利用EST-SSR标记评价羽扇豆属(Lupinus L.)遗传多样性

doi:10.3724/SP.J.1006.2020.94077

Abstract

Abstract:

In order to explore the evolutionary relationship of Lupinus preliminarily as well as to excavate and utilize lupin resources from the “Old World” effectively, the genetic diversity among the species under Lupinus genus was analyzed. Ninety-five polymorphic pairs of EST-SSR markers developed based on the transcriptome of narrow-leaved lupin (Lupinus angustifolius L.) were used to scan 133 lupin accessions from 22 species. A total of 1318 alleles were detected with 13.87 alleles per locus on average, ranging from 3 to 37 alleles; the polymorphism information content (PIC) ranged from 0.39 to 0.91 with the mean value of 0.63; the genetic diversity ranged from 0.41 to 0.92 with the mean value of 0.78. This study showed evolutionary relations among the 22 species under Lupinus genus from the “Old World” and the “New World” based on Neighbor-Joining (NJ) method, which is consistent with previous studies. Moreover, seventy-seven lupin accessions of seven Lupinus species from the “Old World” were divided into 4 groups; there was no overlap of accession from different species contained in each identified group, detected by all the three analysis methods like population structure, cluster analysis based on UPGMA and principal component analysis (PCA).

Key words: EST-SSR, Lupinus genus, transcriptome, genetic diversity

Hong-Yan ZHANG,Tao YANG,Rong LIU,Fang JIN,Li-Ke ZHANG,Hai-Tian YU,Jin-Guo HU,Feng YANG,Dong WANG,Yu-Hua HE,Xu-Xiao ZONG. Assessment of genetic diversity by using EST-SSR markers in Lupinus[J].Acta Agronomica Sinica, 2020, 46(3): 330-340.

Figures/Tables 11

Fig. 1

Fig. 2

Table 1

Genetic parameters of 95 pairs of polymorphic markers"

标记 Marker	等位基因 No. of allele	基因多样性 Gene diversity	PIC	标记 Marker	等位基因 No. of allele	基因多样性 Gene diversity	PIC
lup-est4467	22.00	0.88	0.87	lup-est6567	31.00	0.91	0.91
lup-est4113	17.00	0.80	0.78	lup-est2194	14.00	0.80	0.77
lup-est3140	14.00	0.73	0.68	lup-est4304	25.00	0.89	0.88
lup-est4349	10.00	0.65	0.62	lup-est3549	10.00	0.68	0.63
lup-est6531	7.00	0.42	0.39	lup-est2949	15.00	0.89	0.88
lup-est5958	11.00	0.73	0.69	lup-est2185	13.00	0.77	0.74
lup-est2267	17.00	0.88	0.86	lup-est3185	14.00	0.85	0.84
lup-est2076	16.00	0.82	0.80	lup-est2385	14.00	0.79	0.76
lup-est6513	16.00	0.85	0.84	lup-est3894	14.00	0.83	0.82
lup-est6558	19.00	0.91	0.90	lup-est1449	14.00	0.80	0.78
lup-est6258	16.00	0.86	0.85	lup-est2140	13.00	0.87	0.85
lup-est6104	17.00	0.71	0.69	lup-est3458	10.00	0.68	0.64
lup-est6049	11.00	0.73	0.69	lup-est6158	13.00	0.79	0.77
lup-est1985	12.00	0.76	0.73	lup-est2822	12.00	0.80	0.77
lup-est2531	30.00	0.89	0.88	lup-est5340	9.00	0.77	0.74
lup-est976	18.00	0.82	0.80	lup-est5440	12.00	0.73	0.69
lup-est2013	14.00	0.76	0.74	lup-est4549	18.00	0.87	0.86
lup-est840	7.00	0.73	0.68	lup-est5513	10.00	0.77	0.73
lup-est1640	12.00	0.76	0.73	lup-est1149	8.00	0.82	0.79
lup-est931	18.00	0.88	0.87	lup-est4576	7.00	0.70	0.65
lup-est1749	21.00	0.89	0.88	lup-est2694	18.00	0.87	0.86
lup-est2558	16.00	0.85	0.84	lup-est3494	12.00	0.85	0.83
lup-est458	9.00	0.72	0.67	lup-est158	7.00	0.79	0.75
lup-est4640	16.00	0.88	0.87	lup-est5049	10.00	0.80	0.77
lup-est5985	11.00	0.81	0.79	lup-est1058	8.00	0.68	0.64
lup-est2849	22.00	0.84	0.82	lup-est3994	21.00	0.91	0.90
lup-est3649	37.00	0.91	0.90	lup-est1594	12.00	0.80	0.78
lup-est2340	23.00	0.92	0.91	lup-est4322	16.00	0.85	0.84
lup-est4522	9.00	0.66	0.63	lup-est4185	12.00	0.83	0.81
lup-est5240	13.00	0.83	0.81	lup-est5749	7.00	0.70	0.64
lup-est2567	7.00	0.41	0.39	lup-est5667	9.00	0.64	0.60
lup-est58	10.00	0.73	0.69	lup-est3067	21.00	0.88	0.87
lup-est4458	12.00	0.86	0.84	lup-est1649	12.00	0.66	0.63
lup-est4131	9.00	0.72	0.67	lup-est5622	9.00	0.75	0.71
lup-est5740	13.00	0.63	0.58	lup-est3576	5.00	0.71	0.66
lup-est164	8.00	0.63	0.59	lup-est6213	9.00	0.78	0.75
lup-est6031	14.00	0.81	0.79	lup-est2358	11.00	0.88	0.87
lup-est922	13.00	0.82	0.80	lup-est2540	11.00	0.79	0.76
lup-est2313	20.00	0.84	0.83	lup-est4249	10.00	0.53	0.49
lup-est249	17.00	0.77	0.75	lup-est4949	13.00	0.67	0.61
lup-est2704	13.00	0.44	0.43	lup-est4158	14.00	0.80	0.77
lup-est1085	13.00	0.80	0.78	lup-est822	14.00	0.86	0.84
lup-est1622	19.00	0.81	0.79	lup-est3340	10.00	0.81	0.79
lup-est6504	9.00	0.67	0.61	lup-est1313	17.00	0.81	0.80
lup-est613	12.00	0.77	0.75	lup-est2404	12.00	0.80	0.78
lup-est449	12.00	0.69	0.66	lup-est713	25.00	0.80	0.77
lup-est4022	7.00	0.72	0.67	lup-est5967	13.00	0.80	0.78
lup-est5831	15.00	0.84	0.82	平均Mean	13.87	0.78	0.75

