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Evolutionary features showed expansion and duplication of the SWEET gene family in land plants.
However, there can be up to eight copies in Burkholderia strains (supplementary table S2, Supplementary Material online), which indicated the possibility of gene expansion and duplication.
As mentioned before, gene expansion and duplication of BY-kinases has been observed, and the perfect show case for these events is the genus Burkoho l deria (from Betaproteobacteria). Twenty-five sequenced Burkholderia strains harbor 78 BY-kinases of the TAD-CD type.
Our analysis aimed at addressing the patterns of regulation of lignocellulosic gene transcription in C1A, the contribution of various CAZyme gene families to biomass degradation in C1A, and the significance of gene expansion and duplication observed in the C1A genome on its lignocellulolytic capabilities.
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We restricted our analyses to just the 12 mammalian genomes in the data set (fig. 1) to avoid possible complications from genome expansions and duplications that have occurred outside of the mammalian clade and to avoid inaccuracies driven by alignments of distantly related species (Prakash and Tompa 2007; Buschiazzo and Gemmell 2010).
For the purposes of phenotypic analysis, we considered the region between the centromere and BP1 as polymorphic and not contributing to the overall phenotype because expansions and duplications of these regions can occur in typically developing controls [Fantes et al., 2002].
Such plasticity can result in genome expansion and gene duplication.
In particular, the onset of frequent recombination was seemingly a key driver of innovation, resulting in massive genome expansion and both duplication and fragmentation of coding sequences.
Recently, it was shown that gene conversion between the ends of linear mitochondrial chromosomes can cause telomere expansion and the duplication of subtelomeric loci.
In figure 2, we outline a model for how gene conversion among the ends of linear organelle chromosomes can lead to telomere expansion and the duplication, fragmentation, and homogenization of subtelomeric loci.
Whether the proximity with this duplicon was determinant for emergence of the PMCHL2 gene remains at this stage a matter of speculation but the timing of both Glu5 10 duplicon expansion and intrachromosomal duplication of PMCHL1 in primates fits very well.
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