SSR Loci in Soybean

Sequences for the PCR Primers Used to Amplify SSR Loci in Soybean

These primers were developed by Perry Cregan (Soybean and Alfalfa Research Laboratory, USDA-ARS, Beltsville, MD) with extramural financial support from the United Soybean Board and the able technical assistance of Edward Fickus, Sarah Hyatt, Charles Quigley, Patrick Elia, Susan Fogarty, Jason Kenworthy, and Chris Lee. Any publications resulting from their use should reference the paper (Crop Science 1998 submitted) where they were first described.

An Integrated Genetic Linkage Map of the Soybean

P. B. Cregan, T. Jarvik, A. L. Bush, R. C. Shoemaker, K. G. Lark, A. L. Kahler, N. Kaya, T. T. VanToai, D. G. Lohnes, J. Chung and J. E. Specht

P. B. Cregan, USDA-ARS, Soybean and Alfalfa Research Lab., Beltsville, MD 20705
T. Jarvik and K. G. Lark, Dept. of Biology, Univ. of Utah, Salt Lake City, UT 84112
A. L. Bush and R. C. Shoemaker, USDA-ARS-CICG, Dept. of Agronomy, Iowa State Univ., Ames, IA 50011
A. L. Kahler, BioGenetic Services Inc., 2308 6th St. E., P.O. Box 710, Brookings, SD 57006
N. Kaya, Yuzuncu Yil University, College of Agriculture, 65080-Van, Turkey
T. T. VanToai, USDA-ARS, Soil Drainage Unit, 590 Woody Hayes Drive, Columbus, OH 43210
D. G. Lohnes, Dept. of Horticulture and Crop Science, The Ohio State Univ. and the Ohio Agric. Res. and Dev. Center, Wooster, OH 44691
J. Chung and J. E. Specht, Dept. of Agronomy, Univ. Nebraska, Lincoln, NE 68583-0915

PCR conditions for using these primers can be found here.

You can browse through the entire list or use these links to go to a particular section

