Status
The genome sequence and gene models of Clonostachys rosea IK726 were not determined by the Joint Genome Institute (JGI), but were provided by the authors. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds, and 5) unsupported short models. This resulted in the removal of 1305 models from C. rosea and the generation of the FilteredModels1 gene track. All published models are available in the ExternalModels track. JGI tools were used to automatically annotate predicted proteins. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 70.05 |
| Sequencing read coverage depth | 150x |
| # of contigs | 1527 |
| # of scaffolds | 727 |
| # of scaffolds >= 2Kbp | 721 |
| Scaffold N50 | 11 |
| Scaffold L50 (Mbp) | 1.90 |
| # of gaps | 800 |
| % of scaffold length in gaps | 0.3% |
| Three largest Scaffolds (Mbp) | 5.14, 4.86, 3.93 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1680 | 1461 |
| transcript | 1529 | 1317 |
| exon | 528 | 331 |
| intron | 82 | 64 |
| description: | ||
| protein length (aa) | 462 | 390 |
| exons per gene | 2.90 | 2 |
| # of gene models | 19941 |
Collaborators
- Magnus Karlsson - Swedish University of Agricultural Sciences
Genome Reference(s)
Karlsson M, Durling MB, Choi J, Kosawang C, Lackner G, Tzelepis GD, Nygren K, Dubey MK, Kamou N, Levasseur A, Zapparata A, Wang J, Amby DB, Jensen B, Sarrocco S, Panteris E, Lagopodi AL, Pöggeler S, Vannacci G, Collinge DB, Hoffmeister D, Henrissat B, Lee YH, Jensen DF
Insights on the evolution of mycoparasitism from the genome of Clonostachys rosea.
Genome Biol Evol. 2015 Jan 8;7(2):465-80. doi: 10.1093/gbe/evu292
Broberg M, Dubey M, Sun MH, Ihrmark K, Schroers HJ, Li SD, Jensen DF, Brandström Durling M, Karlsson M
Out in the Cold: Identification of Genomic Regions Associated With Cold Tolerance in the Biocontrol Fungus Clonostachys rosea Through Genome-Wide Association Mapping.
Front Microbiol. 2018;9():2844. doi: 10.3389/fmicb.2018.02844
Broberg M, Dubey M, Iqbal M, Gudmundssson M, Ihrmark K, Schroers HJ, Funck Jensen D, Brandström Durling M, Karlsson M
Comparative genomics highlights the importance of drug efflux transporters during evolution of mycoparasitism in Clonostachys subgenus Bionectria (Fungi, Ascomycota, Hypocreales).
Evol Appl. 2021 Feb;14(2):476-497. doi: 10.1111/eva.13134
