Table 2.

S. enterica and L. monocytogenes sequences dataset and their Sequence Read Archive numbers used for the stability and repeatability experiments^a.

Strain ID	Isolates from independent colonies of the first subculture					Isolates from independent colonies of the tenth subculture
	A	B	C	D	E	A1	A2	A3	A4	A5
PIR00540	SRR6347524	SRR6347523	SRR6347352	SRR6347349	SRR6347348	SRR6347347	SRR6347542	SRR6347538	SRR6347486	SRR6347426
PIR00541	SRR6347510	SRR6347509	SRR6347512	SRR6347511	SRR6347506	SRR6347505	SRR6347508	SRR6347507	SRR6347514	SRR6347513
PIR00542	SRR6347487	SRR6347488	SRR6347489	SRR6347490	SRR6347491	SRR6347492	SRR6347493	SRR6347494	SRR6347484	SRR6347485
PIR00543	SRR6347473	SRR6347472	SRR6347471	SRR6347470	SRR6347469	SRR6347468	SRR6347467	SRR6347466	SRR6347465	SRR6347464
PIR00544	SRR6347427	SRR6347432	SRR6347424	SRR6347425	SRR6347442	SRR6347443	SRR6347403	SRR6347441	SRR6347428	SRR6347429
PIR00545	SRR6347407	SRR6347406	SRR6347409	SRR6347408	SRR6347411	SRR6347410	SRR6347413	SRR6347412	SRR6347405	SRR6347404
PIR00546	SRR6347388	SRR6347389	SRR6347390	SRR6347391	SRR6347384	SRR6347385	SRR6347386	SRR6347387	SRR6347382	SRR6347383
PIR00547	SRR6347353	SRR6347402	SRR6347351	SRR6347350	SRR6347357	SRR6347356	SRR6347355	SRR6347354	SRR6347360	SRR6347359
PIR00532	SRR6347380	SRR6347381	SRR6347378	SRR6347379	SRR6347376	SRR6347377	SRR6347374	SRR6347375	SRR6347372	SRR6347373
PIR00533	SRR6347545	SRR6347544	SRR6347547	SRR6347546	SRR6347541	SRR6347540	SRR6347543	SRR6347527	SRR6347539	SRR6347525
PIR00534	SRR6347478	SRR6347479	SRR6347480	SRR6347481	SRR6347474	SRR6347475	SRR6347476	SRR6347477	SRR6347482	SRR6347483
PIR00535	SRR6347498	SRR6347497	SRR6347496	SRR6347495	SRR6347502	SRR6347501	SRR6347500	SRR6347499	SRR6347504	SRR6347503
PIR00536	SRR6347358	SRR6347361	SRR6347521	SRR6347522	SRR6347519	SRR6347520	SRR6347517	SRR6347518	SRR6347515	SRR6347516
PIR00537	SRR6347535	SRR6347534	SRR6347537	SRR6347536	SRR6347531	SRR6347530	SRR6347533	SRR6347532	SRR6347529	SRR6347528
PIR00538	SRR6347364	SRR6347365	SRR6347366	SRR6347367	SRR6347368	SRR6347369	SRR6347370	SRR6347371	SRR6347362	SRR6347363
PIR00558	SRR6347399	SRR6347398	SRR6347397	SRR6347396	SRR6347395	SRR6347394	SRR6347393	SRR6347392	SRR6347401	SRR6347400
Stabilityb	x	x	x	x	x	x	x	x	x	x
Repeatabilityb	x	x	x	x	x

^aFor each strain ten genome sequences were generated: five from independent colonies of the first subculture (A, B, C, D, and E) and five from independent colonies after the tenth subculture (A1, A2, A3, A4, and A5). For each analysis the de novo assembled Illumina reads of isolate (A) were used as reference.

^b×:used in the experimental setup.