. 2005 May;138(1):490–515. doi: 10.1104/pp.104.056069

Table II.

Comparison of carotenoid biosynthetic genes of C. reinhardtii, the vascular plant Arabidopsis, and the cyanobacterium Synechocystis PCC 6803

Data for putative carotenoid biosynthetic genes (see Fig. 2 for full names of gene products) were compiled, analyzed, and presented as described for the Chl biosynthetic genes in the legend of Table I. (Note that abbreviations are the same as in Table I).

Step	Gene Product	C.r. cDNA/Gene	C.r. Gene Model	(Orthol.) Genes from A.t.	Genes from 6803	Protein Length			A.t. %ident./simil.	Shared Introns (C.r./A.t.)^a	6803 %ident./simil.	C.r. Presequences from		Target Prediction TarP/iPS/Pred
Step	Gene Product	C.r. cDNA/Gene	C.r. Gene Model	(Orthol.) Genes from A.t.	Genes from 6803	C.r.	A.t.	6803	A.t. %ident./simil.	Shared Introns (C.r./A.t.)^a	6803 %ident./simil.	Alignments^b	ChloroP^c	Target Prediction TarP/iPS/Pred
21	DXS	C/C	C_1950004	At4g15560	sll1945	735	717	640	71/86	2 (12/8)	43/67	84	50	P/M/P
				At5g11380			699		50/75	2 (12/9)
				At3g21500			628		62/77	1 (12/8)
22	DXR	C/P	C_70193	At5g62790	sll0019	455	477	394	73/86	3 (8/11)	65/83	55*	29	P/M/M
23	CMS	P/C	C_310123	At2g02500	slr0951	319	302	230	58/79	0 (0/11)	38/59	86	65	P/M/M
24	CMK	P/C	C_550077	At2g26930	sll0711	347	383	315	55/75	2 (7/10)	27/53	49	39	M/M/M
25	MCS	C/C	C_370022	At1g63970	slr1542	207	231	161	76/90	2 (7/2)	43/73	47	30	M/M/M
26	HDS	C/P	C_630052	At5g60600	slr2136	681	741	403	64/80	2 (15/18)	29/41	16*	22	P/P/M
27	IDS	C/C	C_1340041	At4g34350	slr0348	465	466	406	54/75	1 (6/8)	51/75	42	34	M/M/M
28	IDI	C/P	C_1540008	At3g02780	n.h.	307	261	n.h.	43/62	0 (5/5)	n.h.	+	54	P/P/n
				At5g16440			284		43/61	0 (5/5)
29	GGPS	P/C	C_1150003	At4g36810 (12)	slr0739	345	371	302	64/84	0 (7/0)	57/78	52	34	M/M/M
30	PSY	P/C	C_140131	At5g17230	slr1255	382	422	337	64/83	0 (4/5)	59/74	70*	34	M/M/M
31	PDS	C/C	C_490019	At4g14210	slr1254	564	566	472	72/85	3 (5/13)	67/85	73*	24	P/M/n
32	ZDS	C/P	C_440086	At3g04870	slr0940	582	558	489	65/80	3 (13/12)	63/79	79*	22	M/n/n
33	CRTISO	N/C	C_1180035	At1g06820	sll0033	591	595	501	61/78	2 (14/12)	59/78	65	40	M/M/n
34	LCYB	C/P	No model^d	At3g10230	CAA52677 ^e	590	501	411^e	51/72	0 (10/0)	31/59^e	88*	39	M/M/P
35	LCYE	C/C	C_270161	At5g57030	n.p.	583	524		43/64	1 (11/10)		+	39	M/M/M
36	CHYB	C/C	C_1280029	At4g25700	AAA64983 ^f	297	310	176^f	53/76	2 (6/6)	26/42^f	130*	46	M/M/M
				At5g52570			303		51/76	2 (6/6)
37	CHYE	N/P	C_310063	At3g53130	n.p.	594	566		32/56	?		+	39	M/M/M
38	ZEP	C/C	C_50020	At5g67030	n.p.	763	667		46/65	2 (9/15)		+	12	M/M/M
39	VDE	n.i.	n.i.	At1g08550	n.p.	?	462					?	?	?
40	NSY	n.i.	n.i.	n.i.	n.p.	?	?			?		?	?	?
41	LSY	n.i.	n.i.	n.p.	n.p.	?						?	?	?
42	BKT	C/P	C_1280030	n.p.	n.p.	444						74	24	P/P/M
43	GGR	C/C	C_180159	At1g74470	sll1091	504	467	407	73/87	0 (4/2)	66/83	79	81	P/M/n

Number of identical intron positions shared by the homologous proteins from C. reinhardtii (C.r.) and Arabidopsis (A.t.), followed by the total number of introns (in brackets) present in the protein from C.r. and A.t., respectively. Incomplete or preliminary data are italicized.

Numbers denote length of N-terminal extension beyond conserved amino acid motifs in the alignments; *, presequence contains an additional conserved domain which probably is part of the mature protein (see text for further explanations). +, Protein contains putative presequence but no cyanobacterial homolog for comparison.

Numbers denote putative length of targeting presequence as predicted by the software tool ChloroP (see “Materials and Methods”).

No gene model predicted, but partial LCYB gene sequences on scaffolds 235, 1434, and 263.

No homolog in Synechocystis PCC 6803; instead, homologous protein from the cyanobacterium Synechococcus PCC 7942 was used.

No homolog in Synechocystis PCC 6803; instead, homologous protein from the proteobacterium Pantoea agglomerans (a.k.a. Erwinia uredovora) was used.