ELECTROPHORESIS Supporting Information for Electrophoresis DOI 10.1002/elps.200600646 Sunil Archak, Vemireddy Lakshminarayanareddy and Javaregowda Nagaraju High-throughput multiplex microsatellite marker assay for detection and quantification of adulteration in Basmati rice (Oryza sativa) ª 2007 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.electrophoresis-journal.com
Supplementary Table 1 Bulked samples of one traditional and one evolved Basmati cultivars from various places across growing area were collected and allele profiles at eight microsatellite loci were generated using multiplex assay. There was absolute homogeneity in the inter-population allele profiles. Populations are labeled after the place of sampling. Suffix B indicates that it is one of the multiple samples from a particular place. 1. Taraori Basmati Population RM72 RM202 RM348 RM44 RM55 RM171 RM241 RM1 Alewa B 173 182 140 113 220 336 128 73 Ambala 173 182 140 113 220 336 128 73 Amritsar 173 182 140 113 220 336 128 73 Babain B 173 182 140 113 220 336 128 73 Bahadurgarh B 173 182 140 113 220 336 128 73 Bapauli B 173 182 140 113 220 336 128 73 Barara B 173 182 140 113 220 336 128 73 Bhikhiwindi 173 182 140 113 220 336 128 73 Devigarh 173 182 140 113 220 336 128 73 Gannoua B 173 182 140 113 220 336 128 73 Gharunda B 173 182 140 113 220 336 128 73 Gohana 173 182 140 113 220 336 128 73 Guhla B 173 182 140 113 220 336 128 73 Hansi 173 182 140 113 220 336 128 73 Indri 173 182 140 113 220 336 128 73 Israna B 173 182 140 113 220 336 128 73 Jandialaguru 173 182 140 113 220 336 128 73 Kaithal B 173 182 140 113 220 336 128 73 Kalayat B 173 182 140 113 220 336 128 73 Kharkhoda B 173 182 140 113 220 336 128 73 Madlouda B 173 182 140 113 220 336 128 73 Nariangarh B 173 182 140 113 220 336 128 73 Narwana 173 182 140 113 220 336 128 73 Nilokheri 173 182 140 113 220 336 128 73 Panipat 173 182 140 113 220 336 128 73 Patran 173 182 140 113 220 336 128 73 Pundri B 173 182 140 113 220 336 128 73 Radour B 173 182 140 113 220 336 128 73 Rajaund 173 182 140 113 220 336 128 73 Rajpura 173 182 140 113 220 336 128 73 Ratia B 173 182 140 113 220 336 128 73 Rohtak 173 182 140 113 220 336 128 73 Safidon B 173 182 140 113 220 336 128 73 Shahbad 173 182 140 113 220 336 128 73 Sirsa 173 182 140 113 220 336 128 73 Taran Taran 173 182 140 113 220 336 128 73 Thanesar B 173 182 140 113 220 336 128 73 Tohana B 173 182 140 113 220 336 128 73 Uchanakalan 173 182 140 113 220 336 128 73
2. Pusa Basmati Population RM72 RM202 RM348 RM44 RM55 RM171 RM241 RM1 Ambala 158 182 131 113 230 344 128 73 Assandh 158 182 131 113 230 344 128 73 Babain 158 182 131 113 230 344 128 73 Bapoli 158 182 131 113 230 344 128 73 Barara 158 182 131 113 230 344 128 73 Bhuna 158 182 131 113 230 344 128 73 Bilaspur 158 182 131 113 230 344 128 73 Chhachroli 158 182 131 113 230 344 128 73 Ellnabad 158 182 131 113 230 344 128 73 Fatiabad 158 182 131 113 230 344 128 73 Gannour 158 182 131 113 230 344 128 73 Gharonda 158 182 131 113 230 344 128 73 Gulha 158 182 131 113 230 344 128 73 Indri 158 182 131 113 230 344 128 73 Israna 158 182 131 113 230 344 128 73 Jagadhari 158 182 131 113 230 344 128 73 Kaithal 158 182 131 113 230 344 128 73 Kalayat 158 182 131 113 230 344 128 73 Karnal 158 182 131 113 230 344 128 73 Kathura 158 182 131 113 230 344 128 73 Kharkhoda 158 182 131 113 230 344 128 73 Ladwa 158 182 131 113 230 344 128 73 Madlouda 158 182 131 113 230 344 128 73 Mundlana 158 182 131 113 230 344 128 73 Narayangarh 158 182 131 113 230 344 128 73 Nissing 158 182 131 113 230 344 128 73 Panipat 158 182 131 113 230 344 128 73 Pehowa 158 182 131 113 230 344 128 73 Pundri 158 182 131 113 230 344 128 73 Rai 158 182 131 113 230 344 128 73 Rajond 158 182 131 113 230 344 128 73 Rania 158 182 131 113 230 344 128 73 Ratia 158 182 131 113 230 344 128 73 Sirsa 158 182 131 113 230 344 128 73 Sonepat 158 182 131 113 230 344 128 73 Thanesar 158 182 131 113 230 344 128 73
Supplementary Table 2. Inter-locus peak balance values for the multiplex loci. RM1 RM72 RM44 RM55 RM202 RM241 RM171 RM348 RM1 RM72 0.91 RM44 6.20 7.05 RM55 5.92 5.69 0.69 RM202 1.14 1.55 0.09 0.25 RM241 1.77 2.64 0.14 0.31 0.70 RM171 1.11 1.18 0.19 0.20 0.52 0.50 RM348 1.29 1.28 0.24 0.10 0.94 0.77 1.01 --- The peak balance values were derived from the peak height (rfu) ratios obtained by a factorial design experiment with a pair of loci amplified each time (duplex reaction). A ratio of 1 is considered the best combination, and ratios from 0.7 to 1.2 were considered practically adequate. Bold-faced values indicate compatible combinations. For PCR reactions and details of primers please refer to the main document.
