pan-genome analysespolysaccharideterpenoidInonotus obliquusis a rare, edible and medicinal fungus that is widely used as a remedy for various diseases. Its main bioactive substances are polysaccharides and terpenoids. In this study, we characterized and investigated the pan-genome of three strains ofI....
Furthermore, to evaluate assembly quality, we conducted several analyses. First, we assessed the gene completeness with BUSCO (v.4.0.6)32 using the embryophyta_odb10 database and repeat completeness based on the LAI33 using LTR_retriever (v.2.9.0)84. Then, we measured k-mer completeness, ...
. Therefore, this gene represents a promising target for regulation of plant architecture as well as increasing yield or biomass in tomato breeding. These analyses also present an example of how the super-pangenome could facilitate tomato biological studies and breeding. Graph-based genome enables SV...
The analyses of pan-genomes has also defined a set of universally conserved core genes, based on which a phylogenetic tree was constructed to confirm that thermophilic species from deep-sea hydrothermal vents represent the most ancient lineages of Epsilonproteobacteria. Moreover, by comparing the ...
Pan-genome Analyses of the Species Salmonella enterica, and Identification of Genomic Markers Predictive for Species, Subspecies, and Serovar 来自 Semantic Scholar 喜欢 0 阅读量: 47 作者:CR Laing,MD Whiteside,VPJ Gannon 摘要: Food safety is a global concern, with upward of 2.2 million deaths ...
Comparative Genome Analyses of Serratia marcescens FS14 Reveals Its High Antagonistic Potential With the completion of the genome sequence of FS14, the first comprehensive comparative-genomic analysis of the Serratia genus was performed. Pan-genome ... Pengpeng,Li,Amy,... - 《Plos One》 被引量...
We also explore FR-based classification of strains within the yeast population and use feature selection to find discriminative FRs that can be used for visualization and other traditional analyses, such as the construction of phylogenies. Overall, mining FRs is shown to be an effective approach to...
The results from these analyses can be directly visualized in PGAP-X. The modules for data visualization in PGAP-X include: comparison of genome structure, gene distribution by conservation, pan-genome profile curve and variation on genic and genomic region. Meanwhile, result data produced by ...
Pangenome analyses facilitate the interpretation of genetic diversity and evolutionary history of a taxon. However, there is an urgent and unmet need to develop new tools for advanced pangenome construction and visualization, especially for metagenomic data. Here we present an integrated pipeline, named...
Finegoldia magna, a Gram-positive anaerobic coccus, is an opportunistic pathogen, associated with medical device-related infections.F.magnais the only described species of the genusFinegoldia. We report the analysis of 17 genomes ofFinegoldiaisolates. Phylogenomic analyses showed that theFinegoldia...