Eukaryotic genome size database

Department of Integrative Biology, University of Guelph, Guelph, Ontario, N1G 2W1, Canada.
Nucleic Acids Research (Impact Factor: 9.11). 02/2007; 35(Database issue):D332-8. DOI: 10.1093/nar/gkl828
Source: PubMed


Three independent databases of eukaryotic genome size information have been launched or re-released in updated form since
2005: the Plant DNA C-values Database (, the Animal Genome Size Database ( and the Fungal Genome Size Database ( In total, these databases provide freely accessible genome size data for >10 000 species of eukaryotes assembled from more
than 50 years' worth of literature. Such data are of significant importance to the genomics and broader scientific community
as fundamental features of genome structure, for genomics-based comparative biodiversity studies, and as direct estimators
of the cost of complete sequencing programs.

Download full-text


Available from: Ilia Leitch
  • Source
    • "Despite the advent of NGS, developing fungal microsatellite markers is still challenging (Dutech et al. 2007; Schoebel et al. 2013a, b). While the small size of fungal genomes, most ranging from 10 to 60 Mbp (Gregory et al. 2007), makes it easier to explore the genome to find microsatellite loci, it appears that microsatellites are less abundant in fungi than in any other organism (Dutech et al. 2007). Fungal microsatellite motifs are also known to have low numbers of repetitions (most fewer than eight), with a high proportion of mononucleotide motifs, making it difficult to find highly polymorphic SSRs (Dutech et al. 2007). "
    [Show abstract] [Hide abstract]
    ABSTRACT: Ganoderma boninense is a telluric lignicolous basidiomycete and the causal agent of basal stem rot, one of the most devastating diseases of the oil palm (Elaeis guineensis). While the fight against G. boninense is of major concern in Southeast Asia, little information is available regarding the genetic diversity and evolutionary history of the fungus. In this context, the development of an informative molecular marker set to characterize the diversity of G. boninense is a key step towards understanding the biology of this pathogen. A G. boninense draft genome sequence of 63 Mbp, assembled using 454 and Illumina sequencing technology, was used to identify and develop a set of microsatellite markers (simple sequence repeats, SSRs). A total of 2487 SSRs were identified, for which 145 SSR primer pairs were designed. These SSRs are characterized by di- to hexanucleotide motifs with 5 to 34 repetitions. Ninety-seven SSR loci were successfully amplified on an initial small set of G. boninense isolates from Indonesia. A collection of 107 isolates from several regions in Southeast Asia were screened to characterize each locus for allele number, polymorphism information criterion and the presence or absence of null alleles at each locus. These results allowed us to propose an effective set of 17 SSRs for studying genetic diversity within G. boninense.
    Preview · Article · Nov 2015 · Mycological Progress
  • Source
    • "Glomeromycota genome size estimations showed great variations according to species, ranging from 0.18 to 1.08 pg of DNA per nucleus (Bianciotto & Bonfante, 1992; Hosny, Gianinazzi-Pearson, & Dulieu, 1998), that is, 176 Mb to over 1 Gb using the conversion formula of Doležel, Bartoš, Voglmayr, and Greilhuber (2003). Glomeromycota hence present the largest genome sizes among fungi (37 Mb on average—Gregory et al., 2007). Flow cytometry assays performed on isolate DAOM197198 first led to a genome size estimation of around 15 Mb (Hijri & Sanders, 2004), but later measurements using different standards indicated that the genome size could be in fact 10 times higher (154.8 "
    [Show abstract] [Hide abstract]
    ABSTRACT: Arbuscular mycorrhizal (AM) symbiosis is the most widespread mutualistic association. It concerns 80% of land plants and involves fungi belonging to the phylum Glomeromycota. Benefits to the host plants due to this symbiosis range from nutrient supply to protection against pathogens. AM fungi are important components of the soil microbiome and are of great interest for managing sustainable agriculture, provided that their life cycle is better understood. Recently, major advances in the genomics of the model AM fungus Rhizophagus irregularis DAOM197198 have been published, offering new tools to investigate the biology of this symbiosis. In this chapter, we provide an overview of the efforts that were necessary to reach these results, from the discovery of these fungi and the description of their mutualistic incidence to their in vitro cultivation and on to genomics. The genome of DAOM197198 is estimated at ca. 150 Mb. It is haploid and less polymorphic than expected. Although it is an obligate biotrophic fungus, very little gene loss was observed. We put the Rhizophagus gene repertoire in perspective with previous investigations performed on the physiology of AM fungi: germination, early signalling with host plants, plant invasion, metabolism (phosphorous, carbon and nitrogen) and sexuality. Clearly, the publication of the genome of R. irregularis DAOM197198 is a turning point in the study of AM fungi, and large areas of their biology that still remain to be elucidated will now become accessible for investigation.
    Full-text · Chapter · Dec 2014
  • Source
    • "The genome size of C. antarcticus is 24 Mbp (Table 1) which is only a bit smaller than the median size in fungi which is 28 Mbp. The smallest genome of a fungus is found in Pneumocystsis carinii with 6.5 Mbp and the largest in Scutellospora castanea with 795 Mbp [20]. With 28 Mbp the rock inhabiting, stress resistant but mesophilic fungus Coniosporium apollinis is in the same size range as C. antarcticus. "
    [Show abstract] [Hide abstract]
    ABSTRACT: The draft genome of the Antarctic endemic fungus Cryomyces antarcticus is presented. This rock inhabiting, microcolonial fungus is extremely stress tolerant and it is a model organism for exobiology and studies on stress resistance in Eukaryots. Since this fungus is a specialist in the most extreme environment of the Earth, the analysis of its genome is of important value for the understanding of fungal genome evolution and stress adaptation. A comparison with Neurospora crassa as well as with other microcolonial fungi shows that the fungus has a genome size of 24 Mbp, which is the average in the fungal kingdom. Although sexual reproduction was never observed in this fungus, 34 mating genes are present with protein homologs in the classes Eurotiomycetes, Sordariomycetes and Dothideomycetes. The first analysis of the draft genome did not reveal any significant deviations of this genome from comparative species and mesophilic hyphomycetes.
    Full-text · Article · Oct 2014 · PLoS ONE
Show more