Also available in the MIPS Pedant genome database. * Indicates more than one strain from this species has been sequenced. This includes strains sequenced at the same institution. Large-scale fungal genome annotation and analysis started after the sequencing of the yeast S. cerevisiae was completed...
fungal genome annotation a：ApproachestoFungalGenomeAnotationb：Abeginner’sguidetoeukaryoticgenomeannotation 构建一个真核生物间一些非常保守基因的一个库，然后用CEGMA来估算这些保守基因被完全包含于一个scaffold内的比率。根据一些model物种绘制的genomesize和genesize之间线性关系来估计所研究物种组装的N50达 ...
2), respectively, by a systematic search of fungal genome data deposited in the NCBI database. Multi-gene combined analyses of lsu, ssu, rpb1, rpb2, its, and ef1 from identified 163 species were incorporated to construct a phylogenetic tree38 (Supplementary Data 2). The results displayed ...
Full size image To address the function ofPFICI_04360, we deleted the gene inP. fici(Supplementary Fig.1). High-performance liquid chromatography (HPLC) analysis of the ethyl acetate (EtOAc) extracts of cultures revealed no obvious differences between wild type and the deletion strain (Fig.1c)...
The integrity of this genome was 97.59% as evaluated by BUSCO v2.0. A total of 15,034 protein-coding genes, 2.89Mb (4.84%) annotated repetitive elements, and 305 non-coding RNAs were identified. The Carbohydrate-Active enZYmes (CAZy) database was used to annotate 1,206 genes. Moreover, ...
The first generation of a complete list of chitinolytic enzymes based on genomic sequence data was carried out on Hypocrea jeronica (T. reesei). Genome analysis reveals the presence of at least 18 open reading frames (ORFs) encoding putative chitinases (Li 2006; Seidl 2008). A phylogenetic ...
Terminal restriction fragment sizes also can be compared to a database of theoretical restriction fragments derived from sequence information to approximate taxonomic identity [11, 12]. While LH-PCR or T-RFLP gives an estimate of relative abundance of phylotypes in a community, quantitative PCR (...
Full size table Lineage specific expansions and contractions When patterns of gene duplication and loss were analyzed for the total number of NRPSs/genome (combining all subfamilies) over the tree of fungi (Fig.3; Additional file9), a highly significant expansion was found on the branch leading...
genome [https://www.ncbi.nlm.nih.gov/genome/], SRA [https://www.ncbi.nlm.nih.gov/sra/], the JGI genome database [https://genome.jgi.doe.gov/portal/], the CAZy database [cazy.org] and the mycoCLAP database [https://mycoclap.fungalgenomics.ca/mycoCLAP/]; for more details see ...
Genome analysis was performed on the haploid U. maydis strain 521 with the use of whole-genome shotgun (10× coverage) and map-based approaches (2.92× coverage; see Supplementary Methods). The assembly comprises 19.8 million bases (Mb) of the estimated genome size of 20.5 Mb (ref. 6...