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These genes were generated probably by gene conversion between Pcy-SERA3 and Pcy-SERA5, and Pco-SERA1 and Pco-SERA2, respectively.
Interestingly, in the budding yeast, Saccharomyces cerevisiae the central strand exchange protein, Rad51 that is required for DSB repair by gene conversion between unlinked repeats that conserves genomic structure also suppresses translocation formation by several HR mechanisms.
The high genetic diversity of macaque CYP1A2 therefore cannot be explained by gene conversion between CYP1A1 and CYP1A2.
However, we show here that the true history of gene duplication events has been masked by gene conversion between paralogous genes.
In a similar instance, the hexose transporter array in T. brucei reflects the spatial and functional partition of two different isoforms, each with several identical duplicates, which may again have been affected by gene conversion between the isoforms [ 30].
Genetic distances at intron 2 that appeared unaffected by gene conversion between CYP2D orthologous genes in primates were higher than expected, although all informative sites support the ordinary gene-cluster tree.
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The chimeric structure of EMR2 has been continuously maintained since early mammalian radiation by gene conversion events between different regions of the EMR2 gene and the oppositely orientated and physically adjacent genes CD97 and EMR3 [ 15].
The polytomy between the simulans clade RlX repeats, the D. melanogaster RlX repeats and the heterochromatic Rsp and Rsp-like repeats of D. melanogaster and the simulans clade may be influenced by gene conversion events between RlX repeats and canonical Rsp repeats in D. melanogaster [ 23].
However, we cannot rule out the possibility that the phylogenetic pattern is caused by extensive gene conversion between ta-TRIM elements in each genome.
If the phylogenetic representation of the exon tree reflects the true relationships among the gene groups, the topology of the intron tree can be explained by the gene conversion between the duplicated L and M opsin genes at the individual level and by natural selection against the gene conversion involving exons at the population level.
However, any similarity between genes in and out of the array was interpreted as common inheritance from a duplication event, and any incompatibilities were introduced subsequently by allelic gene conversion between newly duplicated copies rather than through ectopic exchange with the array.
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