Ensembl Genomes Release 38 Intentions

  • Release scheduled for 10th January 2018
  • Update to pan-taxonomic peptide comparative genomics database to include new C. elegans and D. melanogaster data
  • Update to Ensembl 91 software
  • Removal of MySQL databases from release 29 from the public MySQL server

Metazoa

  • New genomes
  • Updated genomes (assembly and gene set)
    • Danaus plexippus (monarch butterfly): assembly v3 and gene set OGS2.0 from MonarchBase
    • Drosophila simulans: assembly v2.0 and gene set dsim_r2.02 from FlyBase
    • Brugia malayi: assembly 4.0 and gene set WS260 from WormBase
  • Updated genomes (gene set)
    • FlyBase
      • Drosophila ananassae: dana_r1.05
      • Drosophila erecta: dere_r1.05
      • Drosophila grimshawi: dgri_r1.05
      • Drosophila melanogaster: dmel_r6.17
      • Drosophila mojavensis: dmoj_r1.04
      • Drosophila persimilis: dper_r1.3
      • Drosophila pseudoobscura: dpse_r3.04
      • Drosophila sechellia: dsec_r1.3
      • Drosophila virilis: dvir_r1.06
      • Drosophila willistoni: dwil_r1.05
      • Drosophila yakuba: dyak_r1.05
    • VectorBase
      • Aedes aegypti: AaegL3.4
      • Anopheles darlingi: AdarC3.5
      • Anopheles gambiae: AgamP4.7
      • Culex quinquefasciatus: CpipJ2.3
      • Ixodes scapularis: IscaW1.5
      • Pediculus humanus: PhumU2.2
      • Rhodnius prolixus: RproC3.2
      • Sarcoptes scabiei: SscaA1.2
    • WormBase (WS260)
      • Caenorhabditis elegans
      • Caenorhabditis remanei
      • Caenorhabditis brenneri
      • Caenorhabditis japonica
      • Caenorhabditis briggsae (chrUn broken up into its constituent scaffolds)
      • Onchocerca volvulus (modified mitochondrial sequence)
      • Strongyloides ratti
  • Updated data‚Äč
    • Updated peptide comparative genomics
    • Updated protein features
    • Updated BioMarts

Fungi

  • Genomes
    • No significant updates to fungal genomes since the last release
  • Updated data
    • Updated peptide comparative genomics across most fungal species
    • Updated identity based cross references to UniProt across key fungal species
    • Updated alignment based cross references to UniProt and RefSeq across key fungal species
    • Updated protein features for all fungal proteins
    • Updated BioMarts

Protists

  • Genomes
    • No significant updates to protist genomes since the last release
  • Updated data
    • Updated identity based cross references to UniProt across key protist species
    • Updated alignment based cross references to UniProt and RefSeq across key protist species
    • Updated protein features for all protist proteins
    • Updated BioMarts

Plants

  • New genomes
    • New genome for Manihot esculenta (Cassava, GCA_001659605.1)
    • New genome for Dioscorea rotundata (white Guinea yam, GCA_002240015.2)
    • New genome for Helianthus annuus (common sunflower, GCA_002127325.1)
    • New genome for Triticum dicoccoides acc. Zavitan (a wild emmer wheat, GCA_002162155.1)
    • Five new wheat cultivars added to a wheat specific sub-site.
  • Updated genomes
  • New data
    • New transposable elements for Zea mays (maize) provided by Jeffrey Ross-Ibarra, Department of Plant Sciences, UC Davis
  • Updated data
    • Updated peptide comparative genomics across all plants, including the seven new and updated genomes
    • Updated identity based cross references to UniProt across all plants
    • Updated alignment based cross references to UniProt and RefSeq across all plants
    • Updated protein features for all (nearly 2 million) plant proteins
    • Updated BioMarts for all gene and variation data

Bacteria

  • No significant updates are planned