Updated May 2017


 


NCBI databases :389,052 nucleotide (54366 ESTs)/1 genome/37,648 protein entries
Genome Project: APKA00000000

Short Read Archive (SRA): NGS datasets

Synteny @ UCSC


Biomphalaria glabrata @ Vectorbase: assembly, transcriptome etc.


 Introduction
- The international consortium has characterized the genome of the freshwater gastropod Biomphalaria glabrata.
- An important motivation for this project is that Biomphalaria glabrata is a major snail host for transmission of human schistosomiasis

- This site provides an overview of the efforts that have yielded a first genome assembly.
- The sequence data have been deposited in public databases (GenBank NCBI; Vectorbase)
- Investigators are encouraged to access the Biomphalaria glabrata genome for study of snail biology and comparative genomics.


 News (also see links below)
  • 2017 May
    Whole genome analysis of a schistosomiasis-transmitting freshwater snail,
    Nature Communications
    , 8, Article number: 15451 (2017), doi:10.1038/ncomms15451

    • Companion papers:
      - Proteomic analysis of Biomphalaria glabrata plasma proteins with binding affinity to those expressed by early developing larval Schistosoma mansoni doi.org/10.1371/journal.ppat.1006081
      - The Biomphalaria glabrata DNA methylation machinery displays spatial tissue expression, is differentially active in distinct snail populations and is modulated by interactions with Schistosoma mansoni
      doi.org/10.1371/journal.pntd.0005246


  • 2015 Oct -- Publication process
  • 2015 Oct Community-contributed analyses completed, manuscript submission
  • 2013 WebApollo implemented by Vectorbase for Community annotation
  • 2013 Vectorbase hosts, curates annotations and assembly
  • 2013 MGI-supported conference calls support annotation effort
  • 2012 Aug Formation steering committee, organization of internatinal annotation effort for Biomphalaria glabrata genome.
  • 2012 Jun Biomphalaria glabrata genome assembly v4.3 (MGI)
  • 2011 Jul MGI initiates Illumina sequencing of PE gDNA
  • 2011 Jul MGI completes Illumina cDNA sequencing for 12 tissue types of Biomphalaria glabrata
  • 2011 Jun MGI completes ~51x Illumina coverage short gDNA fragments.
  • 2011 May MGI to obtain additional Illumina coverage to improve assembly
  • 2011 Apr PRELIMINARY Biomphalaria glabrata genome assembly v4.0.1 (MGI)
  • 2011 Mar MGI Illumina sequencing of 5 Gb gDNA
  • 2010 Dec MGI to sequence Illumina paired ends (PE; 3kb; 8kb) for improved assembly
  • 2010 Dec Illumina cDNA sequencing for 12 tissue types of Biomphalaria glabrata in progress.
  • 2010 Jun PRELIMINARY Biomphalaria glabrata genome assembly v2.1 (MGI)
  • 2009 Sep MGI LS454 paired end gDNA data (6Gbases), > 23x coverage in NCBI SRA
  • 2009 Jul MGI LS454 gDNA data (17.1Gbases) in NCBI SRA
  • 2009 Feb MGI releases full-length sequence data from several BACs to NCBI
  • 2008 Jan MGI releases 100,304 BAC clone end sequences (BES) from the BG-BBa library to NCBI
  • 2007 November: Biomphalaria glabrata genome project progress meeting at ASTMH 2007
  • 2007 January: RNA, DNA template from selfed BB02 provided to initiate sequencing at MGI
  • 2006 January: Over 46,000 nucleotide database entries for Biomphalaria glabrata
  • 2005 October: Planning meeting for sequencing strategy at McDonnell Genome Institute MGI, St. Louis MO
  • 2004 August: Biomphalaria glabrata prioritized as genomic sequencing target by NHGRI
  • 2004 August: High quality BAC library (BG-BBa) available at cost from Arizona Genomics Institute
  • 2004 January: Mitochondrial genome sequence of Biomphalaria glabrata completed
  • 2003 September:  Genome size for Biomphalaria glabrata  published (check link below)
  • 2002 October: Prioritization for BAC library publicly posted (see snail) by NHGRI

Details and additional information
 
Rationale for a focus on Biomphalaria glabrata
Genome size of Biomphalaria glabrata Mitochondrial genome of Biomphalaria glabrata
 BB02 strain Biomphalaria glabrata for BACs BAC library for Biomphalaria glabrata
Genome sequencing Biomphalaria glabrata rDNA cassette of Biomphalaria glabrata
McDonnell Genome Institute MGI Vectorbase
Useful links