Click on an entry to view the primer sequences

Satt001	Satt002	Satt005	Satt006	Satt009	Satt012	Satt014	Satt020	Satt022	Satt030
Satt031	Satt032	Satt038	Satt041	Satt042	Satt045	Satt046	Satt049	Satt050	Satt052
Satt055	Satt063	Satt066	Satt070	Satt071	Satt072	Satt073	Satt076	Satt077	Satt079
Satt080	Satt082	Satt083	Satt089	Satt094	Satt095	Satt100	Satt102	Satt114	Satt115
Satt117	Satt119	Satt122	Satt123	Satt124	Satt125	Satt126	Satt127	Satt128	Satt129
Satt130	Satt131	Satt132	Satt133	Satt134	Satt135	Satt136	Satt137	Satt138	Satt139
Satt141	Satt142	Satt143	Satt144	Satt145	Satt146	Satt147	Satt148	Satt149	Satt150
Satt151	Satt152	Satt153	Satt154	Satt155	Satt156	Satt157	Satt158	Satt159	Satt160
Satt161	Satt162	Satt163	Satt164	Satt165	Satt166	Satt167	Satt168	Satt169	Satt170
Satt172	Satt173	Satt174	Satt175	Satt177	Satt178	Satt179	Satt180	Satt181	Satt182
Satt183	Satt184	Satt185	Satt186	Satt187	Satt188	Satt189	Satt190	Satt191	Satt192
Satt193	Satt194	Satt195	Satt196	Satt197	Satt198	Satt199	Satt200	Satt201	Satt202
Satt203	Satt204	Satt206	Satt207	Satt208	Satt209	Satt210	Satt211	Satt212	Satt213
Satt215	Satt216	Satt217	Satt218	Satt220	Satt221	Satt222	Satt225	Satt226	Satt227
Satt228	Satt229	Satt230	Satt231	Satt232	Satt233	Satt234	Satt235	Satt236	Satt237
Satt238	Satt239	Satt240	Satt241	Satt242	Satt243	Satt244	Satt245	Satt247	Satt248
Satt249	Satt250	Satt251	Satt252	Satt253	Satt254	Satt255	Satt256	Satt257	Satt258
Satt259	Satt260	Satt262	Satt263	Satt264	Satt266	Satt267	Satt268	Satt269	Satt270
Satt271	Satt272	Satt273	Satt274	Satt275	Satt276	Satt277	Satt278	Satt279	Satt280
Satt281	Satt282	Satt283	Satt284	Satt285	Satt286	Satt287	Satt288	Satt289	Satt290
Satt291	Satt292	Satt293	Satt294	Satt295	Satt296	Satt298	Satt300	Satt301	Satt302
Satt303	Satt304	Satt305	Satt306	Satt307	Satt308	Satt309	Satt310	Satt311	Satt312
Satt313	Satt314	Satt315	Satt316	Satt317	Satt318	Satt319	Satt320	Satt321	Satt322
Satt323	Satt324	Satt325	Satt326	Satt327	Satt328	Satt329	Satt330	Satt331	Satt332
Satt333	Satt334	Satt335	Satt336	Satt337	Satt338	Satt339	Satt340	Satt341	Satt342
Satt343	Satt345	Satt346	Satt347	Satt348	Satt349	Satt350	Satt352	Satt353	Satt354
Satt355	Satt356	Satt357	Satt358	Satt359	Satt361	Satt362	Satt363	Satt364	Satt365
Satt367	Satt368	Satt369	Satt370	Satt371	Satt372	Satt373	Satt374	Satt375	Satt376
Satt377	Satt378	Satt380	Satt381	Satt382	Satt383	Satt384	Satt385	Satt386	Satt387
Satt388	Satt389	Satt390	Satt393	Satt394	Satt395	Satt396	Satt397	Satt398	Satt399
Satt400	Satt402	Satt403	Satt404	Satt405	Satt406	Satt407	Satt408	Satt409	Satt411
Satt412	Satt413	Satt414	Satt415	Satt416	Satt417	Satt418	Satt419	Satt420	Satt421
Satt422	Satt423	Satt424	Satt425	Satt426	Satt427	Satt428	Satt429	Satt430	Satt431
Satt432	Satt433	Satt434	Satt435	Satt436	Satt437	Satt439	Satt440	Satt441	Satt442
Satt443	Satt444	Satt445	Satt446	Satt447	Satt448	Satt449	Satt450	Satt451	Satt452
Satt453	Satt454	Satt455	Satt456	Satt457	Satt458	Satt459	Satt460	Satt461	Satt462
Satt463	Satt464	Satt466	Satt467	Satt468	Satt469	Satt470	Satt471	Satt472	Satt473
Satt474	Satt475	Satt476	Satt477	Satt478	Satt479	Satt480	Satt481	Satt482	Satt483
Satt484	Satt485	Satt486	Satt487	Satt488	Satt489	Satt490	Satt491	Satt492	Satt493
Satt494	Satt495	Satt496	Satt497	Satt498	Satt499	Satt500	Satt501	Satt502	Satt503
Satt504	Satt505	Satt506	Satt507	Satt508	Satt509	Satt510	Satt511	Satt513	Satt514
Satt515	Satt516	Satt517	Satt518	Satt519	Satt520	Satt521	Satt522	Satt523	Satt524
Satt525	Satt526	Satt527	Satt528	Satt529	Satt530	Satt531	Satt532	Satt533	Satt534
Satt536	Satt537	Satt538	Satt539	Satt540	Satt541	Satt542	Satt543	Satt544	Satt545
Satt546	Satt547	Satt548	Satt549	Satt550	Satt551	Satt552	Satt553	Satt554	Satt555
Satt556	Satt557	Satt558	Satt559	Satt560	Satt561	Satt562	Satt563	Satt564	Satt565
Satt566	Satt567	Satt568	Satt569	Satt570	Satt571	Satt572	Satt573	Satt574	Satt575
Satt576	Satt577	Satt578	Satt579	Satt580	Satt581	Satt582	Satt583	Satt584	Satt585
Satt586	Satt587	Satt588	Satt589	Satt590	Satt591	Satt592	Satt593	Satt594	Satt595
Satt596	Satt597	Satt598	Satt599	Satt600	Satt601	Satt602	Satt603	Satt604	Satt605
Satt606	Satt607	Satt608	Satt610	Satt611	Satt612	Satt613	Satt614	Satt615	Satt617
Satt618	Satt619	Satt620	Satt621	Satt622	Satt623	Satt624	Satt625	Satt626	Satt628
Satt629	Satt631	Satt632	Satt633	Satt634	Satt635	Satt636	Satt637	Satt638	Satt640
Satt641	Satt643	Satt644	Satt646	Satt648	Satt649	Satt650	Satt651	Satt652	Satt653
Satt654	Satt655	Satt656	Satt657	Satt658	Satt659	Satt660	Satt661	Satt662	Satt663
Satt664	Satt665	Satt666	Satt669	Satt670	Satt671	Satt672	Satt673	Satt674	Satt675
Satt676	Satt677	Satt678	Satt679	Satt680	Satt681	Satt682	Satt683	Satt684	Satt685
Satt686	Satt687	Satt688	Satt690	Satt691	Satt693	Satt694	Satt697	Satt698	Satt699
Satt700	Satt701	Satt702	Satt703	Satt706	Satt707	Satt708	Satt710	Satt711	Satt712
Satt713	Satt715	Satt716	Satt717	Satt718	Satt720	Satt723	Satt724	Satt725	Satt726
Satt727	Satt728

