Table 1.

Taxa, Genbank accession number, and voucher specimens/references used in this study. Newly sequecned data are shown bold.

Name	Pop. Code	rbcL	trnL-F	ycf1-rps15	ETS	ITS	Voucher / References
S. akiensis A.Takano, T.Sera et Kurosaki	HIR (Hirohsima Pref.)	LC124176	LC124188	LC060529	LC060825	LC060729	A.Takano and N.Kurosaki with T.Sera 130606-1(Hyogo)
	S1(Shimane Pref.)	LC124177	LC124189	LC060530	LC060826	LC060728	M.Sakoda et al. 1 (Hyogo,KYO)
S. arisanensis Hayata		AB295063	AB295074	LC060531	LC060827	AB295085	Sudarmono and Okada (2007)
S. glabrescens (Franch. et Sav.) Makino
var. glabrescens	FS (Wakasa, Fukui)	AB541134	AB541148	LC060532	LC060828	AB541120	Takano and Okada (2011)
var. repens (Koidz.) Kurosaki	KY (Kyoto)	AB295064	AB295075	LC060533	LC060829	AB295086	Sudarmono and Okada (2007)
S. isensis Nakai ex Hara	MIE	AB266221	AB266231	LC060534	LC060830	AB266241	Sudarmono and Okada (2007)
	AICHI	LC124178	LC124190	LC060535	LC060831	LC060730	A-200933 (living material at Hiroshima Bot.Gard. Originally from Owariasahi city, Aichi Pref.)
S. japonica Thunb.
f. albiflora Hiyama		AB266220	AB266230	LC060536	LC060832	AB260240	Sudarmono and Okada (2007)
f. japonica	Osaka	AB266219	AB266229	LC060537	LC060833	AB266239	Sudarmono and Okada (2007)
f. japonica	Gotenba	LC124179	LC124191	LC060538	LC060834	LC060731	A.Takano 140806-5 (Hyogo)
f. longipes (Nakai) Sugimoto		AB266218	AB266228	LC060539	LC060835	AB266238	Sudarmono and Okada (2007)
S. koyamae Makino		AB541128	AB541142	LC060540	LC060836	AB541114	Takano and Okada (2011)
S. lutescens Koidz.
var. crenata (Makino) Murata	AICHI	AB266223	AB266233	LC060541	LC060837	AB266243	Sudarmono and Okada (2007)
	Yushin	AB353202	AB353198	LC060542	LC060838	AB353206	Takano and Okada (2011)
	Akita	LC124180	LC124193	LC124205	LC124201	LC124203	Y. Horhii, S. Nishida et al. 2015026 (Hyogo)
	Fukui	LC124181	LC124194	LC124204	LC124200	LC124202	A.Takano 150702-1a (Hyogo)
var. intermedia (Makino) Murata	Nara	LC124182	LC124195	LC060544	LC060840	AB295097	Sudarmono and Okada (2007)
	Shiga	LC124183	LC124196	LC060546	LC060842	LC060735	A.Takano 140821-1 (Hyogo)
	Mt.Mikuni	LC124184	LC124197	LC060547	LC060843	LC060733	A.Takano 140806-4 (Hyogo)
	Tanzawa	LC124185	LC124198	LC060548	LC060844	LC060734	A.Takano 140622-2 (Hyogo)
var. lutescens Koidz.	MIE	AB266222	AB266232	LC060549	LC060845	AB266242	Sudarmono and Okada (2007)
	Aoyama	LC124186	LC128192	LC060550	LC060846	LC060737	a201241 (living material at Hiroshima Bot.Gard. Originally from Aoyama Kogen, Mie Pref.)
var. stolonifera G.Nakai		AB541139	AB541153	LC060551	LC060847	AB541125	Takano and Okada (2011)
S. nipponica Miq.
var. nipponica	TOKU (Tokushima)	AB541132	AB541146	LC060552	LC060848	AB541118	Takano and Okada (2011)
	KUMA (Kumamoto)	AB541127	AB541141	LC060553	LC060849	AB541113	Takano and Okada (2011)
var. kisoensis K.Imai	NAK	AB541136	AB541150	LC060554	LC060850	AB541122	Takano and Okada (2011)
S. omerocalyx Hayata
var. omerocalyx	HI (Hidaka, Hyogo)	AB353204	AB353196	LC060555	LC060851	AB353200	Takano and Okada (2011)
	Hyogo (Yabu, Hyogo)	AB353205	AB353197	LC060556	LC060852	AB353201	Takano and Okada (2011)
var. prostrata Satake		AB541138	AB541152	LC060557	LC060853	AB541124	Takano and Okada (2011)
S. pygmaea Matsum.
var. pygmaea		AB295072	AB295083	LC060558	LC060854	AB295094	Sudarmono and Okada (2007)
var. simplicior Hatus. ex T.Yamaz.		AB541140	AB541154	LC060559	LC060855	AB541126	Takano and Okada (2011)
S. ranzaniana Makino		AB287373	AB287374	LC060560	LC060856	AB287375	Sudarmono and Okada (2007)
S. × sakuensis Naruh. et Hihara		AB541129	AB541143	LC060561	LC060857	AB541116	Takano and Okada (2011)
Outgroup
S. plebeia R.Br.	KIZU	AB295073	AB295084	LC060563	LC060858	AB295095	Sudarmono and Okada (2007)
	KAMI	LC124187	LC124199	LC060562	LC060859	LC060738	A.Takano and N.Kurosaki 090607-2 (Hyogo)
S. Polystachya M.Martens et Galeotti		AY570435	JF301399	JF289067	JF301334	JF301356	Drew and Systma (2011)