Table 4

Mutation spectrum at centromeres is unlike that of gene conversion

Study

Ts: Tv

Ts:Tv freq

1 bp deletions

Del:BPS freq

1 bp insertions

Other


CDEII

46: 68

0.68

4

0.047

0

18a

Genome-wide (WT)

12: 19

0.63

1

0.032

0

1

URA3 Lang (WT)

46: 121 *

0.38

22

0.017

3

15

CAN1 Lang (WT)

65: 85

0.76

56

0.034

8

13

URA3 Hicks (WT)

19: 27

0.70

5

0.014

1

9

URA3 Hicks (GC)

32: 24 *

1.33

32

0.074

1

14


The mutation spectrum of CDEII is compared to the wild type spontaneous mutation (WT) inferred from various studies (Genome-wide, [15]; Lang, [23]; Hicks, [13]), and the mutation spectrum expected under gene conversion (GC, [13]). "Other" indicates indels that are -> 1 bp long, and in the case of CDEII also includes indels occurring in homopolymer runs that were 5 bp or longer (N = 14), other mutations described as "Other" for the WT and GC datasets are described in [13]. The deletion: base pair subsitution frequency (Del:BPS) corrects for the difference in target length at which deletions could be observed compared to the target length for base pair substitutions ([23], e.g. for URA3, indel target size = 804 bp, and BPS target size = 104 bp). For CDEII the number of deletions (N = 4) was compared to the number of base pair substitutions (N = 84) outside homopolymer runs. * Significantly different from CDEII (Fisher's exact test, P < 0.05). Poisson tests showed that none of the Del:BPS frequencies were significantly different from that of CDEII.

Bensasson BMC Evolutionary Biology 2011 11:211   doi:10.1186/1471-2148-11-211

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