Table 1

Fig. 3

Fig. 4

Table 2

Fig. 5

Table 3

Table 4

Supplement table 1

Origin information of 133 lupin accessions used in this study"

Accession	Species	Continents	Longitude (E)	Latitude (N)
PI 284712^a,c	L. arbustus	North America	-121.45	38.57
PI 284714^a	L. arbustus	North America	-121.45	38.57
PI 232569^a,c	L. argenteus	North America	-77.03	38.88
PI 504372^a	L. argenteus	North America	-111.87	40.77
PI 504374^a	L. argenteus	North America	-123.03	44.93
PI 577284^a	L. argenteus	North America	-116.22	43.62
PI 477930^a	L. argenteus	North America	-123.03	44.93
PI 477931^a	L. argenteus	North America	-123.03	44.93
PI 477936^a	L. argenteus	North America	-123.03	44.93
PI 504330^a	L. argenteus	North America	-77.03	38.88
PI 384612^a,b,c	L. atlanticus	Africa	-6.85	34.03
PI 384613^a,b	L. atlanticus	Africa	-6.85	34.03
W6 17965^a,b	L. atlanticus	Africa	-6.85	34.03
PI 284715^a,c	L. concinnus	North America	-121.45	38.57
PI 284716^a	L. concinnus	North America	-121.45	38.57
PI 660715^a,b,c	L. cosentinii	Oceania	149.13	-35.30
W6 17967^a,b	L. cosentinii	Europe	-9.08	38.70
PI 185099^a,c	L. elegans	North America	-99.15	19.47
W6 15613^a	L. elegans	North America	-121.45	38.57
PI 344647^a,c	L. garfieldensis	North America	-77.03	38.88
PI 344648^a	L. garfieldensis	North America	-77.03	38.88
PI 477932^a,c	L. lepidus	North America	-123.03	44.93
PI 477934^a	L. lepidus	North America	-123.03	44.93
PI 504325^a	L. lepidus	North America	-123.03	44.93
PI 504391^a,c	L. leucophyllus	North America	-77.03	38.88
PI 504397^a	L. leucophyllus	North America	-123.03	44.93
PI 504398^a	L. leucophyllus	North America	-123.03	44.93
PI 504399^a	L. leucophyllus	North America	-123.03	44.93
PI 504400^a	L. leucophyllus	North America	-123.03	44.93
PI 602371^a,c	L. mexicanus	Europe	19.25	47.43
PI 615395^a	L. mexicanus	North America	-121.45	38.57
PI 615398^a	L. mexicanus	North America	-121.45	38.57
PI 615399^a	L. mexicanus	North America	-121.45	38.57
W6 14749^a	L. mexicanus	Europe	19.25	47.43
PI 602373^a,c	L. microcarpus	North America	-121.45	38.57
PI 602376^a	L. microcarpus	North America	-121.45	38.57
PI 344664^a,c	L. polyphyllus	North America	-116.22	43.62
PI 442515^a	L. polyphyllus	Europe	4.35	50.85
PI 477122^a	L. polyphyllus	Europe	13.03	52.52
PI 504411^a	L. polyphyllus	North America	-116.22	43.62
PI 504412^a	L. polyphyllus	North America	-77.03	38.88
PI 504413^a	L. polyphyllus	North America	-77.03	38.88
PI 504414^a	L. polyphyllus	North America	-123.03	44.93
PI 452129^a,c	L. rivularis	North America	-123.03	44.93
PI 660700^a	L. rivularis	North America	-123.03	44.93
PI 660701^a	L. rivularis	North America	-123.03	44.93
PI 660720^a	L. rivularis	North America	-123.03	44.93
PI 284726^a	L. stiversii	North America	-121.45	38.57
PI 602374^a,c	L. stiversii	North America	-121.45	38.57
PI 284728^a,c	L. succulentus	North America	-121.45	38.57
PI 577290^a	L. succulentus	North America	-77.03	38.88
PI 615405^a,b,c	L. albus	North America	-92.32	34.73
PI 615406^a,b	L. albus	North America	-92.32	34.73
PI 615409^b	L. albus	North America	-84.42	33.77
PI 660685^b	L. albus	Europe	-6.97	38.88
PI 660711^b	L. albus	Europe	-16.23	28.45
PI 660712^b	L. albus	Africa	36.85	7.38
PI 660713^b	L. albus	Asia	36.32	33.05
PI 660714^b	L. albus	Africa	31.28	30.00
PI 660721^a,b	L. albus	Europe	2.03	48.85
PI 660722^b	L. albus	Europe	2.03	48.85
