Table 7.

Success of PCR amplification and intron length variation for COSII nuclear loci in Asclepias and across Apocynaceae

					Number of Individuals PCR successful/PCR attempted					Approximate Product Size (bp)#
Arabidopsis Ortholog	tair Annotation	Primer Set	Introns spanned*	Coding Sequence (bp)	As1	M2	B3	Ap4	Al5	As	M	B	Ap	Al
At1g24360	3-oxoacyl-(acyl-carrier protein) reductase, chloroplast	At1g24360a	360, 441, 487	234	15/20	1/2	1/2	2/2	1/1	1400-1500	1500	1000	300, 1000	1000
		At1g24360b	582, 615	117	14/16	2/2	2/2	2/2	1/1	500-700	500	500	500	700, 1500
		At1g24360c	750	117	16/16	2/2	2/2	2/2	1/1	200	200	200, 1500	200	200, 700
At1g44760	universal stress protein (USP) family protein	At1g44760a	369, 491	334	1/16	1/2	1/2	2/2	1/1	1300	1200	1200	1100	700
At1g55880	pyridoxal-5'-phosphate-dependent enzyme	At1g55880a	1043	394	13/16	2/2	2/2	2/2	1/1	1200	900	700 - 800	700	300, 700
At1g77370	glutaredoxin, putative	At1g77370a	164, 238	172	16/20	2/2	2/2	0/2	0/1	1400-1500	1100	1100 -1200	n/a	n/a
At2g03120	homologous to Signal Peptide Peptidases (SPP)	At2g03120a	156	210	19/19	2/2	2/2	2/2	1/1	300-400	300	300	300	300
At2g06530	VPS2.1 (vesicle-mediated transport)	At2g06530a	276	145	20/20	2/2	2/2	2/2	1/1	400-650	400	700 - (600, 1000)	600 - (800,1000)	400, 1200
At2g21960	unknown protein	At2g21960a	503, 592, 722	366	7/16	2/2	2/2	2/2	1/1	1500	1500	1700	1600 - 1700	1100
		At2g21960b	813	84	12/16	2/2	2/2	2/2	1/1	200-300	200	150	150	150
At2g30200	[acyl-carrier-protein] S-malonyltransferase	At2g30200a	377, 444	185	12/16	2/2	2/2	2/2	1/1	1400	1000	1200	900	1200, >>1500
		At2g30200b	587, 636, 774	392	13/20	2/2	2/2	2/2	1/1	700-1500	1200	1200	1200	1200
		At2g30200c	855	160	16/16	0/2	2/2	2/2	1/1	300	n/a	300	300	300
At2g34620	mitochondrial transcription termination factor-related	At2g34620a	596	254	19/19	2/2	2/2	2/2	2/2	300	300	300	300 - 1000	300
		At2g34620F/	596	531	15/16	2/2	2/2	2/2	0/2	600	600	600	600	n/a
		At2g34620aR
At2g47390	serine-type endopeptidase	At2g47390a	1718	401	20/20	2/2	2/2	2/2	0/2	500-600	500	500	500	n/a
		At2g47390b	2177, 2243, 2304, 2454, 2592	506	1/16	0/2	0/2	0/2	0/2	1500	n/a	n/a	n/a	n/a
At4g13430	methylthioalkylmalate isomerase	At4g13430a	510, 579, 696	275	14/16	2/2	2/2	2/2	1/1	700-1000	900, 1200	1200	1200	1200
		At4g13430b	771, 849, 945, 995, 1050	391	16/20	0/2	2/2	0/2	1/1	1300-1500	n/a	>1500	n/a	1500
		At4g13430c	1182, 1230	278	15/16	2/2	2/2	2/2	1/1	(500, 800)-1000	800	900 - >1500	800	500, 900, 1200
At4g26750	hydroxyproline-rich glycoprotein family protein	At4g26750a	305, 381	241	1/16	2/2	2/2	2/2	0/1	1500	>1500	1500	1000	n/a
At5g13420	putative transaldolase	At5g13420a	348, 398	295	12/16	2/2	2/2	2/2	0/1	1300	1100	1000	700	n/a
		At5g13420b	699, 888	338	20/20	2/2	2/2	2/2	1/1	800-900	1200	1200	500, 1200	1500
At5g23540	26S proteasome regulatory subunit	At5g23540a	308, 390, 567	436	0/16	2/2	2/2	1/2	0/1	n/a	>>1500	300, 700, >>1500	500, 700	n/a
		At5g23540aF At5g23540bR	308, 390	231	7/16	2/2	2/2	1/2	1/1	1400	>>1500	700 - 900, >>1500	700	1200
At5g49970	bifunctional pyridoxine (pyridoxamine) 5'-phosphate oxidase (PPOX)	At5g49970a	507	193	20/20	2/2	2/2	2/2	2/2	300	300	300	300	300
		At5g49970b	613, 780	226	16/16	2/2	2/2	2/2	1/2	500-900	800	800	700	1000
		At5g49970aFAt5g49970bR	507, 613, 780	398	15/16	n/a	n/a	n/a	n/a	1000-1500	n/a	n/a	n/a	n/a

*Intron numbers represent the starting position of the intron in Arabidopsis.

¹Asclepiadinae Samples include 4 genera: Asclepias (17), Gomphocarpus, Calotropis, and Pergularia.

²Marsdenieae

³Baisseeae

⁴Apocyneae

⁵Alyxieae

#Two numbers separated by a comma indicate multiple PCR products. A range of numbers indicates size variation among individuals.