation syndrome; neurodegenerative disease (multiple); and obstructive sleep apnea. Orthologous to human BDNF (brain derived neurotrophic factor). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See bdnf in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (31924983..31942161, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (31653838..31670520, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene myosin binding protein C3 Neighboring gene lin-7 homolog C (C. elegans) Neighboring gene uncharacterized LOC103911387 Neighboring gene kinesin family member 18A Neighboring gene methyltransferase 15, mitochondrial 12S rRNA N4-cytidine

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Prolonged ethanol exposure alters glutamate uptake leading to astrogliosis and neuroinflammation in adult zebrafish brain. Vizuete AFK, et al. Neurotoxicology, 2022 Jan. PMID 34728274
    2. bdnf loss affects activity, sociability, and anxiety-like behaviour in zebrafish. Lucon-Xiccato T, et al. Behav Brain Res, 2023 Jan 5. PMID 36113727
    3. Individual differences and knockout in zebrafish reveal similar cognitive effects of BDNF between teleosts and mammals. Lucon-Xiccato T, et al. Proc Biol Sci, 2022 Dec 21. PMID 36541170, Free PMC Article
    4. BDNF Expression in Larval and Adult Zebrafish Brain: Distribution and Cell Identification. Cacialli P, et al. PLoS One, 2016. PMID 27336917, Free PMC Article
    5. Effect of Tempeh on Gut Microbiota and Anti-Stress Activity in Zebrafish. Chen YC, et al. Int J Mol Sci, 2021 Nov 23. PMID 34884465, Free PMC Article

    See all (180) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. bdnf loss affects activity, sociability, and anxiety-like behaviour in zebrafish.
      Title: bdnf loss affects activity, sociability, and anxiety-like behaviour in zebrafish.
    2. DNA Methylation Profiles of Tph1A and BDNF in Gut and Brain of L. Rhamnosus-Treated Zebrafish.
      Title: DNA Methylation Profiles of Tph1A and BDNF in Gut and Brain of L. Rhamnosus-Treated Zebrafish.
    3. Expression and Localization of BDNF/TrkB System in the Zebrafish Inner Ear.
      Title: Expression and Localization of BDNF/TrkB System in the Zebrafish Inner Ear.
    4. Zebrafish brain possesses intense neurogenesis that can be correlated with high regenerative properties. Recently, the zebrafish has been proposed as a valid experimental paradigm to study the association of BDNF and neural repair after traumatic brain injury.[review]
      Title: BDNF, Brain, and Regeneration: Insights from Zebrafish.
    5. BDNF is involved in the gonadal function of adult zebrafish, and mainly in the adult ovary.
      Title: Morpho-Functional Features of the Gonads of Danio rerio: the Role of Brain-Derived Neurotrophic Factor.
    6. One of the modulators of TOR is brain-derived neurotrophic factor (BDNF), which activates the TOR signaling pathway to promote protein synthesis, synapse strengthening, and the creation of new neural networks.findings demonstrate that TOR activation in old animals occurs in the early phase of consolidation, and follows a pattern identical to that of BDNF expression.
      Title: Effects of learning on mTOR pathway gene expression in the brain of zebrafish (Danio rerio) of different ages.
    7. These results suggest an involvement of the BDNF/TrkB system in the regulation of food intake and energy balance in zebrafish, as in mammals
      Title: Morphological differences in adipose tissue and changes in BDNF/Trkb expression in brain and gut of a diet induced obese zebrafish model.
    8. BDNF-TrkB influences the expression level of components of chemokine signaling including Cxcr4b, and the generation of progenitors of mechanoreceptors, at the level of expression of Atoh1a-Atp2b1a.
      Title: BDNF-TrkB axis regulates migration of the lateral line primordium and modulates the maintenance of mechanoreceptor progenitors.
    9. Light regulates the expression of the BDNF/TrkB2 system in the adult zebrafish retina.
      Title: Light regulates the expression of the BDNF/TrkB system in the adult zebrafish retina.
    10. Brain-derived neurotrophic factor (BDNF) induces polarized signaling of small GTPase (Rac1) protein at the onset of Schwann cell myelination through partitioning-defective 3 (Par3) protein.
      Title: Brain-derived neurotrophic factor (BDNF) induces polarized signaling of small GTPase (Rac1) protein at the onset of Schwann cell myelination through partitioning-defective 3 (Par3) protein.
    Submit: New GeneRIF Correction See all GeneRIFs (14)

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables growth factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables growth factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nerve growth factor receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables signaling receptor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within brain development IEP
    Inferred from Expression Pattern
    more info
    		  
    involved_in cell surface receptor protein tyrosine kinase signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within circadian behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within dopaminergic neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in modulation of chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within multicellular organismal response to stress IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in negative regulation of neuron apoptotic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nerve development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nerve growth factor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neuron projection morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within presynapse assembly IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synaptic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    brain-derived neurotrophic factor

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001308648.1 → NP_001295577.1  brain-derived neurotrophic factor isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AL935207, CU459028
      UniProtKB/TrEMBL
      A0A8M1P735
      Related
      ENSDARP00000069872.3, ENSDART00000075389.4
      Conserved Domains (1) summary
      smart00140
      Location:164 → 271
      NGF; Nerve growth factor (NGF or beta-NGF)

    2. NM_001308649.1 → NP_001295578.1  brain-derived neurotrophic factor isoform 2 precursor

      See identical proteins and their annotated locations for NP_001295578.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate exon in the 5' UTR which results in the use of a downstream AUG compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      AL935207, CU459028
      UniProtKB/TrEMBL
      A0A2R8QDP6, F6PAL5, Q6NZ01
      Related
      ENSDARP00000152925.1, ENSDART00000180929.1
      Conserved Domains (1) summary
      smart00140
      Location:156 → 263
      NGF; Nerve growth factor (NGF or beta-NGF)

    3. NM_131595.2 → NP_571670.2  brain-derived neurotrophic factor isoform 2 precursor

      See identical proteins and their annotated locations for NP_571670.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant uses an alternate 5' exon which results in the use of a downstream start codon compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      BC058301
      UniProtKB/TrEMBL
      A0A2R8QDP6, F6PAL5, Q6NZ01
      Related
      ENSDARP00000010990.5, ENSDART00000014843.6
      Conserved Domains (1) summary
      smart00140
      Location:156 → 263
      NGF; Nerve growth factor (NGF or beta-NGF)

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007118.7 Reference GRCz11 Primary Assembly

      Range
      31924983..31942161 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068222375.1 → XP_068078476.1  brain-derived neurotrophic factor isoform X2

    2. XM_068222374.1 → XP_068078475.1  brain-derived neurotrophic factor isoform X1

    3. XM_009303234.4 → XP_009301509.1  brain-derived neurotrophic factor isoform X2

      See identical proteins and their annotated locations for XP_009301509.1

      UniProtKB/TrEMBL
      A0A2R8QDP6, F6PAL5, Q6NZ01
      Conserved Domains (1) summary
      smart00140
      Location:156 → 263
      NGF; Nerve growth factor (NGF or beta-NGF)
    Nucleotide Protein
    Heading Accession and Version

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