Supplementary Figure 1. fgr sequence used for real-time PCR. Amplicon obtained from blue forward primer gives a 236 bp amplicon and red forward primer amplifies an 80 bp band. Reverse primer is common, and binds in the region deleted in the aromatic rices (GATTATGG) amplifying only in non-aromatic rices. >gi 24460082:5500-7000 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 8, PAC clone:p0456b03 ATATATATATATATAATGATACACACCTCTCCTCCGTGTTAATGCAGCTCATTTGTTCTGTCCCGGTTCA AATATCTATTTTTCTCATATGTTGTCAGCATGATTCACTTAATTTAGTATATAGAAGATGCCATTATTTA TGTCTGGAATCTTACTGCAGAAGGGAAAACAATTGATAACGGAATTGATTGCATTCTAATTTGTTGTTTC TTTGTTATGTTCTTATCGACAATTACAAATTTGATTCTGAGAATCATGTTCGGGATGTGTATTTCTACTG CAGGAACTATCCTCTCCTGATGGCAACATGGAAGGTAGCTCCTGCCCTGGCTGCTGGCTGTACAGCTGTA CTAAAACCATCTGAATTGGCTTCCGTGTAAGTTTAACATGTTAACTTGTTAATGTCATACCCATGCTAGT TGCAATGACATTTGATTTTAAAATGTTGTGGCATGTCCATGCTGCAAGCAATGTAATTTGAAATCTCTCT CTATCATTAATTACCAGGACTTGTTTGGAGCTTGCTGATGTGTGTAAAGAGGTTGGTCTTCCTTCAGGTG TGCTAAACATAGTGACTGGATTAGGTTCTGAAGCCGGTGCTCCTTTGTCATCACACCCTGGTGTAGACAA GGTACAGCTATTCCTCCTGTAATCATGTATACCCCATCAATGGAAATGATATTCCTCTCAATACATGGTT TATGTTTTCTGTTAGGTTGCATTTACTGGGAGTTATGAAACTGGTAAAAAGATTATGGCTTCAGCTGCTC CTATGGTTAAGGTTTGTTTCCAAATTTCTGTGGATATTTTTTGTTCTCTTTCTACTAACTCTCTATTATC AATTCTCAATGTTGTCCTTTTCTTTTAACTCCTTTACTTTTTAGAATTGTGATCAAGACACTTTGAGCAT CATTCTAGTAGCCAGTTCTATCCTGTTTCTTACCTTTTTATGGTTCGTCTTTTCTTGACAGCCTGTTTCA CTGGAACTTGGTGGAAAAAGTCCTATAGTGGTGTTTGATGATGTTGATGTTGAAAAAGGTACATGCCACT TGCTATGATTAACTAATTCTGAAGTGCGGGACTTTGTAAAGCACTTAACTGAGCTGGATGCTAGACCCCC AAAAGCCCTTTTTGGTGTCTTGGGCTTGTTGCAGAAATACTGGTCCCAGACGAGCAGGATGCAAGAAAAT TAACTACTTTTGCCACTGATTAGTATTTCTTAGAAGTTACACCTCAAGGATTAGCAATACTTTCTTAAAA TGTGCTATTGATTAAAAAGATGTCCTGTATTATTTTGAGCAGATCTTGTACTGGTTGATCGGCTTGCATG AAAATATTGTTGAGGATTATAATGCCATGCCAACTGAGTAAAGAAAAGAGTTGTAAAATATGTTATGCAA CATGAATATATATGTGATTTCATTTTTCCTTTTTCTTTTCGTGGCAAGGAAGGCAGTTAGGAAGGACTGA TGTGAAAAGCACAAGTACTATTCTTAGTTCT M 1 2 3 4 5 6 7 8 9 10 250bp 100bp 50bp M: 50bp marker (MBI Fermentas), 1,6: Pusa Basmati, 2,7: Basmati370, 3,8: Sharbati, 4,9: IR64, 5,10: Jaya. Non-aromatic rices amplify a 236 bp band (lanes 3-5, blue primer) and an 80 bp band (lanes 8-10, red primer); Aromatic rices yield no amplicon.