PI 660723^b	L. albus	North America	-86.03	32.37
PI 660724^b	L. albus	Asia	35.93	31.95
PI 660726^a,b	L. albus	Oceania	149.13	-35.30
PI 666380^b	L. albus	Europe	-4.03	39.86
PI 666381^b	L. albus	Europe	-6.94	37.29
PI 666382^b	L. albus	Europe	-4.03	39.86
PI 666385^b	L. albus	Oceania	149.13	-35.30
PI 666386^b	L. albus	Africa	3.22	36.70
W6 15551^b	L. albus	Europe	2.03	48.85
W6 19548^a,b	L. albus	South America	-70.07	-33.43
W6 39795^a,b	L. albus	Europe	13.03	52.52
W6 39796^a,b	L. albus	Europe	13.03	52.52
W6 39797^b	L. albus	Europe	13.03	52.52
W6 39798^b	L. albus	Europe	13.03	52.52
W6 39800^a,b	L. albus	Europe	13.03	52.52
W6 39801^a,b	L. albus	Europe	-9.08	38.70
W6 39802^a,b	L. albus	Asia	35.22	31.78
PI 168527^b,c	L. angustifolius	Europe	-9.08	38.70
PI 180708^b	L. angustifolius	Europe	13.03	52.52
PI 208682^b	L. angustifolius	Africa	3.22	36.70
PI 255472^b	L. angustifolius	Europe	20.47	44.82
PI 274821^a,b	L. angustifolius	Europe	21.00	52.25
PI 274811^a,b	L. angustifolius	Europe	21.00	52.25
PI 274812^b	L. angustifolius	Europe	21.00	52.25
PI 274813^b	L. angustifolius	Europe	21.00	52.25
PI 274814^a,b	L. angustifolius	Europe	21.00	52.25
PI 274815^a,b	L. angustifolius	Europe	21.00	52.25
PI 274817^b	L. angustifolius	Europe	21.00	52.25
PI 274819^a,b	L. angustifolius	Europe	21.00	52.25
PI 274820^b	L. angustifolius	Europe	21.00	52.25
w6 39768^b	L. angustifolius	Europe	13.03	52.52
w6 39769^a,b	L. angustifolius	Europe	13.03	52.52
w6 39771^b	L. angustifolius	Europe	13.03	52.52
w6 39772^a,b	L. angustifolius	Europe	-3.70	40.43
w6 39775^a,b	L. angustifolius	Europe	13.03	52.52
w6 39776^a,b	L. angustifolius	Europe	13.03	52.52
w6 39777^a,b	L. angustifolius	Europe	13.03	52.52
PI 384554^b,c	L. hispanicus	Europe	-9.08	38.70
PI 384555^b	L. hispanicus	Europe	-9.08	38.70
PI 384556^a,b	L. hispanicus	Europe	-9.08	38.70
PI 384558^a,b	L. hispanicus	Europe	-9.08	38.70
PI 384559^b	L. hispanicus	Europe	-9.08	38.70
PI 384560^a,b	L. hispanicus	Europe	-9.08	38.70
PI 384561^a,b	L. hispanicus	Europe	-9.08	38.70
PI 384562^b	L. hispanicus	Europe	-9.08	38.70
PI 168539^a,b,c	L. luteus	Europe	-9.08	38.70
PI 168544^b	L. luteus	Europe	-9.08	38.70
PI 168546^a,b	L. luteus	Europe	-9.08	38.70
PI 189159^b	L. luteus	Europe	4.87	52.35
PI 224493^a,b	L. luteus	Europe	4.87	52.35
PI 289168^a,b	L. luteus	Europe	19.25	47.43
PI 255475^a,b	L. luteus	Europe	20.47	44.82
PI 266298^b	L. luteus	Europe	12.99	55.61
PI 206508^a,c	L. mutabilis	South America	-76.92	-12.10
PI 432332^a	L. mutabilis	South America	-76.92	-2.10
PI 457966^a	L. mutabilis	South America	-71.98	-13.52
PI 457967^a	L. mutabilis	Africa	-6.85	34.03
PI 457972^a	L. mutabilis	South America	-76.92	-12.10
PI 249758^a,b,c	L. pilosus	Europe	24.02	35.51
PI 338647^b	L. pilosus	Africa	-6.85	34.03
PI 491183^b	L. pilosus	Asia	32.90	40.03
PI 602369^b	L. pilosus	Asia	37.81	28.49
PI 602375^a,b	L. pilosus	Asia	35.22	31.78
PI 664108^a,b	L. pilosus	Europe	19.25	47.43
PI 664109^b	L. pilosus	Europe	12.57	55.72
PI 664110^b	L. pilosus	Asia	35.22	31.78
PI 664111^b	L. pilosus	Europe	-9.08	38.70
PI 344687^a,c	L. sericeus	North America	-116.22	43.62
PI 344694^a	L. sericeus	North America	-116.22	43.62
PI 452488^a	L. sericeus	North America	-112.03	46.58
PI 477950^a	L. sericeus	North America	-77.03	38.88
PI 477952^a	L. sericeus	North America	-77.03	38.88