Sat_001	Sat_003	Sat_009	Sat_020	Sat_022	Sat_033	Sat_036	Sat_038	Sat_039	Sat_040
Sat_042	Sat_043	Sat_044	Sat_062	Sat_064	Sat_069	Sat_071	Sat_074	Sat_076	Sat_077
Sat_083	Sat_084	Sat_085	Sat_086	Sat_087	Sat_088	Sat_089	Sat_090	Sat_091	Sat_092
Sat_093	Sat_094	Sat_095	Sat_096	Sat_097	Sat_099	Sat_103	Sat_104	Sat_105	Sat_106
Sat_107	Sat_108	Sat_109	Sat_110	Sat_111	Sat_112	Sat_113	Sat_114	Sat_115	Sat_116
Sat_117	Sat_118	Sat_119	Sat_120	Sat_121	Sat_122	Sat_123	Sat_124	Sat_125	Sat_126
Sat_127	Sat_128	Sat_129	Sat_130	Sat_131	Sat_132	Sat_133	Sat_134	Sat_135	Sat_136
Sat_137	Sat_138	Sat_139	Sat_140	Sat_141	Sat_142	Sat_143	Sat_144	Sat_145	Sat_147
Sat_148	Sat_149	Sat_150	Sat_151	Sat_153	Sat_154	Sat_155	Sat_156	Sat_157	Sat_158
Sat_159	Sat_160	Sat_162	Sat_163	Sat_164	Sat_165	Sat_166	Sat_167	Sat_168	Sat_169
Sat_170	Sat_171	Sat_172	Sat_173	Sat_174	Sat_175	Sat_177	Sat_180	Sat_181	Sat_182
Sat_183	Sat_185	Sat_186	Sat_187	Sat_189	Sat_190	Sat_191	Sat_192	Sat_193	Sat_194
Sat_195	Sat_196	Sat_197	Sat_198	Sat_199	Sat_200	Sat_201	Sat_202	Sat_203	Sat_205
Sat_206	Sat_207	Sat_208	Sat_209	Sat_210	Sat_211	Sat_212	Sat_213	Sat_214	Sat_215
Sat_216	Sat_217	Sat_218	Sat_219	Sat_220	Sat_221	Sat_222	Sat_223	Sat_224	Sat_226
Sat_227	Sat_228	Sat_229	Sat_230	Sat_231	Sat_232	Sat_233	Sat_234	Sat_235	Sat_236
Sat_238	Sat_239	Sat_240	Sat_241	Sat_242	Sat_243	Sat_244	Sat_245	Sat_246	Sat_247
Sat_250	Sat_251	Sat_252	Sat_253	Sat_254	Sat_255	Sat_256	Sat_258	Sat_259	Sat_260
Sat_261	Sat_262	Sat_263	Sat_264	Sat_265	Sat_266	Sat_267	Sat_268	Sat_270	Sat_271
Sat_272	Sat_273	Sat_274	Sat_275	Sat_276	Sat_277	Sat_279	Sat_280	Sat_281	Sat_282
Sat_283	Sat_284	Sat_285	Sat_286	Sat_287	Sat_288	Sat_289	Sat_290	Sat_291	Sat_292
Sat_293	Sat_294	Sat_295	Sat_296	Sat_297	Sat_298	Sat_299	Sat_300	Sat_301	Sat_303
Sat_304	Sat_305	Sat_306	Sat_307	Sat_308	Sat_309	Sat_310	Sat_311	Sat_312	Sat_313
Sat_315	Sat_316	Sat_317	Sat_318	Sat_319	Sat_320	Sat_321	Sat_322	Sat_324	Sat_325
Sat_326	Sat_330	Sat_331	Sat_332	Sat_333	Sat_334	Sat_336	Sat_337	Sat_338	Sat_339
Sat_340	Sat_341	Sat_342	Sat_343	Sat_344	Sat_345	Sat_346	Sat_347	Sat_348	Sat_349
Sat_350	Sat_351	Sat_352	Sat_353	Sat_354	Sat_355	Sat_356	Sat_357	Sat_358	Sat_359
Sat_360	Sat_361	Sat_362	Sat_363	Sat_364	Sat_365	Sat_366	Sat_367	Sat_368	Sat_369
Sat_370	Sat_371	Sat_372	Sat_373	Sat_374	Sat_375	Sat_376	Sat_377	Sat_378	Sat_379
Sat_380	Sat_381	Sat_382	Sat_383	Sat_384	Sat_385	Sat_387	Sat_388	Sat_389	Sat_390
Sat_391	Sat_392	Sat_393	Sat_394	Sat_395	Sat_396	Sat_397	Sat_399	Sat_400	Sat_401
Sat_402	Sat_403	Sat_404	Sat_405	Sat_406	Sat_407	Sat_408	Sat_409	Sat_410	Sat_411
Sat_412	Sat_413	Sat_414	Sat_415	Sat_416	Sat_417	Sat_418	Sat_419	Sat_420	Sat_421
Sat_422	Sat_423	Sat_424

