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

Gene ID: 58118, updated on 9-Sep-2025
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 located in extracellular region. 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 alcohol dependence; cocaine dependence; cognitive disorder (multiple); congenital central hypoventilation syndrome; and neurodegenerative disease (multiple). Orthologous to human BDNF (brain derived neurotrophic factor). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs
human mouse all
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See bdnf in Genome Data Viewer
Location:
chromosome: 7
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2025_04 current GRCz12tu (GCF_049306965.1) 7 NC_133182.1 (31972324..32009893, complement)
RS_2024_08 previous assembly GRCz11 (GCF_000002035.6) 7 NC_007118.7 (31924983..31942161, complement)

Chromosome 7 - NC_133182.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC141375385 Neighboring gene myosin binding protein C3 Neighboring gene uncharacterized LOC103911387 Neighboring gene lin-7 homolog C (C. elegans) Neighboring gene kinesin family member 18A Neighboring gene methyltransferase 15, mitochondrial 12S rRNA N4-cytidine Neighboring gene uncharacterized LOC141375383

Go to nucleotide: Graphics FASTA GenBank

  • Project title: 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

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. 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
  3. bdnf loss affects activity, sociability, and anxiety-like behaviour in zebrafish. Lucon-Xiccato T, et al. Behav Brain Res, 2023 Jan 5. PMID 36113727
  4. Repurposing Anakinra for Alzheimer's Disease: The In Vitro and In Vivo Effects of Anakinra on LPS- and AC-Induced Neuroinflammation. Retinasamy T, et al. ACS Chem Neurosci, 2024 Sep 18. PMID 39213521
  5. Both 5' and 3' flanks regulate Zebrafish brain-derived neurotrophic factor gene expression. Heinrich G, et al. BMC Neurosci, 2004 May 21. PMID 15153250, Free PMC Article

See all (199) 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)

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
  
located_in extracellular region IEA
Inferred from Electronic Annotation
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
  
Preferred Names
neurotrophic factor BDNF precursor form

NEW Try the new Transcript table

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  neurotrophic factor BDNF precursor form isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    JBMGRA010000007
    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  neurotrophic factor BDNF precursor form 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)
    JBMGRA010000007
    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  neurotrophic factor BDNF precursor form 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_049306965.1-RS_2025_04

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

Reference GRCz12tu Primary Assembly

Genomic

  1. NC_133182.1 Reference GRCz12tu Primary Assembly

    Range
    31972324..32009893 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_073907048.1 → XP_073763149.1  neurotrophic factor BDNF precursor form isoform X1

  2. XM_068222375.1 → XP_068078476.1  neurotrophic factor BDNF precursor form isoform X3

    UniProtKB/TrEMBL
    A0A2R8QDP6, F6PAL5, Q6NZ01

  3. XM_073907051.1 → XP_073763152.1  neurotrophic factor BDNF precursor form isoform X3

    UniProtKB/TrEMBL
    A0A2R8QDP6, F6PAL5, Q6NZ01

  4. XM_068222374.1 → XP_068078475.1  neurotrophic factor BDNF precursor form isoform X2

    UniProtKB/TrEMBL
    A0AB32TV83

  5. XM_073907052.1 → XP_073763153.1  neurotrophic factor BDNF precursor form isoform X3

    UniProtKB/TrEMBL
    A0A2R8QDP6, F6PAL5, Q6NZ01

  6. XM_073907049.1 → XP_073763150.1  neurotrophic factor BDNF precursor form isoform X3

    UniProtKB/TrEMBL
    A0A2R8QDP6, F6PAL5, Q6NZ01

  7. XM_073907050.1 → XP_073763151.1  neurotrophic factor BDNF precursor form isoform X3

    UniProtKB/TrEMBL
    A0A2R8QDP6, F6PAL5, Q6NZ01

  8. XM_009303234.5 → XP_009301509.1  neurotrophic factor BDNF precursor form isoform X3

    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 Strain
Heading Accession and Version

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