Supplement table 1

Supplement table 2

Characteristics of 95 pairs of polymorphic primers"

引物 Primer	重复单元 Repeat motif	正向引物 Forward sequence (5°-3°)	正向引物 Reverse sequence (5°-3°)	退火温度 T_m(℃)
lup-est6104	(TTG)4	CTCAAGTTTTGGCTTCATGC	CTCAAGTGCATTCATGGAAGT	54
lup-est4304	(TC)6	AGGGGTTTTGAAGAGAAAGG	AGACAGTGATAGCTCAGTGGG	54
lup-est2704	(GA)5	TCAAGCCCTTCACTCAAAAC	CCCCCTTTCTAAAAATCCAA	54
lup-est2313	(TC)4	GTGACAATGGCTCTTCAACC	CCTTGTGCAAAAGTCCAAAT	54
lup-est713	(TAA)4	CAGCCATTAAAGCTTTTGGA	AGAAAACACCAAAAGGGACC	54
lup-est613	(TTG)5	TTCCACCCATCATTGAAATC	GGAGCAACAACTACACATCCA	54
lup-est1313	(TTA)5	GAAAACCACCACCACTTTTG	GGGGGTAGTGCTAAGAAAGG	54
lup-est4458	(CAA)3	CAGAATCACACCCCAATCTC	ATCCCAGGCCATTGACTAAT	54
lup-est5958	(AAC)4	CAACGGGGTCATTGAATTAG	GTTTGTGACGGGTTAAGGTG	54
lup-est3458	(CAC)4	GACGACTCCAATGACACTCC	GATGAGGGTTTCGAAGAGGT	54
lup-est1058	(GGT)4	TTTATCGGGAAGCATGTGTT	ATAGGTGAGCCTGGGACTTC	54
lup-est2558	(CT)9	AGACCCACCAAACAATGAAA	ATCCCGAGGCCAAATCTA	54
lup-est158	(CTT)3	TGGTTGTTGGGTCTAATAGCA	TGAGGAGAACCATCATTCAAG	54
lup-est6558	(ATG)6	TGTTGATGCCAGAAACATTG	GCCTTCCCTTCTCTACAACC	54
lup-est4949	(TGA)5	CTCAATCCCCTAGTGACCCT	GGTAATTCCAAACTTGCCCT	54
lup-est1649	(TC)6	CAATCTTCTTCACTCTACTCCTCA	CAAGTCTGAAATCCTTGCGT	54
lup-est1449	(TTG)6	GGTTTCCATCATAAGCATCC	TCAGCACACTAGCAAGTACCC	54
lup-est5740	(AAT)5	ACATGTGCATGTTGAATTGC	ATTTCGAGGACCAACAATGA	54
lup-est2540	(CAC)4	GAATCATTGAACCGTGATGG	GAAAGGGTTCTCTGCTTCGT	54
lup-est4549	(TTG)4	AACCCCATTTTAAGCAAGGT	CCACTCTTCCTCAGAAAAATCA	54
lup-est2949	(CAA)5	ATCAATGGCACAAGCAATG	AACCAGTAGCAACAAGACCAA	54
lup-est3140	(CTT)4	CATTCAACCAAAACCCATGT	ACACGCAGTTTGAAGAGAGC	54
lup-est2849	(TTC)5	CGATGGTCCATTGATATAGAAG	AGACCTTCCGAAGTGAGACA	54
lup-est1149	(TGT)4	GCAATGTTGAGCTTCCAAAG	CTTTCTTGGTGTTGGAGGAA	54
lup-est4640	(TTG)7	CCTTACCATTGCATCAGTCC	GGTATAACCCCTTTTCAGCC	54
lup-est6031	(AAC)4	AAATCTAAGCCCATGGAACC	CCCTGCTCTTCTCAAAGTCA	54
lup-est840	(ATC)5	CAACTTTTCAACGGGTTCAC	GCAGAAGGGTAAAATACGCA	54
lup-est931	(GAA)4	CAATTTCACCCTCTTCGCTA	CTTTAGCAACATCGAAGGGA	54
lup-est6531	(CCT)4	CAAGGTTTGCTTCGTAGGAG	AGGGAGGAAATTGGATGTGT	54
lup-est1985	(TGC)4	AAGTGATGTCCTGAGCTTGC	GCTCCACAGATGACACAACA	54
