Variation in mutation dynamics across the maize genome as a function of regional and flanking base composition
| dc.creator | Morton, B. | |
| dc.creator | Vroh Bi, Irie | |
| dc.creator | McMullen, M. | |
| dc.creator | Gaut, B. | |
| dc.date | 2006-01-01 | |
| dc.date | 2019-03-03T05:55:17Z | |
| dc.date | 2019-03-03T05:55:17Z | |
| dc.date.accessioned | 2026-06-27T16:05:46Z | |
| dc.description | We examine variation in mutation dynamics across a single genome (Zea mays ssp. mays) in relation to regional and flanking base composition using a data set of 10,472 SNPs generated by resequencing 1776 transcribed regions. We report several relationships between flanking base composition and mutation pattern. The A + T content of the two sites immediately flanking the mutation site is correlated with rate, transition bias, and GC → AT pressure. We also observe a significant CpG effect, or increase in transition rate at CpG sites. At the regional level we find that the strength of the CpG effect is correlated with regional A + T content, ranging from a 1.7-fold increase in transition rate in relatively G + C-rich regions to a 2.6-fold increase in A + T-rich regions. We also observe a relationship between locus A + T content and GC → AT pressure. This regional effect is in opposition to the influence of the two immediate neighbors in that GC → AT pressure increases with increasing locus A + T content but decreases with increasing flanking base A + T content and may represent a relationship between genome location and mutation bias. The data indicate multiple context effects on mutations, resulting in significant variation in mutation dynamics across the genome. | |
| dc.identifier | https://hdl.handle.net/10568/100083 | |
| dc.identifier.uri | http://hdl.handle.net/123456789/122384 | |
| dc.language | en | |
| dc.publisher | Oxford University Press | |
| dc.rights | Limited Access | |
| dc.source | Morton, B., Vroh Bi, I., McMullen, M. & Gaut, B. (2006). Variation in mutation dynamics across the maize genome as a function of regional and flanking base composition. Genetics, 172(1), 569- 577. | |
| dc.subject | mutation | |
| dc.subject | genomes | |
| dc.subject | nucleotides | |
| dc.title | Variation in mutation dynamics across the maize genome as a function of regional and flanking base composition | |
| dc.type | Journal Article |