ArticleAlgorithms for molecular biology : AMB2017
Partially local three-way alignments and the sequence signatures of mitochondrial genome rearrangements.
Article in Algorithms for molecular biology : AMB, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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3 citing papers in PubMed.
- Aberrant Mitochondrial tRNA Genes Appear Frequently in Animal Evolution.Genome biology and evolution · 2024Article
- Detecting gene breakpoints in noisy genome sequences using position-annotated colored de-Bruijn graphs.BMC bioinformatics · 2023Article
- Gene annotation errors are common in the mammalian mitochondrial genomes database.BMC genomics · 2019Article
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5 authors.
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Abstract
backgroundGenomic DNA frequently undergoes rearrangement of the gene order that can be localized by comparing the two DNA sequences. In mitochondrial genomes different mechanisms are likely at work, at least some of which involve the duplication of sequence around the location of the apparent breakpoints. We hypothesize that these different mechanisms of genome rearrangement leave distinctive sequence footprints. In order to study such effects it is important to locate the breakpoint positions with precision.
resultsWe define a partially local sequence alignment problem that assumes that following a rearrangement of a sequence
conclusionsThe partially local sequence alignment method is an effective way to investigate the mechanism of genomic rearrangement events. While applied here only to mitogenomes there is no reason why the method could not be used to also consider rearrangements in nuclear genomes.
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