Comparing sequenced segments of the tomato and Arabidopsis genomes: Large-scale duplication followed by selective gene loss creates a network of synteny

^*Departments of Plant Breeding and Plant Biology, Cornell University, Ithaca, NY 14853; and ^†U.S. Department of Agriculture–Agricultural Research Service, Center for Bioinformatics and Comparative Genomics, Cornell University, Ithaca, NY 14863

Contributed by Steven D. Tanksley

Footnotes

↵‡ To whom reprint requests should be addressed. E-mail: sdt4{at}cornell.edu.
Data deposition: The sequence reported in this paper has been deposited in the GenBank database (accession no. AF273333).
Article published online before print: Proc. Natl. Acad. Sci. USA, 10.1073/pnas.160271297.
Article and publication date are at www.pnas.org/cgi/doi/10.1073/pnas.160271297

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	Abstract	Full	Pdf
Jul 2000	93	41	112
Aug 2000	302	216	498
Sep 2000	35	112	134
Oct 2000	38	177	211
Nov 2000	18	81	84
Dec 2000	32	83	94
Total 2000	518	710	1133
Jan 2001	30	74	93
Feb 2001	27	66	82
Mar 2001	21	58	91
Apr 2001	35	79	107
May 2001	24	58	86
Jun 2001	26	42	66
Jul 2001	13	72	75
Aug 2001	9	42	62
Sep 2001	16	74	142
Oct 2001	22	85	85
Nov 2001	16	55	59
Dec 2001	19	59	60
Total 2001	258	764	1008
Jan 2002	19	41	63
Feb 2002	12	35	51
Mar 2002	44	61	70
Apr 2002	21	44	63
May 2002	26	38	59
Jun 2002	22	40	36
Jul 2002	38	57	58
Aug 2002	25	23	41
Sep 2002	16	35	59
Oct 2002	20	43	65
Nov 2002	11	44	56
Dec 2002	11	20	39
Total 2002	265	481	660
Jan 2003	23	25	47
Feb 2003	26	31	44
Mar 2003	28	41	58
Apr 2003	10	48	76
May 2003	11	30	45
Jun 2003	15	16	30
Jul 2003	33	25	30
Aug 2003	51	32	46
Sep 2003	33	43	67
Oct 2003	41	39	52
Nov 2003	49	32	44
Dec 2003	46	41	41
Total 2003	366	403	580
Jan 2004	37	45	35
Feb 2004	40	34	28
Mar 2004	48	62	55
Apr 2004	59	50	63
May 2004	58	72	34
Jun 2004	31	53	36
Jul 2004	38	37	27
Aug 2004	45	52	36
Sep 2004	31	50	36
Oct 2004	35	49	29
Nov 2004	30	42	34
Dec 2004	40	48	34
Total 2004	492	594	447
Jan 2005	20	48	23
Feb 2005	27	40	32
Mar 2005	31	31	42
Apr 2005	39	35	44
May 2005	32	33	39
Jun 2005	41	35	27
Jul 2005	29	25	25
Aug 2005	27	34	26
Sep 2005	51	44	19
Oct 2005	39	55	26
Nov 2005	65	49	44
Dec 2005	35	37	47
Total 2005	436	466	394
Jan 2006	28	23	32
Feb 2006	49	47	18
Mar 2006	25	40	32
Apr 2006	19	25	22
May 2006	11	21	19
Jun 2006	9	18	22
Jul 2006	37	18	21
Aug 2006	49	18	20
Sep 2006	45	26	31
Oct 2006	67	43	23
Nov 2006	57	41	26
Dec 2006	49	19	11
Total 2006	445	339	277
Jan 2007	32	19	20
Feb 2007	31	22	28
Mar 2007	39	28	36
Apr 2007	33	29	29
May 2007	24	17	29
Jun 2007	29	24	38
Jul 2007	22	22	33
Aug 2007	15	40	23
Sep 2007	10	48	24
Oct 2007	28	48	35
Nov 2007	13	36	29
Dec 2007	26	12	32
Total 2007	302	345	356
Jan 2008	30	17	24
Feb 2008	34	24	37
Mar 2008	25	24	33
Apr 2008	28	20	27