lup-est4185	(GTG)5	GCAACAGTCACCTTGCATTA	CCCTTAAACTCCACTTCAACC	54
lup-est3185	(CAA)5	CTCAACCCAACAAAACAACA	GCACTGCAATCAGAAGTGAA	54
lup-est6567	(CTA)5	CCAACTCCAGTCACTGCTCT	GCTCTCAAATGGGGTTGTAG	54
lup-est2567	(TAG)6	AGTGGCCAGGATAGTGTTGA	CAAACTCCACCTCATTGTCC	54
lup-est5667	(GGA)4	CAAGGGTAAGTACCCGATCC	GAGAGATGAGTGAAGCACAGAA	54
lup-est2076	(GGT)3	ATAGTTGCTGTAACTCGGCG	CTGTCCTCCTCCTCCTTCTC	54
lup-est4467	(ACA)4	TGCATTCATGGCTTCACTTA	TTGTGACAACTTGGAGGGAT	54
lup-est976	(GAA)4	GCTTAAGGGAGGAGCAAGAT	GCTTCTTGTGCTGCTCTTTC	54
lup-est1622	(CAC)4	GTACCCCTGATGATGCTGAC	TGGTGGATTGTCTGATGATG	54
lup-est4022	(GAA)4	TCTACTTCCTTCACAAAACGC	CAAAAGGTAACGAAGCTCCA	54
lup-est822	(ATA)4	CATATTCAAGGCTTTGGTGG	TTTGGGGCAAGTAGAAATTG	54
lup-est4522	(ATG)5	AGGTAACGTTGATTCGTGGA	CACCAACAACACCACTACCA	54
lup-est2822	(CCT)4	AGACCAAGAGAGTGGAGGCT	CACTCTCTCAGTAGGAGGCG	54
lup-est6213	(AAG)5	GGCGTGGGTTAAGCTTATGT	ACCCCACCTTCTTCAATCAT	54
lup-est2694	(ATC)6	GGGGCTGCTTCATCTTATTT	CGCCTCAATTCAAGGATATG	54
lup-est1594	(ATC)6	GAATGTTCCAGTTGGTGGAG	ATCATAACCCATTGACCCCT	54
lup-est3894	(TC)6	GAAACCCAACCAATTGTTCA	AACCAACATTCTCCACTTGC	54
lup-est2013	(ATG)4	CTATGGAAGATGCGCAGAAT	CCCACTGAATCTGACTTGCT	54
lup-est6504	(ACC)4	TGCCTTCTATTGTCACATGC	AGATTCTGACTAGCCCCACC	54
lup-est2404	(TGG)4	AAGCACCACCTTCTGTGCTA	TCACTTTGGTTCCACTAGCC	54
lup-est6158	(AAC)4	ACCAAAGAAAACAAAACCCC	GGACGTCCTTGTGCTGTTAC	54
lup-est458	(CGC)4	AGAGAAGAAACCGGAGGAAA	GCATGAACACTTTCAGCACA	54
lup-est4158	(GTT)4	AGAGAGACCAGTGGGAGGAT	AAAACCTGTTCGGCTTCTTT	54
lup-est6049	(TGG)5	CTGGCAGCATGGTTTTTAAG	AAATGGACTTGTCCCAAACC	54
lup-est58	(GA)7	TCCAGCAGATCCGTTAATCT	TCAGATCGCACTCTCTGTGA	54
lup-est2358	(TTG)4	GGTTGATGCAGCAGAAAAGT	ACAACTTGCAAATCCACCAT	54
lup-est5049	(AAC)4	TCAGTTAAATCCAACGCCAC	GGAATTCTGCGAAGGTATCA	54
lup-est5749	(TGC)4	TGTCTCGATGGTTCAGCATA	GCCTTAGATGCCCATCTTCT	54
lup-est6258	(AAT)5	GCTGAAATTGTAGCAGCCAT	TGGACCTTGTTTTTCAATGC	54
lup-est3340	(ATG)7	AAGGTTCAGGACTTGTTGAAGA	ATCAACCTGTGACCCAGAAA	54
lup-est449	(CAG)6	AGCTCCTCCCAATGCTTATT	ATGTTCCAGAGAAATGCCAG	54
lup-est3649	(ACA)4	ACTCAAGTCCAACAATCCCA	CACCTTAAACGTGAGAAAGCA	54