Supplementary Figure. 2 Representative real-time PCR runs of RM348 and fgr loci Adulteration in the C T Value standard sample (%) (fgr locus) 1 27.42 3 26.92 5 26.42 7 26.35 10 25.33 15 25.05 30 24.13 50 23.28 60 23.08 C T Value at RM348 21.85 ±0.25
Supplementary Figure 3. Aligned sequences of variety specific alleles of 8 microsatellite loci used in the multiplex assay
RM1 BASMATI370 : DEHRADUN : TARAORI : BASMATI386 : RANBIR : BASMATI217 : HARYANA : PUSA : SUPER : SHARBATI : JAYA : IR64 : * 20 * 40 * 60 -GAGAGAGAGAGAGAGAGAGAGAGAG---------------------------------- -GAGAGAGAGAGAGAGAGAGAGAGAGAG-------------------------------- -GAGAGAGAGAGAGAGAGAGAGAGAG---------------------------------- -GAGAGAGAGAGAGAGAGAGAGAG------------------------------------ -GAGAGAGAGAGAGAGAGAGAGAGAGAG-------------------------------- -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG---------------- -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG-------- -GAGAGAGAGAGAGAGAGAGAGAGAGAG-------------------------------- -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG-------------- -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG---------- -GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG---------- GAGAGAGAGAGAGAGAGAGAGAGag : 25 : 27 : 25 : 23 : 27 : 43 : 51 : 27 : 45 : 49 : 49 1
RM44 SUPER : BASMATI217 : HARYANA : SHARBATI : JAYA : IR64 : BASMATI370 : DEHRADUN : RANBIR : TARAORI : BASMATI386 : PUSA : * 20 * 40 * 60 ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG------CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG--CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG--CCGGA ATGGGATG-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG--CCGGA ATGGGATG GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG CCGGA : 50 : 50 : 50 : 50 : 50 : 50 : 56 : 56 : 56 : 60 : 60 : 60 2
RM55 BASMATI370 : DEHRADUN : RANBIR : JAYA : TARAORI : BASMATI386 : SHAARBATI : BASMATI217 : HARYANA : SUPER : IR64 : PUSA : * 20 * 40 * AAA-----GAGAGAGAGAGAGAGAGAGAGAGAGAGAGA----GGGGAGGGAGAGAGG AAA-----GAGAGAGAGAGAGAGAGAGAGAGAGAGAGA----GGGGAGGGAGAGAGG AAA-----GAGAGAGAGAGAGAGAGAGAGAGAGAGAGA----GGGGAGGGAGAGAGG AAA-----GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA--GGGGAGGGAGAGAGG AAA-----GAGAGAGAGAGAGAGAGAGA-------------------GGGAGAGAGG AAA-----GAGAGAGAGAGAGAGAGAGA-------------------GGGAGAGAGG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAAGAGT-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------GG AAA ************************************************* : 48 : 48 : 48 : 50 : 33 : 33 : 43 : 43 : 43 : 43 : 43 : 43 3
RM72 BASMATI370 : DEHRADUN : TARAORI : BASMATI386 : RANBIR : BASMATI217 : IR64 : HARYANA : PUSA : SUPER : SHARBATI : JAYA : * 20 * 40 * 60 * CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT-AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT-AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT-AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT-AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT-AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT----AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATT----------AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATT----------------AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATT----------------AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATT----------------AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATT----------------AT CG-TATTATTATTATTAT-C-ATTATTATTATTATTATTATTATTATTATTATTATTATT----------------AT CG TATTATTATTATTAT C ATTATTATTATTATTATTATTATTATTATTATTATTATT AT
