Genome

Dictyostelium discoideum Social amoeba that is a powerful model organism for studying cellular and developmental processes Lineage: Eukaryota[15557]; Amoebozoa[53]; Evosea[31]; Eumycetozoa[22]; Dictyostelia[21]; Dictyosteliales[13]; Dictyosteliaceae[10]; Dictyostelium[9]; Dictyostelium discoideum[1]

The social amoeba Dictyostelium discoideum is a soil-living protozoan that is capable of multicellular development. This process involves aggregation of free-living amoebae, which then organize into a relatively simple organism with a few different cell types. Coordinated cell-type differentiation and morphogenesis lead to a final fruiting body More...that allows the dispersal of spores.Since D. discoideum has both single-cell and multicellular life stages, it is an excellent model system for molecular studies of cellular and developmental processes, including all of those required for a unicellular eukaryote to develop into a multicellular organism. The amoebae are easy to grow and have a rapid doubling time, allowing frequent harvesting for study. In addition, the simplicity of the life cycle facilitates mutant selection, where the distinct growth and development stages are easily switched using nutrient variation.The availability of biochemical and molecular genetics techniques has allowed the discovery of complex signaling networks, which are essential for Dictyostelium development and are also present in other organisms. The full characterization of the D. discoideum genome will provide further insights into the cell biology and development of this organism, and allow detailed physiological and evolutionary comparisons to other species. Less...

Summary Submitter: The Dictyostelium discoideum Sequencing Consortium Assembly level:  Chromosome Assembly: GCA_000004695.1 dicty_2.7 scaffolds: 41 contigs: 261 N50: 341,816 L50: 20 BioProjects: PRJNA13925, PRJNA201 Whole Genome Shotgun (WGS):  RefSeq: NZ_AAFI00000000.2; INSDC: AAFI00000000.2 Statistics:  total length (Mb): 34.205  protein count: 13315  GC%: 22.4631 Publications (limited to 20 most recent records) The genome of the social amoeba Dictyostelium discoideum. Eichinger L, et al. Nature 2005 May 5 Sequence and analysis of chromosome 2 of Dictyostelium discoideum. Glöckner G, et al. Nature 2002 Jul 4 The mitochondrial DNA of Dictyostelium discoideum: complete sequence, gene content and genome organization. Ogawa S, et al. Mol Gen Genet 2000 Apr Characterization of a novel small RNA encoded by Dictyostelium discoideum mitochondrial DNA. Pi M, et al. Mol Gen Genet 1998 Jan Dictyostelium discoideum nuclear plasmid Ddp5 is a chimera related to the Ddp1 and Ddp2 plasmid families. Rieben WK Jr, et al. Genetics 1998 Mar A ribosomal protein gene cluster is encoded in the mitochondrial DNA of Dictyostelium discoideum: UGA termination codons and similarity of gene order to Acanthamoeba castellanii. Iwamoto M, et al. Curr Genet 1998 Apr Group-I introns in the cytochrome c oxidase genes of Dictyostelium discoideum: two related ORFs in one loop of a group-I intron, a cox1/2 hybrid gene and an unusually large cox3 gene. Ogawa S, et al. Curr Genet 1997 Jan A site-specific DNA endonuclease specified by one of two ORFs encoded by a group I intron in Dictyostelium discoideum mitochondrial DNA. Ogawa S, et al. Gene 1997 May 20 Ordered yeast artificial chromosome clones representing the Dictyostelium discoideum genome. Kuspa A, et al. Proc Natl Acad Sci U S A 1996 May 28 Dictyostelium discoideum mitochondrial DNA encodes a NADH:ubiquinone oxidoreductase subunit which is nuclear encoded in other eukaryotes. Cole RA, et al. J Mol Evol 1995 Jun Codon usage, genetic code and phylogeny of Dictyostelium discoideum mitochondrial DNA as deduced from a 7.3-kb region. Angata K, et al. Curr Genet 1995 Feb A group-I intron in the mitochondrial large-subunit ribosomal RNA-encoding gene of Dictyostelium discoideum: same site localization in alga and in vitro self-splicing. Angata K, et al. Gene 1995 Feb 3 Mitochondrial ribosomal protein L11 gene of Dictyostelium discoideum resides not in the nuclear genome but in the mitochondrial genome. Iwamoto M, et al. DNA Res 1995 Jun 30 The Dictyostelium discoideum mitochondrial genome: a primordial system using the universal code and encoding hydrophilic proteins atypical of metazoan mitochondrial DNA. Cole RA, et al. J Mol Evol 1994 Dec ORF209 of Dictyostelium discoideum mitochondrial DNA has a homologue in chloroplast DNA. Tanaka Y, et al. Plant Mol Biol 1990 Oct More... Replicon Info Loc Type Name RefSeq INSDC Size (Mb) GC% Protein rRNA tRNA Other RNA Gene Pseudogene Chr 1 NC_007087.3 CM000150.2 4.92 22.8 1,925 - 79 9 2,019 13 Chr 2 NC_007088.5 CM000151.3 8.48 22.2 3,285 - 91 15 3,431 46 Chr 3 NC_007089.4 CM000152.2 6.36 22.3 2,477 - 79 14 2,604 39 Chr 4 NC_007090.3 CM000153.2 5.45 22.2 2,105 - 33 25 2,183 23 Chr 5 NC_007091.3 CM000154.2 5.13 22.5 1,959 - 33 14 2,030 25 Chr 6 NC_007092.3 CM000155.2 3.6 22.9 1,392 - 87 4 1,498 17 MT NC_000895.1 - 0.06 27.4 42 2 18 1 63 - Plsm Ddp5 NC_001889.1 - 0.01 25.3 6 - - - 6 - Un - . - 0.19 27.5 124 - 3 - 127 - Chromosomes External Resources Dictyostelium discoideum Genome Project Dictyostelium discoideum International Sequencing Effort dictyBase Dictyostelium discoideum GeneDB Dictyostelium discoideum cDNA Project University of Tsukuba, Japan Dicty WorkBench Utah State University German Genomic Sequence Analysis Consortium DFCI D. discoideum Gene Index Annotated Genes D.discoideum SwissProt seqs Genetic Maps The Franke Dictyostelium Reference Library WWW Virtual Library: Dictyostelium discoideum