lup-est2340	(CTA)5	AAACCCAGCAAATTCACAAG	TCTGGAACTCCATTCTTTGC	54
lup-est5440	(TAT)4	GGCTTTTCTTCCCATTGTTT	TTTCAGAACAACGTGTCCAA	54
lup-est4349	(AAC)5	AAGAAATGCCCTAGCTGGTT	TCTTGTTGCTCTTCCTTTGG	54
lup-est3549	(CT)6	CATGTGCACTCCGTTTATCA	GACCTTGTTGTGGGTATTGC	54
lup-est249	(ATG)4	ACAGGTCCATGGAAAACAGA	GGTGATGAATTGGGATCTGA	54
lup-est5340	(CCT)5	CGAGAAGCGATCGACATAAT	CGACACAGCAGAAGTTGTGA	54
lup-est4249	(CTT)6	AGCTTTGATTTTTGACTGCG	TCGTAGAAGTGGATACCCCA	54
lup-est2140	(CAA)4	AGGAACAATCTCAAGCCACA	GAGATTATGCTGCCACTGCT	54
lup-est1749	(TGC)3	GCGTAGCTGCTCTCATTTTC	AGCTCCACATTCATCCTCAG	54
lup-est5240	(AAC)3	GCAAACTCATTCCCTTCAAA	CCTCATCAACGACACCTTCT	54
lup-est1640	(TTC)4	TTAGGGCATTGAACCTTTTG	CCACCGTCGTAAGTAACACC	54
lup-est5831	(CTT)5	CACAGACTCAACCTTGGCTT	TACTGGCTCCAGATCAAACC	54
lup-est4131	(GTT)6	CAAGCCCCTTAACAAGTCCT	CTGGCCAGAGCTGGTAAATA	54
lup-est2531	(TC)6	CACGTTGGGTTTCTTTCATT	GAGAGCTTTGCACGTTGATT	54
lup-est2185	(CCA)4	CACTCTTCCAAACGCAAGTT	AGCTTCTTTAGGGTTCGGAG	54
lup-est5985	(GAA)5	CCCCAATCTCAGAAATCAAA	CAAGTCAGCTTGGGAAAGAA	54
lup-est4576	(ATT)6	CCATATAGCTGCTTCCTCCA	AATGCACTTCTCCACCACTC	54
lup-est1085	(CCA)4	AACCTATCTGCTGCTGATGC	AGTTCTGCATGCAATCTGGT	54
lup-est2385	(ATG)4	CATGAAGAAGAAGCCAAGGA	TTCACCACTTTCATCTTCAGC	54
lup-est3067	(TCA)4	CAAAGATGCTCATCAAGAAGC	TAGGGGTTGTTCTTTGTCCA	54
lup-est2267	(GTT)5	AGCCAAGTAGGTGCTGTTTG	TCACCACCTCTCTCAAAACC	54
lup-est3576	(CAC)4	CTGGGAATTGAGGTTTGTTG	ACTGAAGACGGTGCTGATTC	54
lup-est5967	(AAC)4	AAATCACAATCACCACAGCA	TGCATTAGGGAGAAAGTTGG	54
lup-est922	(TTC)4	AGTAGGGTGGAGATGGAAGG	GCTTCTCCATGCTCTCTTCA	54
lup-est5622	(ACC)5	TGCTCCACTTTGTTCTTTCC	TTGGCTATGGCAGTTTGAAT	54
lup-est6513	(CAA)5	ACCCTTCACAGACATCTCCA	TAAGAGACAACATTGGGGGA	54
lup-est4113	(TGG)5	GGTGTTGTTGGAGAGAAGGA	TGGTTTTGTTGGCTGAGATT	54
lup-est5513	(ACT)4	AATTCACACGTGGAGGATTC	GAGGATCCAAGTTTTGTGGA	54
lup-est4322	(TCT)4	CTGTGCTGGACTTGGTATCC	CTTTGCATATTGGTTTGCCT	54
lup-est3494	(CTT)6	TAGCACTGGTTTTCATTGCC	CCTGGTGAACCTGATTGAAG	54
lup-est3994	(ACT)4	GGAAACTCCACAAAACCCTT	TGTGATACACTGGAATCCCC	54
lup-est2194	(AAT)6	GTGATCAAGATGTGGCAGTG	GTTTGTTGTTGGTGCAATGA	54
lup-est164	(CAA)3	AACAAGATTTGGGAGGTTCC	CCATCCGGAAGACATATTCA	54

