Table 1.

Distribution of Ping variants and Ping16A_Stow genotypes in domesticated rice and O. rufipogon

Subgroups	Number of accessions	Number of accessions with Pinga	Ping variants: Ping16G	Ping variants: Ping16A	Ping16A_Stow: Stowaway only	Ping16A_Stow: Stowaway with Ping
O. sativa	3000	199 (6.6%)	31	154	188	11
-indica	1651	20 (1.2%)	8	9b	10	0
-aus/boro	189	28 (14.8%)	19	0	0	0
-temperate japonica	250	61 (24.4%)	1	61	121	8
-tropical japonica	335	51 (15.2%)	0	51	2	0
-aromatic	65	0 (0%)	0	0	0	0
-admixed	510	39 (7.6%)	3	33c	55	3
O. rufipogon	48	21 (43.7%)	21	0	4	0
-Or-I	13	7 (53.8%)	7	0	0	0
-Or-II	23	10 (43.4%)	10	0	1	0
-Or-IIIa	6	2 (33.3%)	2	0	3	0
-Or-IIIb	6	2 (33.3%)	2	0	0	0

Ping16A_Stow is defined as a locus where Ping has inserted into the Stowaway element on chromosome 1 (2640500–2640502)

^a“Number of accessions with Ping16G” plus “Number of accessions with Ping16A” is less than or equal to “Number of accessions with Ping” because Ping genotypes in some accessions cannot be determined from available sequences. An exception is “temperate japonica”, where one accession (IRIS_313-10564) has both Ping16G (Chr8: 2964281–2964283) and Ping16A (Chr6: 23521641–23526981)

^bEight indica accessions have Ping16A that are located in regions showing evidence of introgression from japonica (seven accessions share the locus Chr3: 21965880–21965882 and one accession has the Nipponbare Ping locus Chr6: 23521641–23526981). One indica accession has Ping16A in a region with indica background. Analyses were performed with RFMix v2.03

^cThirty-one admixed accessions have Ping16A from japonica. Two admixed accessions have Ping16A that are located in regions with ambiguous origin. Analyses were performed with RFMix v2.03