Status
Phlebia centrifuga was sequenced by CBS-KNAW Fungal Biodiversity Centre and University of Helsinki using Illumina HiSeq2500, and annotated with software Glimmer v3.02 and EvidenceModeler v1.1.1 which integrated mRNA-Seq evidence to improve gene prediction. JGI tools were used to add functional annotations to the gene models.
Summary statistics for the Phlebia centrifuga release are
below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 34.85 |
| Sequencing read coverage depth | |
| # of contigs | 3667 |
| # of scaffolds | 3022 |
| # of scaffolds >= 2Kbp | 1652 |
| Scaffold N50 | 201 |
| Scaffold L50 (Mbp) | 0.05 |
| # of gaps | 645 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.44, 0.24, 0.22 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1378 | 1053 |
| transcript | 1134 | 855 |
| exon | 274 | 170 |
| intron | 80 | 58 |
| description: | ||
| protein length (aa) | 378 | 285 |
| exons per gene | 4.14 | 3 |
| # of gene models | 13785 |
Collaborators
Ronald P. de Vries, CBS-KNAW Fungal Biodiversity Centre
Kristiina Hildén, University of Helsinki
Miia Mäkelä, University of Helsinki
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Mäkelä MR, Peng M, Granchi Z, Chin-A-Woeng T, Hegi R, van Pelt SI, Ahrendt S, Riley R, Hainaut M, Henrissat B, Grigoriev IV, de Vries RP, Hildén KS
Draft Genome Sequence of the Basidiomycete White-Rot Fungus Phlebia centrifuga.
Genome Announc. 2018 Apr 5;6(14):. doi: 10.1128/genomeA.01414-17
Mäkelä MR, Peng M, Granchi Z, Chin-A-Woeng T, Hegi R, van Pelt SI, Ahrendt S, Riley R, Hainaut M, Henrissat B, Grigoriev IV, de Vries RP, Hildén KS
Draft Genome Sequence of the Basidiomycete White-Rot Fungus Phlebia centrifuga.
Genome Announc. 2018 Apr 5;6(14):. doi: 10.1128/genomeA.01414-17
Funding
This project was not sequenced at the JGI.
