As expected, the proportion of mapped one hundred bp reads usually decreased using the predicted genetic distance of the cultivar from the reference A genome, with Karat obtaining the lowest worth and Yangambi km5 having the highest proportion at 90. 7%. Despite the fact that reads through the AAA cultivars need to theoretically map only to your A genome, we can see that 23 27% on the reads in the two triploid AAA cultivars preferentially map to regions from the B genome, regardless of the apparent absence of the B genome in these cultivars. This might re flect the various sub group origins of those M. acuminata genomes. i. e. Yangambi km5, and Gros Michel belong to your Ibota and Gros Michel M. acuminata subgroups respectively, whereas the reference Pahang belongs to the Malaccencis subgroup. Also, variations among orthologous genes in these M.
acuminata subgroup genomes this article could indicate that only small sequence diver gence from Pahang could lead to greater homology to the orthologous sequences existing during the B genome, par ticularly for hugely conserved core genes. Alternatively the presence of foreign chromosomal fragments due to historical recombinations between the A and B ge nomes as demonstrated by Jeridi et al, could result in the mapping of reads/transcripts to homologous regions on the homeologous B chromosomes. By comparison, while in the AAB plantains, we see that 36. four forty. 7% on the reads in the three plantains preferentially map towards the B genome. This is often in accordance using the presence of a single B genome in these triploids, and confirms the utility of our PKW consensus B genome sequence for this kind of examine.
Last but not least, reads in the diploid Fei banana cultivar, in addition to a species which can be probably most closely relevant on the wild species M. maclayi, M. peekelii and M. lolodensis, mapped practically equally to the two genomes. Interestingly, the normalized go through SU11274 coverage throughout the all chromosomes of the two genomes was also uncovered to dif fer amongst the cultivars. Of distinct note would be the differences amongst the two AAA hybrids, exactly where forty. 2% of all Yangambi km5 mapped reads localized towards the A and B chrUn random sequences, in contrast to only 16. 7% in the Gros Michel reads. This suggests that there can be significant variations among the AAA genome se quences of Yangambi km five and Pahang.
On the other hand we also see that B chrUn random is also the sequence with all the highest count of TE sequences, so that these differences could simply represent variations from the abundance of these elements. Certainly evaluating the genes using the highest expression amounts in this chromosome in these two cultivars, shows that 250,822 reads particularly map to a single 472 bp intronic region of sequence in Yangambi km five, though only 60,891 map to this similar sequence in Gros Michel. No this kind of phenomenon was observed elsewhere having said that, the place we see that a considerably larger proportion of Gros Michel reads map to A chr3, and exactly where for all cultivars a proportionally larger quantity of reads mapped to A chr6, and that is also the chromosome together with the highest gene count.