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By comparing gene content and gene expression profiles in various environmental conditions including animal models, natural LAB strains might be evaluated for specific beneficial or metabolic functions and high throughput screening might be feasible.
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We have identified and sequenced 1.6 Mb region on chromosome arm 3DS corresponding to part of the contig ctg0954b and compared gene content, gene by gene.
In this study, we used whole genome oligonucleotide tiling arrays to compare gene content in biologically disparate T. cruzi strains by comparative genomic hybridization (CGH).
Lists of genes can be generated through user-defined queries that compare gene content between genomes.
I particularly appreciate the idea of detecting HGT by comparing gene trees to a gene-content tree, i.e. two independent sources of information.
Gene acquisition and loss among the two strains was determined by comparing gene order, orientation of genes (forward/reverse), GC content of genes (percent above or below whole genome average), features of intergenic regions (e.g., remnants of IS elements, integration sites), and the similarity of proteins encoded by genes at a locus of interest (> 90% identity at the predicted protein level).
We compared gene contents and the genomic locations between two rice genomes.
By comparing the gene content with those of other family members of Rickettsiacea, we identified the core gene set of the family Rickettsiaceae and found that, while much more extensive gene loss has taken place among the housekeeping genes of Orientia than those of Rickettsia, O. tsutsugamushi has acquired a large number of foreign genes.
By comparing the gene content and arrangement in the wallaby inflammatory region to the opossum and eutherians, we can reveal the evolutionary history of the region.
The conservation of the X chromosome across several families of Hemiptera was examined by comparing the gene content of the X chromosome of the different species.
The grouping capabilities of ITEP are useful for evaluating the quality of draft genomes by comparing their gene content with closely related closed genomes.
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CEO of Professional Science Editing for Scientists @ prosciediting.com