Supplement table 2

References 31

[1]	郑卓杰 . 中国食用豆类学. 北京: 中国农业出版社, 1997. pp 352-353.
	Zheng Z J. Food Legumes in China. Beijing: China Agriculture Press, 1997. pp 352-353(in Chinese).
[2]	Eastwood R J, Drummond C S, Schifino-Wittmann M T, Hughes C E. Diversity and evolutionary history of lupins-insights from new phylogenies. In: Palta J A, Berger J B, eds. Proceedings of the 12th international lupin conference. Western Australia: Fremantle, 2008. pp 346-354.
[3]	Wolko B, Clements J C, Naganowska B, Nelson M N, Yang H A. Lupinus. In: Kole C, eds. Wild crop relatives: genomic and breeding resources, legume crops and forages. Berlin: Springer-Verlag, 2011. pp 153-206.
[4]	Gladstones J S . Lupins as crop plants. Field Crop Abstracts, 1970,23:123-148.
[5]	Wolko B, Weeden N F . Isozyme number as an indicator of phylogeny in Lupinus. Genetica Polonica, 1990,31:179-187.
[6]	Aïnouche A, Bayer R J . Phylogenetic relationships in Lupinus(Fabaceae: Papilionoideae) based on internal transcribed spacer sequences (ITS) of nuclear ribosomal DNA. Am J Bot, 1999,86:590-607.
[7]	Aïnouche A, Bayer R J, Misset M T . Molecular phylogeny, diversification and character evolution in Lupinus(Fabaceae) with special attention to Mediterranean and African lupines. Plant Syst Evol, 2004,246:211-222.
[8]	Käss E, Wink M . Molecular phylogeny and phylogeography of Lupinus(Leguminosae) inferred from nucleotide sequences of the rbcL gene and ITS1 + 2 regions of rDNA. Plant Syst Evol, 1997,208:139-167.
[9]	Talhinhas P, Neves-Martins J, Leitao J . AFLP, ISSR and RAPD markers reveal high levels of genetic diversity among Lupinus spp. Plant Breed, 2010,122:507-510.
[10]	Sbabou L, Brhada F, Alami I T, Maltouf A F . Genetic diversity of Moroccan Lupinus germplasm investigated using ISSR and AFLP markers. Int J Agric Biol, 2010,12:26-32.
[11]	Atnaf M, Yao N, Martina K, Dagne K, Wegary D, Tesfaye K . Molecular genetic diversity and population structure of Ethiopian white lupin landraces: Implications for breeding and conservation. PLoS One, 2017,12:e0188696.
[12]	Drummond C S, Eastwood R J, Hughes M C E. Multiple continental radiations and correlates of diversification in Lupinus(Leguminosae): testing for key innovation with incomplete taxon sampling. Syst Biol, 2012,61:443-460.
[13]	Nevado B, Atchison G W, Hughes C E, Filatov D A . Widespread adaptive evolution during repeated evolutionary radiations in New World lupins. Nat Commun, 2016,7:12384.
[14]	Arenascastro S, Fernándezhaeger J, Jordanobarbudo D . A method for tree-ring analysis using Diva-Gis freeware on scanned core images. Tree-Ring Res, 2015,71:118-129.
[15]	Doyle J J, Doyle J L . A rapid total DNA preparation procedure for fresh plant tissue. Focus, 1990,12:13-15.
[16]	Verhoeven K J F, Jansen J J, Biere D A . Stress-induced DNA methylation changes and their heritability in asexual dandelions. New Phytol, 2010,185:1108-1118.
[17]	da Maia L C, Palmieri D A, de Souza V Q, Kopp M M, de Carvalho F I F, de Oliveira A C . SSR locator: tool for simple sequence repeat discovery integrated with primer design and PCR simulation. Int J Plant Genomics, 2008,2008:412696.
[18]	Liu K, Muse S V . PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics, 2005,21:2128-2129.
[19]	Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S . MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol, 2011,28:2731-2739.
[20]	Yeh F C, Boyle T J . Population genetic analysis of co-dominant and dominant markers and quantitative traits. Belg J Bot, 1997,129:157.
[21]	Falush D, Stephens M, Pritchard J K . Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics, 2003,164:1567-1587.
[22]	Peakall R, Smouse P E . GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research: an update. Bioinformatics, 2012,28:2537-2539.
[23]	Mahé F, Markova D, Pasquet R, Misset M-T, Aïnouche A . Isolation, phylogeny and evolution of the SymRK gene in the legume genus Lupinus L. Mol Phylogenetics Evol, 2011,60:49-61.
[24]	Cristofolini G . A serological contribution to the systematics of the genus Lupinus(Fabaceae). Plant Syst Evol, 1989,166:265-278.
[25]	Gladstones J S. Present situation and potential of Mediterranean/African lupins for crop rotation. In: Proceedings of the 3rd international lupin conference. La Rochelle, France, 1984. pp 18-37.
[26]	Gladstones J S . Lupins of the Mediterranean region and Africa. South Perth, Australia: Tech Bull, 1974. pp 1-48.
[27]	Gupta S, Buirchell B J, Cowling W A . Interspecific reproductive barriers and genomic similarity among the rough-seeded Lupinus species. Plant Breed, 1996,115:123-127.
[28]	Gladstones J S. Distribution, origin, taxonomy, history and importance. In: Gladstones J S, Atkins C, Hamblin J, eds. Lupins as Crop Plants: Biology, Production and Utilization. Wallingford, United Kingdom: CAB International, 1998. pp 1-39.
[29]	Ghrabi G Z, Puech S, Zouaghi M . Flow cytometry DNA assay of Mediterranean lupins. Candollea, 1999,54:45-56.
[30]	Talhinas P, Sreenivasprased S, Neves-Martins J, Oliveira H . Genetic and morphological characterization of Colletotrichum acutatum causing anthracnose of lupins. Phytopathology, 2003,92:986-996.
[31]	Święcickii W K, Święcicki W, Nijaki T . Lupinus × hispanicoluteus: an interspecific hybrid of Old World lupins. Acta Soc Bot Pol, 1999,68:217-220.