RM171 BASMATI370 : DEHRADUN : TARAORI : BASMATI386 : RANBIR : BASMATI217 : HARYANA : PUSA : SUPER : SHARBATI : JAYA : IR64 : * 20 * 40 AC-GATGGATGGATGGATGGATGGATG-------------GGTT AC-GATGGATGGATGGATGGATGGATG-------------GGTT AC-GATGGATGGATGGATGGATGGATG-------------GGTT AC-GATGGATGGATGGATGGATGGATG-------------GGTT AC-GATGGATGGATGGATGGATGGATG-------------GGTT AC-GATGGATGGATGGATGGATGGATGGATGGATG-----GATT AC-GATGGATGGATGGATGGATGGATGGATGGATG-----GATT AC-GATGGATGGATGGATGGATGGATGGATGGATG-----GATT AC-GATGGATGGATGGATGGATGGATGGATGGATG-----GATT AC-GATGGATGGATGGATGGATG-----------------GATT AC-GATGGATGGATGGATGGATG-----------------GATT AC-GATGGATGGATGGATGGATGGATGGATGGATGGATG-GATT AC GATGGATGGATGGATGGATG**** G TT : 30 : 30 : 30 : 30 : 30 : 38 : 38 : 38 : 38 : 26 : 26 : 42 5
RM202 IR64 : BASMATI370 : DEHRADUN : TARAORI : BASMATI386 : RANBIR : BASMATI217 : PUSA : SHARBATI : SUPER : HARYANA : JAYA : * 20 * 40 * 60 TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA---------------------GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------------------GGA TT-AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------------------GGA TT AAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAgaga GGA : 61 : 41 : 37 : 37 6
RM241 RANBIR : BASMATI370 : DEHRADUN : IR64 : TARAORI : BASMATI386 : BASMATI217 : HARYANA : PUSA : SUPER : JAYA : SHARBATI : * 20 * 40 * 60 * AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-----------------T AA-GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA-------------------T AA GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAga T : 75 : 71 : 71 : 63 : 57 7
RM348 BASMATI370 : DEHRADUN : TARAORI : BASMATI386 : RANBIR : BASMATI217 : HARYANA : PUSA : SUPER : SHARBATI : JAYA : IR64 : * 20 * 40 * AAGCCAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAGCAGCAGCAG-CGAA AAGCCAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAGCAGCAGCAG-CGAA AAGCCAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAGCAGCAGCAG-CGAA AAGCCAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAGCAGCAGCAG-CGAA AAGCCAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAGCAGCAGCAG-CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGCTAGAACAGCAAACACACACAGATTA-CAGCAGCAGCAG----------CGAA AAGC AGAACAGCAAACACACACAGATTA CAGCAGCAGCAG CGAA : 54 : 54 : 54 : 54 : 54 : 45 : 45 : 45 : 45 : 45 : 45 : 45 8
Supplementary Figure 4. Representative Multiplex allele profiles of traditional, evolved, and non-basmati rice varieties. Each peak of the multiplex profile represents the variety specific allele at that locus, with allele size annotated in the box. The loci (order: from left to right) are RM1, RM72 and RM171 (in blue); RM241 and RM202 (in green); RM44, RM348 and RM55 (in black). Please see Table 1 in the main document for details regarding the rice varieties and Table 2 for details regarding the loci.
7 Kernel basmati
10 Sharbati
For Forensic and Research Use Only -1- Not for use in Diagnostic Procedures. Supplementary Figure 5. Quantification of Basmati370+IR64 standard samples at RM348 100 110 120 130 140 150 160 170 180 190 200 IR64 1% : Basmati370 99% Genotyper 3.7 3000 2000 1000 130.71 106 139.58 3308 IR64 3% : Basmati370 97% 4000 3000 2000 1000 130.65 154 139.59 4318 IR64 5% : Basmati370 95% 4000 3000 2000 1000 130.70 329 139.59 4663 IR64 7% : Basmati370 93% 4000 3000 2000 1000 130.67 381 139.60 4097 IR64 10% : Basmati370 90% 4000 3000 2000 1000 130.62 692 139.60 4220 IR64 15% : Basmati370 85% 2000 1500 1000 500 130.71 638 139.60 2287
For Forensic and Research Use Only -2- Not for use in Diagnostic Procedures. Licensed to CDFD, CDFD Genotyper 3.7 IR64 30% : Basmati370 70% 1500 1000 500 130.61 900 139.61 1873 IR64 50% : Basmati370 50% 2000 1500 1000 500 130.78 2122 139.68 1736 IR64 60% : Basmati370 40% 2000 1500 1000 500 130.68 2055 139.57 1301 IR64 0% : Basmati370 100% 3000 2000 1000 139.57 3554 IR64 100% : Basmati370 0% 2000 1000 130.70 2721