在减数分裂过程中,非等位基因同源序列可能会错位并形成交叉,最终导致基因组结构重排。容易使非等位基因重组的基因组特征与SV的发生有关。 作物不同品种基因组结构变异分析实例: (一)香米不同品种基因组结构变异分析 图12 香米Basmati 334和Dom Sufid共有和特有PAVs变异数量分析( Choi et al., Genome Biology, 202...
22). Among them, a BC4 locus containing multiple MYB genes on Chr2 associated with berry color42 based on the pangenome SV dataset (Supplementary Table 10). The FF6 locus explained 7.35% of the variation for flesh firmness, which differed between groups because the Table2 group had an ...
缺失遗传力的解决受到几个因素的阻碍,包括因果基因组变异,特别是结构变异(SV)的不完全检测,这导致遗传标记和因果变异之间的不完全连锁不平衡(LD)引起的估计偏差,以及因果变异的遗传异质性,这降低了GWAS8,9,10的统计能力。为了克服这些瓶颈,需要一个详尽而精确的遗传变异目录。 通过将测序读数映射到单个线性参考基因...
a, Pie chart shows the proportion of the different SV types in wheat pan-genome. b, Percentage of PAVs overlapping with different genomic features. c, Distribution of PAVs based on their allele frequency in wheat accessions indicated most PAVs were present in one or only a few accessions. ...
22). Among them, a BC4 locus containing multiple MYB genes on Chr2 associated with berry color42 based on the pangenome SV dataset (Supplementary Table 10). The FF6 locus explained 7.35% of the variation for flesh firmness, which differed between groups because the Table2 group had an ...
a, Comparison of various SV types in each genome relative to the G42 reference genome.b, SyRI-derived comparative genomic visualization map illustrating the synteny and rearrangements among 27 gap-free genomes in relation to the G42 reference accession.c, Density of SVs within repetitive and non...
(Panchy et al., 2016;Dunning et al., 2019;Zhang et al., 2019). Pan-genomes can provide a full view of the mechanisms of SV formation, which can help explain genome evolution and the complex architecture of phenotypic traits of agricultural relevance. In rice, tomato, and soybean, SVs ...
SVs can influence the expression of nearby genes by altering their sequence or copy number, or by changing the composition or position ofcis-regulatory sequences67,68. We investigated this relationship for the comprehensive SV catalog across our apple pan-genome. The results suggested that 57.46% ...
(Supplementary Table16). Some are well-known complex SV loci, and all are known to be structurally variable based on previous short-read SV mapping studies10,19,32. However, whereas previous short-read SV calls at these loci are typically imprecise owing to alignment issues and low-resolution...
(Fig.3h, i). The graph structure enabled proper mapping of short reads derived from SV flanking regions by embedding both reference and alternative allele sequences, thereby facilitating SV genotyping in the 115-line cucumber population21. We next performed genome-wide association studies (GWAS) ...