Sct_001	Sct_010	Sct_026	Sct_028	Sct_033	Sct_034	Sct_046	Sct_064	Sct_065	Sct_067
Sct_094	Sct_137	Sct_147	Sct_186	Sct_187	Sct_188	Sct_189	Sct_190	Sct_191	Sct_192
Sct_193	Sct_194	Sct_195	Sct_196	Sct_199

AB002807	AF162283	AF186183	AI794821	AI856415	AQ851479	AQ851518	AW132402
AW186493	AW277661	AW310961	AW508247	AW620774	AW734043	AW734137	AW756935
AW781285	AZ254740	AZ302047	AZ536570	BE021153	BE347343	BE475343	BE801128
BE801538	BE806308	BE806387	BE820148	BE823543	BF008905	BF070293	GMABAB
GMAC7L	GMENOD2B	GMHSP179	GMLPSI2

PCR Reagents for Soybean SSR Amplification

30 ng genomic soybean DNA
Buffer:
- 50 mM KCl
- 10 mM Tris-HCl (pH 9.0 at 25^o C)
- 0.1 % Triton X-100
1.5 mM MgCl₂
0.15 mM for each of the NTPs
1 unit Taq DNA Polymerase

Thermocycling Profile for Amplification of Soybean SSRs

2 min at 95^o C
33 cycles of
- Denaturation: 92^o C
- Annealing: opimum temperature or 47^o C if not known
  - For better, but still specific amplification, 46^o C will also work quite well
- Extension: 68^o C

Use equal times for denaturation, annealing, and extension. Time depends on PCR machine, volume of reaction, etc.