Building a model: developing genomic resources for common milkweed (Asclepias syriaca) with low coverage genome sequencing

Straub, Shannon CK; Fishbein, Mark; Livshultz, Tatyana; Foster, Zachary; Parks, Matthew; Weitemier, Kevin; Cronn, Richard C; Liston, Aaron

doi:10.1186/1471-2164-12-211

Table 2 Primers, PCR reaction conditions, and characteristics of microsatellite loci tested for amplification success in Asclepias syriaca

From: Building a model: developing genomic resources for common milkweed (Asclepias syriaca) with low coverage genome sequencing

Primer Set Name	Orientation	Primer Sequence (5'-3')	Annealing Temp. (°C)	Repeat Motif	Product Size (bp)
As104467	FORWARD	ACTTTTTGTTCTGTTCCGAGT	52.9	TA₆	100
	REVERSE	CGGGGCTAGTATAGAAGAAGA
As106994	FORWARD	AGGAAGCCAATTCAAGTAAAG	48.9	GA₅	129
	REVERSE	GAAAATCCTTGCATGAAACT
As12122	FORWARD	TTGGTTGTTGGAACTTACACT	50.4	ATTC₄	115
	REVERSE	AAGCACAAGAATCAGAACAAT
As125636	FORWARD	GAACTCCTATGATCTTTCATTT	50.8	TC₄...TA₄*	136
	REVERSE	AGACATCATGAACCCTCTTTA
As12641	FORWARD	CTCTTCATCTGGTTTCTCTTG	49.0	TA₄	130
	REVERSE	TGCATACAAATTTAGGTGATTC
As13110	FORWARD	AACCATAAATGCAGGTTCTTT	50.9	TA₄	101
	REVERSE	GCATATCTAGCTCGCATTTAG
As16135	FORWARD	TTAGGTTGTGAGAAGGGATTT	50.3	CCT₄	100
	REVERSE	GCTTTTATTAATGTGGGAGGA
As16369	FORWARD	AACGCTTATCCCTCACTTTAC	51.5	TA₅	100
	REVERSE	CCGAACTCTATATGAGTCCAAT
As196582	FORWARD	GCATTTATTGCATTGTCAAA	50.5	TGA₅	113
	REVERSE	GCCGTTGTTCCTCTATAATTT
As2003a	FORWARD	CCCTCGTTATTGAGAAAATAGA	50.5	ATA₅	105
	REVERSE	GGCTCTTACCAAAGAAAAGAT
As20679a	FORWARD	GTCATCGGAAGCTCTTTTC	52.7	CTT₄	104
	REVERSE	AGTCAAAAGTCACACTCATCTG
As2338	FORWARD	CATCTTGGTTAGCTCGTAAAC	51.7	TC₅	104
	REVERSE	CCTTACCTAGGATGAAAGGAG
As23491a	FORWARD	ATTTCCTCCATTTGTTCTTTC	50.0	TC₅	101
	REVERSE	GAAGTTTGTCTGAAATGGTTG
As2366	FORWARD	TTGGTGTTGTAAAGTGTTCCT	54.5	TA₅	101
	REVERSE	ACCAGCTCGTCAGTCAAG
As23942	FORWARD	GTGATTTCCATTTTACCATACC	51.7	AG₅	100
	REVERSE	ATCCTTAGCAAATAGGAGTCG
As23961	FORWARD	ACTCTTGTTATTTTGGGGAAT	49.3	TG₅	108
	REVERSE	CAAAAGCTTTACACGATCAAT
As282930	FORWARD	AACTTAGCTTTGGATGATGTTT	50.1	TAA₄	102
	REVERSE	CAATTGGGCTTGTATATCAGA
As28460	FORWARD	CACAAGATGAACATCAAAACC	49.6	AT₅	100
	REVERSE	TTGAGTATATTTGTTCCCCAAT
As292191	FORWARD	GGAGGGTCTAATGTCTGATGT	51.3	TG₅	125
	REVERSE	ATTCACACATCCCATACCAT
As43163	FORWARD	TATTCCAAGAAATTGGTCAAC	49.7	TTA₄	110
	REVERSE	CATGGAAGAAGAACAAAACAG
As5768	FORWARD	AAGGGAAATGATCCTTAGGTA	51.0	AG₆	108
	REVERSE	TTCGAAAGAGTTCCACATCTA
As71725	FORWARD	TTTACGACTCATGTACTCTTCC	50.8	AG₄...TG₅*	133
	REVERSE	GTAATACCGGAAAATGACCTC
As77693	FORWARD	GTCAGTCAACTCAACAATGCT	51.0	TC₆	102
	REVERSE	TCCCAAAACTCAGATCTAACA
As81784	FORWARD	AATGTAAAGGGAGATGTTTATCA	52.0	TAT₄	129
	REVERSE	AGCATCAAGAACTTGAACAGA
As99212	FORWARD	TCTATGGTCAACAATTTCTGC	53.4	AT₅	153
	REVERSE	TTTATAGGGGTAGCGTAGGTG

*Repeat motifs are separated by 27 bp for primer set As71725 and 46 bp for primer set As125636.

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ISSN: 1471-2164

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