Rapid Increase in frequency of gene copy-number variants during experimental evolution in Caenorhabditis elegans

Table 2 Summary of deletions in experimental C. elegans lines following 200 consecutive generations of population expansion

Pop ID	Chr.	Coordinates		Delation span (bp)	Protein-coding genes	tRNA/rRNA	piRNA	ncRNA	Pseudo-genes	Transposons	Average copy-number per haploid genome
Pop ID	Chr.	Start	Stop	Delation span (bp)	Protein-coding genes	tRNA/rRNA	piRNA	ncRNA	Pseudo-genes	Transposons	Average copy-number per haploid genome
16A*	X	817,573	830,086	12,514	1	0	0	0	0	0	0.05
16D*	V	7,663,133	7,687,447	24,315	7	0	0	0	0	0	0.05
19A*	X	800,773	827,100	26,328	5	0	1	0	0	0	0.47
19C	V	7,642,395	7,682,740	40,346	10	0	0	1	0	0	0.23
19E	X	821,499	829,454	7,956	1	0	0	0	0	0	0.19
50B	V	7,650,284	7,693,435	43,152	12	0	0	0	1	0	0.76
50C	V	7,647,125	7,696,096	48,972	14	0	0	0	1	0	0.71
50C	X	1,029	273,082	272,054	35	0	0	14	18	5	0.85
50D*	V	7,653,667	7,680,465	26,799	6	0	0	0	0	0	0.18
50D	X	1,029	295,671	294,643	38	0	0	15	20	6	0.81
50E*	V	7,652,044	7,682,914	30,871	8	0	0	0	0	0	0.47
66B	V	15,258,727	15,326,180	67,454	26	0	1	2	5	1	0.62
66B*	X	9,983,441	9,999,107	15,667	2	0	0	1	0	0	0.04
66D	V	18,665,661	18,670,354	4,694	1	0	0	0	0	0	0.54
66D	V	18,701,820	18,725,404	23,585	3	0	0	3	5	0	0.39
66D	X	961,361	963,014	1,654	1	0	0	0	0	0	0.09
66D	X	7,528,608	7,529,729	1,122	1	0	0	0	0	0	0.07
66E	X	7,528,608	7,529,729	1,122	1	0	0	0	0	0	0.06
C1	I	15,060,622	15,071,438	10,817	0	4	0	4	1	0	0.75
C2	I	15,060,388	15,071,427	11,040	0	4	0	4	1	0	0.66
C3	II	14,034,460	14,039,471	5,012	1	0	0	0	0	0	0.45
C3*	X	7,527,813	7,529,236	1,424	1	0	0	0	0	0	0.05
C4	I	15,060,388	15,071,427	11,040	0	4	0	4	1	0	0.60
C5	I	15,061,973	15,071,438	9,466	0	4	0	3	0	0	0.79
C5	X	823,167	827,286	4,120	1	0	0	0	0	0	0.38

Pop. ID refers to the experimental population number. Columns 2, 3 and 4 display the chromosomal location of the CNV and the chromosomal coordinates based on WormBase version WS243. Column 5 provides estimates of the span (bp) of the deletion. Columns 6–11 represent the number of protein-coding genes, tRNAs/rRNAs, piRNAs, ncRNAs, pseudogenes and transposases, respectively, that are encompassed by the deletion event. Column 12 represents the copy-number of the deleted region in the population following 180–212 generations of population expansion based on oaCGH results. Chromosomal coordinates of deletion are predicted based on oaCGH probes in all cases except for events marked by a * wherein exact deletion breakpoints were determined via direct sequencing

ISSN: 1471-2164