May 2008	25	17	30
Jun 2008	25	28	39
Jul 2008	80	15	25
Aug 2008	86	15	30
Sep 2008	106	16	20
Oct 2008	81	10	22
Nov 2008	75	9	26
Dec 2008	63	25	25
Total 2008	658	220	338
Jan 2009	54	16	29
Feb 2009	48	11	37
Mar 2009	80	16	35
Apr 2009	42	14	20
May 2009	56	27	27
Jun 2009	59	14	25
Jul 2009	40	8	7
Aug 2009	65	10	11
Sep 2009	34	16	20
Oct 2009	57	12	23
Nov 2009	46	13	34
Dec 2009	54	16	27
Total 2009	635	173	295
Jan 2010	55	13	34
Feb 2010	64	17	29
Mar 2010	64	11	28
Apr 2010	44	18	16
May 2010	40	20	16
Jun 2010	33	19	21
Jul 2010	26	20	10
Aug 2010	48	26	15
Sep 2010	37	14	15
Oct 2010	37	24	166
Nov 2010	39	19	10
Dec 2010	23	9	30
Total 2010	510	210	390
Jan 2011	23	13	16
Feb 2011	27	18	18
Mar 2011	34	23	26
Apr 2011	18	17	19
May 2011	25	18	19
Jun 2011	31	14	23
Jul 2011	35	14	17
Aug 2011	53	4	20
Sep 2011	29	18	18
Oct 2011	53	17	33
Nov 2011	69	13	12
Dec 2011	35	21	14
Total 2011	432	190	235
Jan 2012	54	11	10
Feb 2012	52	9	16
Mar 2012	41	19	30
Apr 2012	81	13	28
May 2012	49	20	42
Jun 2012	41	15	26
Jul 2012	44	14	31
Aug 2012	49	9	16
Sep 2012	39	5	20
Oct 2012	60	11	19
Nov 2012	58	18	24
Dec 2012	26	7	9
Total 2012	594	151	271
Jan 2013	50	11	26
Feb 2013	28	13	24
Mar 2013	55	15	29
Apr 2013	65	16	23
May 2013	32	12	17
Jun 2013	41	7	23
Jul 2013	31	7	6
Aug 2013	54	8	16
Sep 2013	47	13	14
Oct 2013	37	13	24
Nov 2013	54	20	25
Dec 2013	40	16	14
Total 2013	534	151	241
Jan 2014	60	13	14
Feb 2014	55	13	15
Mar 2014	58	19	24
Apr 2014	55	63	23
May 2014	51	9	17
Jun 2014	47	10	23
Jul 2014	52	22	13
Aug 2014	66	18	10
Sep 2014	88	48	9
Oct 2014	68	18	6
Nov 2014	61	34	12
Dec 2014	40	24	6
Total 2014	701	291	172
Jan 2015	48	14	2
Feb 2015	31	18	6
Mar 2015	48	13	11
Apr 2015	56	19	13
May 2015	27	7	17
Jun 2015	26	12	18
Jul 2015	30	8	7
Aug 2015	34	13	26
Sep 2015	57	12	16
Oct 2015	27	15	13
Nov 2015	53	17	19
Dec 2015	30	11	21
Total 2015	467	159	169
Jan 2016	27	6	10
Feb 2016	34	12	20
Mar 2016	39	9	23
Apr 2016	38	17	11
May 2016	33	11	14
Jun 2016	29	6	14
Jul 2016	47	15	9
Aug 2016	51	9	13
Sep 2016	43	13	11
Oct 2016	47	14	4
Nov 2016	61	12	21
Dec 2016	35	12	20
Total 2016	484	136	170
Jan 2017	38	9	14
Feb 2017	30	16	6
Mar 2017	39	21	6
Apr 2017	40	11	4
May 2017	38	9	12
Jun 2017	33	14	6
Jul 2017	30	10	6
Aug 2017	32	13	12
Sep 2017	27	20	11
Oct 2017	25	7	4
Nov 2017	23	11	11
Dec 2017	28	7	12
Total 2017	383	148	104
Jan 2018	20	24	11
Feb 2018	24	31	5
Mar 2018	44	28	18
Apr 2018	26	27	10
May 2018	44	37	15
Jun 2018	26	31	6
Jul 2018	47	39	10
Aug 2018	257	247	8
Sep 2018	45	37	4
Oct 2018	12	80	9
Nov 2018	10	41	15
Dec 2018	11	42	10
Total 2018	566	664	121
Jan 2019	8	16	11
Feb 2019	4	21	6
Mar 2019	6	46	14
Apr 2019	9	31	12
May 2019	7	32	14
Jun 2019	5	17	2
Jul 2019	4	23	11
Aug 2019	0	26	12
Sep 2019	1	62	3
Oct 2019	13	71	15
Nov 2019	11	42	14
Dec 2019	1	6	0
Total 2019	69	393	114
Total	9115	6988	7475