Effects of electrophoresis buffer, electrophoresis time, and annealing temperature on the quality of SSR molecular detection in rice varieties

Figures & data

Table 1. Rice identification primers

No.	Primer	sequence (5‘→3’)
1	RM1195	F: ATGGACCACAAACGACCTTC; R: CGACTCCCTTGTTCTTCTGG;
2	RM224	F: ATCGATCGATCTTCACGAGG; R: TGCTATAAAAGGCATTCGGG;
3	RM336	F: CTTACAGAGAAACGGCATCG; R: GCTGGTTTGTTTCAGGTTCG;
4	RM253	F: TCCTTCAAGAGTGCAAAACC; R: GCATTGTCATGTCGAAGCC;
5	RM219	F: CGTCGGATGATGTAAAGCCT; R: CATATCGGCATTCGCCTG;
6	RM8277	F: AGCACAAGTAGGTGCATTTC; R: ATTTGCCTGTGATGTAATAGC;
7	RM493	F: TAGCTCCAACAGGATCGACC; R: GTACGTAAACGCGGAAGGTG;
8	RM72	F: CCGGCGATAAAACAATGAG; R: GCATCGGTCCTAACTAAGGG;
9	RM471	F: ACGCACAAGCAGATGATGAG; R: GGGAGAAGACGAATGTTTGC;
10	RM232	F: CCGGTATCCTTCGATATTGC; R: CCGACTTTTCCTCCTGACG;
11	RM258	F: TGCTGTATGTAGCTCGCACC; R: TGGCCTTTAAAGCTGTCGC;
12	RM311	F: TGGTAGTATAGGTACTAAACAT; R: TCCTATACACATACAAACATAC;
13	RM176	F: CGGCTCCCGCTACGACGTCTCC; R: AGCGATGCGCTGGAAGAGGTGC;
14	RM583	F: AGATCCATCCCTGTGGAGAG; R: GCGAACTCGCGTTGTAATC;
15	RM424	F: TTTGTGGCTCACCAGTTGAG; R: TGGCGCATTCATGTCATC;
16	RM85	F: CCAAAGATGAAACCTGGATTG; R: GCACAAGGTGAGCAGTCC;
17	RM598	F: GAATCGCACACGTGATGAAC; R: ATGCGACTGATCGGTACTCC;
18	RM190	F: CTTTGTCTATCTCAAGACAC; R: TTGCAGATGTTCTTCCTGATG;
19	RM590	F: CATCTCCGCTCTCCATGC; R: GGAGTTGGGGTCTTGTTCG;
20	RM209	F: ATATGAGTTGCTGTCGTGCG; R: CAACTTGCATCCTCCCCTCC;
21	RM19	F: CAAAAACAGAGCAGATGAC; R: CTCAAGATGGACGCCAAGA;
22	RM208	F: TCTGCAAGCCTTGTCTGATG; R: TAAGTCGATCATTGTGTGGACC;
23	RM119	F: CATCCCCCTGCTGCTGCTGCTG; R: CGCCGGATGTGTGGGACTAGCG;
24	RM267	F: TGCAGACATAGAGAAGGAAGTG; R: AGCAACAGCACAACTTGATG;
25	RM481	F: TAGCTAGCCGATTGAATGGC; R: CTCCACCTCCTATGTTGTTG;
26	RM339	F: GTAATCGATGCTGTGGGAAG; R: GAGTCATGTGATAGCCGATATG;
27	RM316	F: CTAGTTGGGCATACGATGGC; R: ACGCTTATATGTTACGTCAAC;
28	RM17	F: TGCCCTGTTATTTTCTTCTCTC; R: GGTGATCCTTTCCCATTTCA;
29	RM561	F: GAGCTGTTTTGGACTACGGC; R: GAGTAGCTTTCTCCCACCCC;
30	RM551	F: AGCCCAGACTAGCATGATTG; R: GAAGGCGAGAAGGATCACAG;
31	RM274	F: CCTCGCTTATGAGAGCTTCG; R: CTTCTCCATCACTCCCATGG;
32	RM432	F: TTCTGTCTCACGCTGGATTG; R: AGCTGCGTACGTGATGAATG;
33	RM331	F: GAACCAGAGGACAAAAATGC; R: CATCATACATTTGCAGCCAG;
34	OSR48	F: AGCAGCTATAGCTTAGCTGG; R: ACTGCACATGAGCAGAGACA;
35	RM21	F: ACAGTATTCCGTAGGCACGG; R: GCTCCATGAGGGTGGTAGAG;
36	RM3331	F: CCTCCTCCATGAGCTAATGC; R: AGGAGGAGCGGATTTCTCTC;
37	RM443	F: GATGGTTTTCATCGGCTACG; R: AGTCCCAGAATGTCGTTTCG;
38	RM490	F: ATCTGCACACTGCAAACACC; R: AGCAAGCAGTGCTTTCAGAG;
39	RM71	F: CTAGAGGCGAAAACGAGATG; R: GGGTGGGCGAGGTAATAATG;
40	RM423	F: AGCACCCATGCCTTATGTTG; R: CCTTTTTCAGTAGCCCTCCC;
41	RM571	F: GGAGGTGAAAGCGAATCATG; R: CCTGCTGCTCTTTCATCAGC;
42	RM231	F: CCAGATTATTTCCTGAGGTC; R: CACTTGCATAGTTCTGCATTG;
43	RM567	F: ATCAGGGAAATCCTGAAGGG; R: GGAAGGAGCAATCACCACTG;
44	RM298	F: TTCCATGGCACACAAGCC; R: CTGTGCACGAACTTCCAAAG;
45	RM542	F: TGAATCAAGCCCCTCACTAC; R: CTGCAACGAGTAAGGCAGAG;
46	RM278	F: GTAGTGAGCCTAACAATAATC; R: TCAACTCAGCATCTCTGTCC;
47	RM332	F: GCGAAGGCGAAGGTGAAG; R: CATGAGTGATCTCACTCACCC;
48	RM7102	F: TAGGAGTGTTTAGAGTGCCA; R: TCGGTTTGCTTATACATCAG;

Table 2. Rice DNA concentration

	ng/ul	A260nm	A280nm	260/280	260/230
Hui Xiang A	62.7	1.255	0.672	1.87	1.97
Ba Xiang A	34.1	0.681	0.360	1.89	1.94
Te You 816	43.9	0.879	0.483	1.82	1.81
Meiya silk	37.4	0.749	0.398	1.88	1.8

Figure 1. Impact of electrophoresis buffer quality on electrophoresis results.

Figure 2. Impact of electrophoresis time on the detection of variety authenticity using SSR molecular markers.

Figure 3. Effect of different annealing temperatures on the specificity of PCR products.