Release Notes

This page details updates to Service Usage. You can periodically check this page for announcements about new or updated features, bug fixes, known issues, and deprecated functionality.

September 2022

Features

  • Gene search tool was upgraded with the latest version of Tripal MegaSearch
  • Blast search supports now multiple species selection and was extended with additional banks (other Musaceae, Ginger, Rice and Arabidopsis genomes).
  • GO enrichment tool was updated with GO annotation from new genomes.
  • Synteny viewer was updated with 2 new chromosomes scales genomes (Fe'i and beccarii)
  • JBrowse instance added for 3 new genomes (Ensete ventricosum, Fe'i and beccarii)

Datasets

2 new chromosome scale genomes were added

 

June 2022

Features

Datasets

Public RNA-seq added to transcriptomics data viewer

May 2022

Features

  • GeMo is now available to explore genome ancestry mosaics of published related studies
  • MusaCyc, supported by pathwaytools was added
  • Synvisio was updated for easier multiple comparisons between genomes
  • Diane, a tool to perform Differential gene expression analyses, was added

Datasets

  • List of corresponding gene between DH Pahang v2 and v4 is available

 

April 2022

  • Jbrowse tracks restored
  • Liftoffs tracks added
  • Panache updated with new software version

 

May 2021

  • Servers experienced technical difficulties preventing users to perform BLAST searches, Primer design or file download
  • Display of multiple alignment and phylogenetic trees and some Jbrowse tracks were affected.
  • Download section is still uncomplete.

 

April 2021

Datasets

  • Release of the M. acuminata malaccensis DH Pahang v4
    • Belser et al. 2021 Telomere-to-telomere gapless chromosomes of banana using nanopore sequencing. BioRxiv
  • Release of the first Pangenome in musaceae (Musa and Ensete)
    • Rijzaani et al. 2021 The pangenome of banana highlights differences between genera and genomes. The plant genome (in press)

Features

  • Panache is now available to explore the Musaceae pangenome
  • JBrowse instance for the Musaceae pangenome and DH Pahang v4
  • Blast search extended to the Musaceae pangenome and DH Pahang v4

 

February 2021

Datasets

  • InterPro ang Gene ontology annotations updated for Musa acuminata 'DH Pahang' and made available as text and GFF file in download

 

December 2020

Public v3 release: A major new release was set on line with the followling elements:

Features

Datasets

  • Public RNAseq mapped to A and/or B genomes and added as Jbrowse tracks
    • Wang Z et al. 2019. Musa balbisiana genome reveals subgenome evolution and functional divergence. Nature Plants: 1.
    • Cenci A et al. 2019. Effect of paleopolyploidy and allopolyploidy on gene expression in banana. BMC Genomics 20: 244.
  • Public Resquencing data mapped to A and/or B genomes and added as Jbrowse tracks
    • Sambles C et al. 2020. Genome sequencing data for wild and cultivated bananas, plantains and abacá. Data in Brief
    • Busche M et al. 2020. Genome Sequencing of Musa acuminata Dwarf Cavendish Reveals a Duplication of a Large Segment of Chromosome 2. G3: Genes, Genomes, Genetics 10: 37–42.
    • Wang Z et al. 2019. Musa balbisiana genome reveals subgenome evolution and functional divergence. Nature Plants: 1.
  • Public genotyping data inserted in Gigwa
    • Martin G et al. 2020. Chromosome reciprocal translocations have accompanied subspecies evolution in bananas. The Plant Journal.
    • Martin G et al. 2020. Genome ancestry mosaics reveal multiple and cryptic contributors to cultivated banana. The Plant Journal 102: 1008–1025.
    • Nyine M et al. 2019. Association genetics of bunch weight and its component traits in East African highland banana (Musa spp. AAA group). Theoretical and Applied Genetics 132: 3295–3308.
  • Ensete Glaucum Genome is available before publication
  • New Download sections with access to sequence, BAM, CRAM, VCF and other files including transcriptomes assemblies from
    • Sarah G et al. 2017. A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Molecular Ecology Resources 17: 565–580