U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LEC1 Histone superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 838800, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    LEC1
    Official Full Name
    Histone superfamily protein
    Primary source
    TAIR:AT1G21970
    Locus tag
    AT1G21970
    See related
    Araport:AT1G21970
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    AtLEC1; EMB 212; EMB212; EMBRYO DEFECTIVE 212; LEAFY COTYLEDON 1; NF-YB9; NUCLEAR FACTOR Y; SUBUNIT B9; T26F17.20; T26F17_20
    Summary
    Transcriptional activator of genes required for both embryo maturation and cellular differentiation. Sequence is similar to HAP3 subunit of the CCAAT-box binding factor. HAP3 subunit is divided into three domains: an amino-terminal A domain, a central B domain, and a carboxyl-terminal C domain. LEC1 shared high similarity with other HAP3 homologs only in central, B domain. LEC1 is required for the specification of cotyledon identity and the completion of embryo maturation. It was sufficient to induce embryogenic programs in vegetative cells, suggesting that LEC1 is a major embryonic regulator that mediates the switch between embryo and vegetative development. Mutants are desiccation intolerant, have trichomes on cotyledons and exhibit precocious meristem activation. Levels of the ABI3 and FUS3 transcripts were significantly reduced in developing siliques of the lec1-1 mutants, indicating that LEC1 down-regulates FUS3 and ABI3.When LEC1 is overexpressed from an inducible promoter, the expression of numerous genes involved in fatty acid biosynthesis is increased suggesting a role in positive regulation of FA biosynthesis.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LEC1 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    2
    Sequence:
    Chromosome: 1; NC_003070.9 (7727577..7729649, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene RING/U-box superfamily protein Neighboring gene miscRNA Neighboring gene phosphatidylinositol-4-phosphate 5-kinase 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Elongation-related functions of LEAFY COTYLEDON1 during the development of Arabidopsis thaliana. Junker A, et al. Plant J, 2012 Aug. PMID 22429691
    2. Arabidopsis LEAFY COTYLEDON1 is sufficient to induce embryo development in vegetative cells. Lotan T, et al. Cell, 1998 Jun 26. PMID 9657152
    3. LEAFY COTYLEDON1 is a key regulator of fatty acid biosynthesis in Arabidopsis. Mu J, et al. Plant Physiol, 2008 Oct. PMID 18689444, Free PMC Article
    4. LEAFY COTYLEDON1 expression in the endosperm enables embryo maturation in Arabidopsis. Song J, et al. Nat Commun, 2021 Jun 25. PMID 34172749, Free PMC Article
    5. Multifunctionality of the LEC1 transcription factor during plant development. Junker A, et al. Plant Signal Behav, 2012 Dec. PMID 23073004, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LEAFY COTYLEDON1 expression in the endosperm enables embryo maturation in Arabidopsis.
      Title: LEAFY COTYLEDON1 expression in the endosperm enables embryo maturation in Arabidopsis.
    2. Lec1 role in late embryogenesis of Arabidopsis and gibberellins signaling.
      Title: Gibberellins play an essential role in late embryogenesis of Arabidopsis.
    3. the mutations of key amino acids for the function of LEC1 in planta (D86K) prevented the interaction with LEC2. These results provide molecular evidences for the binding of LEC1 to B2-domain containing transcription factors, to form heteromers, involved in the control of gene expression.
      Title: LEC1 (NF-YB9) directly interacts with LEC2 to control gene expression in seed.
    4. results show that LEC1 controls distinct gene sets at different developmental stages, including those that mediate the temporal transition between photosynthesis and chloroplast biogenesis early in seed development and seed maturation late in development.
      Title: LEC1 sequentially regulates the transcription of genes involved in diverse developmental processes during seed development.
    5. the seed-specific transcription factor LEAFY COTYLEDON1 promotes the initial establishment of an active chromatin state at FLC and activates its expression de novo in the pro-embryo, thus reversing the silenced state inherited from gametes; this active chromatin state is passed on from the pro-embryo to post-embryonic life, and leads to transmission of the embryonic memory of FLC activation to post-embryonic stages
      Title: Embryonic epigenetic reprogramming by a pioneer transcription factor in plants.
    6. LEC1, LEC2 , and FUSCA3 transcripts are candidate targets of VAL1, acting through epigenetic and/or transcriptional repression.
      Title: Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos.
    7. LEC1 acts as a coactivator of PIFs in transcriptional regulation during postembryonic growth.
      Title: Arabidopsis LEAFY COTYLEDON1 Mediates Postembryonic Development via Interacting with PHYTOCHROME-INTERACTING FACTOR4.
    8. NUCLEAR FACTOR Y (NF-Y) binds a CCAAT box in the distal enhancer element and that CCAAT disruption dramatically reduces FT promoter activity
      Title: A distal CCAAT/NUCLEAR FACTOR Y complex promotes chromatin looping at the FLOWERING LOCUS T promoter and regulates the timing of flowering in Arabidopsis.
    9. In addition to VAL B3 factors, epigenetic mechanisms are implicated in maintaining repression of LEC1/AFL (LAFL)network during vegetative development
      Title: Regulation of the seed to seedling developmental phase transition by the LAFL and VAL transcription factor networks.
    10. Data confirms LEC1's known participation in the regulation of somatic embryogenesis, but also indicates additional roles in embryonic and extra-embryonic cell elongation
      Title: Multifunctionality of the LEC1 transcription factor during plant development.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    NM_102046.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in abscisic acid-activated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in blue light signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of fatty acid biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within somatic embryogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCAAT-binding factor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    Histone superfamily protein
    NP_173616.2
    • LEAFY COTYLEDON 1 (LEC1); FUNCTIONS IN: transcription activator activity, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 6 processes; LOCATED IN: nucleus, intracellular; EXPRESSED IN: seed, endosperm, cultured somatic embryo; EXPRESSED DURING: C globular stage, B proembryo stage, D bilateral stage, E expanded cotyledon stage; CONTAINS InterPro DOMAIN/s: Transcription factor, CBFA/NFYB, DNA topoisomerase (InterPro:IPR003957), Histone-fold (InterPro:IPR009072), Transcription factor CBF/NF-Y/archaeal histone (InterPro:IPR003958), Transcription factor, NFYB/HAP3, conserved site (InterPro:IPR003956); BEST Arabidopsis thaliana protein match is: nuclear factor Y, subunit B6 (TAIR:AT5G47670.2); Has 1463 Blast hits to 1463 proteins in 243 species: Archae - 2; Bacteria - 0; Metazoa - 492; Fungi - 348; Plants - 517; Viruses - 0; Other Eukaryotes - 104 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003070.9 Reference assembly

      Range
      7727577..7729649 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_102046.5 → NP_173616.2  Histone superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_173616.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      C0SUX1, O81130, Q9SFD8
      UniProtKB/TrEMBL
      A0A178WCR4, A0A5S9VIS5
      Conserved Domains (1) summary
      pfam00808
      Location:64 → 127
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SFD8.2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools