What's in a name; Genetic structure in Solanum section Petota studied using population-genetic tools

Jacobs, Mirjam MJ; Smulders, Marinus JM; van den Berg, Ronald G; Vosman, Ben

doi:10.1186/1471-2148-11-42

BMC Ecology and Evolution

Table 2 Genetic differentiation within the 16 clusters

From: What's in a name; Genetic structure in Solanum section Petota studied using population-genetic tools

Cluster	species included in cluster	sampling units	n	Ht	Hw	Hb	Fst	species included in the clusters/new arrangements
1	rap (15)	among accessions	15	0.2679	0.2776	-0.0098	-0.0365
2	ver (19), mcp (2) spec 262, spec 287	among accessions	23	0.2515	0.2448	0.0068	0.0272
		among species	4	0.2765	0.2063	0.0702	0.2377
		among new groups	3	0.2445	0.1551	0.0894	0.3598
		among new groups	2	*0.2859*	*0.1471*	*0.1388*	*0.4675*	*(ver, mcp) (spec 262, spec287)*
3	ktz(7), mag (2), oka (8), rch (1), spg (1), vnt (4)	among accessions	22	0.2875	0.2704	0.0171	0.0592
		among species	6	0.2438	0.2113	0.0325	0.1285
		among new groups	3	*0.2*	*0.1527*	*0.0473*	*0.2319*	*(ktz, mag, rch) (oka, vnt) spg*
		among new groups	2	0.1686	0.1305	0.0381	0.2231
4	gig(18), mag (2), mcd (6) spg (1)	among accessions	27	0.2556	0.2457	0.0098	0.0384
		among species	4	0.1973	0.1777	0.0195	0.0984
		among new groups	3	*0.213*	*0.1898*	*0.0231*	*0.1059*	*(gig, mcd) mag spg*
		among new groups	2	0.3341	0.3064	0.0277	0.0639
5	med (6), snd (3), wbr (2) vio (1)	among accessions	13	0.303	0.2864	0.0166	0.0548
		among species	4	0.2594	0.2069	0.0525	0.2023
		among new groups	3	0.2626	0.1949	0.0678	0.2559
		among new groups	2	*0.2926*	*0.2055*	*0.0871*	*0.2893*	*(snd, wbr, med) vio*
6	cmm (12), mlm (7)	among accessions	19	0.3357	0.3535	-0.0177	-0.0528
		among species	2	*0.1763*	*0.1395*	*0.0368*	*0.2084*	*cmm mlm*
7	abz (4), acp (1), acs (1), agu (1), chn (3), chv (1), dcm (4), hcr (1), imt (3), mcq(4), ncd (2), scb (1) vio (1) spec 205, spec 310, spec 6	among accessions	30	0.3016	0.2449	0.0567	0.1878
		among species	16	0.2754	0.1988	0.0766	0.2777
		among new groups	7	0.2448	0.143	0.1019	0.4175
		among new groups	6	0.245	0.1405	0.1045	0.4276
		among new groups	5	*0.2513*	*0.1419*	*0.1094*	*0.4357*	*(acs, agu, hcr, acp, scb, chn, mcq, imt, spec 205, spec 310, spec 6) (dcm, chv) ncd, abz, vio*
		among new groups	4	0.25	0.1418	0.1082	0.4333
8	hcb(4), sgr (3), vio (1)	among accessions	9	0.2813	0.2319	0.0494	0.1758
		among species	3	*0.2774*	*0.1919*	*0.0856*	*0.3043*	*hcb, sgr, vio*
		among new groups	2	0.3053	0.2128	0.0925	0.2948
9	bal(3), han (7), vrn (16), spg (1)	among accessions	27	0.2659	0.2434	0.0226	0.0847
		among species	4	0.2092	0.1687	0.0405	0.1904
		among new groups	3	0.2133	0.1665	0.0468	0.2114
		among new groups	2	*0.1662*	*0.1251*	*0.0411*	*0.2459*	*(bal, vrn, spg) han*
10	abn (1), ach(1), amb (3), aml(1), amy (2), aym (1), buk (6), can (7), chi (1), cnd (3), cop (5), hro (1), lmb (1), mlt (11), mrn (5), orp (5), pam (4), sou (1), scr (1), sub (1) vlr (2) vrg (1) spec 998, spec 184, spec 292, spec 533, spec 726, spec 796, spec 394, spec 933	among accessions	72	0.3095	0.2881	0.0213	0.069
		among species	31	0.2828	0.2529	0.03	0.1058
		among new groups	16	0.2598	0.2171	0.0427	0.1645
		among new groups	7	0.2574	0.2045	0.0529	0.2066
		among new groups	5	0.2796	0.2195	0.0601	0.2143
		among new groups	4	*0.2996*	*0.2336*	*0.066*	*0.2194*	*(abn, ach, amb, aml, amy, aym, buk, can, chi, cnd, cop, hro, lmb, mlt, mrn, orp, pam, sou, scr, sub, vlr, vrg, spec 998, spec 184, mtp, spec 292, spec 533, spec 726, spec 796) ach, spec933, spec394*
		among new groups	3	0.2748	0.2142	0.0606	0.2189
11	lgl (2), mga (4), sct (6), tor (7)	among accessions	19	0.3231	0.31	0.0131	0.0401
		among species	4	0.2285	0.1885	0.04	0.1743
		among new groups	3	*0.2421*	*0.1968*	*0.0453*	*0.1858*	*(mga, tor) lgl, sct*
		among new groups	2	0.2269	0.1877	0.0391	0.1704
12	arz (5), chc (12), rzl (1), stl(1), yun (3), tar (4), vrn (1) spec 210, spec211, spec329, grl(1)	among accessions	31	0.2927	0.2716	0.0211	0.072
		among species	11	0.2784	0.2506	0.0278	0.0991
		among new groups	6	0.2236	0.1867	0.0369	0.1646
		among new groups	4	0.22	0.178	0.042	0.1886
		among new groups	3	*0.2317*	*0.1853*	*0.0465*	*0.1949*	*(chc, rzl, stl, grl, spec210, spec211, spec329, yun, arz) vrn, arz*
		among new groups	2	0.1772	0.1445	0.0326	0.1831
13	dds (1), grl (15), hps (3), ifd (2), inm (8), ptr (3), vid (3), nrs (2), spg (3), haw (7)	among accessions	47	0.3045	0.2885	0.016	0.0526
		among species	10	0.2252	0.18	0.0452	0.2006
		among new groups	5	*0.2135*	*0.1582*	*0.0553*	*0.259*	*(grl, dds, hps, ifd, inm, ptr) vid, haw, spg, nrs*
		among new groups	4	0.2066	0.1545	0.0521	0.2522
14	chc(3), dds((3), tar(27), aln(4), ber(23), gnd(5), stl(1), spec 255, spec 601	among accessions	69	0.2671	0.2518	0.0153	0.0573
		among species	9	0.2092	0.1823	0.027	0.1276
		among new groups	6	0.1726	0.148	0.0246	0.1417
		among new groups	5	0.1766	0.1502	0.0264	0.1479
		among new groups	4	*0.157*	*0.1327*	*0.0244*	*0.1549*	*(stl, spec 255, spec 601, yun, chc, dds, tar) aln ber gnd*
		among new groups	3	0.1616	0.1383	0.0233	0.1439
15	oka (7)	among accessions	7	*0.261*	*0.2602*	*0.0007*	*0.0029*
16	grl (18), hps(2), aln(3), arp(2), dds(1), hmp(1) ptr(5), scr(8), lph(6), ugt(4), vrg(4), opl(17), ifd(5), vid(5), gnd(1), vrn(1), nrs(2), spg(1), spl(13), brc(10), ast(5), blv(3), hdm(6), avl(3) spec352, spec43, spec123, spec165, spec891, spec381, spec649	among accessions	134	0.3169	0.302	0.015	0.0473
		among species	31	0.2456	0.215	0.0306	0.1245
		among new groups	14	0.217	0.1823	0.0347	0.1597
		among new groups	7	0.214	0.1742	0.0399	0.1855
		among new groups	6	0.2166	0.1749	0.0418	0.1913
		among new groups	5	*0.224*	*0.1799*	*0.0442*	*0.1952*	*(grl, hps, aln, arp, dds, hmp ptr, scr, lph, ugt, vrg, opl, ifd, vid, gnd, vrn, nrs, spg, spl, brc, spec416, spec352, spec43, spec123, spec165, spec891, spec381), (ast, blv), hdm, avl, spec649*
		among new groups	4	0.2372	0.1932	0.0439	0.1831

n = number of sampled accessions; Ht = total diversity; Hw = within population diversity; Hb = between population diversity; Fst = Wright's fixation index, differentiation among populations. The explanation of the species code can be found in table 3.

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