Metrics

Viewed

Full text

Abstract

Cited

Shared

Discussed

Comments

Recommended 0

No Suggested Reading articles found!

物种名称 Species ID	L. atlanticus	L. cosentinii (沙质平原羽扇豆)	L. albus (白羽扇豆)	L. angustifolius (窄叶羽扇豆)	L. hispanicus	L. luteus (黄羽扇豆)	L. pilosus
L. atlanticus		0.663	0.235	0.167	0.187	0.197	0.561
L. cosentinii (沙质平原羽扇豆)	0.411		0.199	0.158	0.187	0.167	0.556
L. albus (白羽扇豆)	1.45	1.613		0.244	0.205	0.263	0.254
L. angustifolius (窄叶羽扇豆)	1.789	1.845	1.412		0.196	0.254	0.223
L. hispanicus	1.676	1.679	1.586	1.628		0.487	0.213
L. luteus (黄羽扇豆)	1.625	1.792	1.336	1.372	0.719		0.218
L. pilosus	0.578	0.586	1.369	1.502	1.547	1.524

变异来源 Source	自由度 df	方差 SS	均方差 MS	Est. Var.	%	P-value
组群内Within pops	6	6584.338	1097.39	108.0748	80.00	0.01
组群间Among pops	70	1852.636	26.466	26.466	20.00	0.01

物种名称 Species ID	L. atlanticus	L. cosentinii (沙质平原羽扇豆)	L. albus (白羽扇豆)	L. angustifolius (窄叶羽扇豆)	L. hispanicus	L. luteus (黄羽扇豆)	L. pilosus
L. atlanticus	0
L. cosentinii (沙质平原羽扇豆)	0.475	0
L. albus (白羽扇豆)	0.617	0.661	0
L. angustifolius (窄叶羽扇豆)	0.614	0.639	0.546	0
L. hispanicus	0.688	0.714	0.636	0.602	0
L. luteus (黄羽扇豆)	0.707	0.743	0.635	0.597	0.573	0
L. pilosus	0.320	0.341	0.470	0.476	0.535	0.531	0

Assessment of genetic diversity by using EST-SSR markers in Lupinus

RichHTML365

PDF

Abstract

Cite this article

share this article

Figures/Tables 11

References 31

Related Articles 15

Metrics

Comments

Recommended 0

[1]	XIAO Ying-Ni, YU Yong-Tao, XIE Li-Hua, QI Xi-Tao, LI Chun-Yan, WEN Tian-Xiang, LI Gao-Ke, HU Jian-Guang. Genetic diversity analysis of Chinese fresh corn hybrids using SNP Chips [J]. Acta Agronomica Sinica, 2022, 48(6): 1301-1311.
[2]	LI Ling-Hong, ZHANG Zhe, CHEN Yong-Ming, YOU Ming-Shan, NI Zhong-Fu, XING Jie-Wen. Transcriptome profiling of glossy1 mutant with glossy glume in common wheat (Triticum aestivum L.) [J]. Acta Agronomica Sinica, 2022, 48(1): 48-62.
[3]	WANG Ying, GAO Fang, LIU Zhao-Xin, ZHAO Ji-Hao, LAI Hua-Jiang, PAN Xiao-Yi, BI Chen, LI Xiang-Dong, YANG Dong-Qing. Identification of gene co-expression modules of peanut main stem growth by WGCNA [J]. Acta Agronomica Sinica, 2021, 47(9): 1639-1653.
[4]	CAO Liang, DU Xin, YU Gao-Bo, JIN Xi-Jun, ZHANG Ming-Cong, REN Chun-Yuan, WANG Meng-Xue, ZHANG Yu-Xian. Regulation of carbon and nitrogen metabolism in leaf of soybean cultivar Suinong 26 at seed-filling stage under drought stress by exogenous melatonin [J]. Acta Agronomica Sinica, 2021, 47(9): 1779-1790.
[5]	WANG Yan-Yan, WANG Jun, LIU Guo-Xiang, ZHONG Qiu, ZHANG Hua-Shu, LUO Zheng-Zhen, CHEN Zhi-Hua, DAI Pei-Gang, TONG Ying, LI Yuan, JIANG Xun, ZHANG Xing-Wei, YANG Ai-Guo. Construction of SSR fingerprint database and genetic diversity analysis of cigar germplasm resources [J]. Acta Agronomica Sinica, 2021, 47(7): 1259-1274.
[6]	HUANG Wen-Gong, JIANG Wei-Dong, YAO Yu-Bo, SONG Xi-Xia, LIU Yan, CHEN Si, ZHAO Dong-Sheng, WU Guang-Wen, YUAN Hong-Mei, REN Chuan-Ying, SUN Zhong-Yi, WU Jian-Zhong, KANG Qing-Hua. Transcriptome profiling of flax (Linum usttatissimum L.) response to low potassium stress [J]. Acta Agronomica Sinica, 2021, 47(6): 1070-1081.
[7]	MA Gui-Fang, MAN Xia-Xia, ZHANG Yi-Juan, GAO Hao, SUN Zhao-Xia, LI Hong-Ying, HAN Yuan-Huai, HOU Si-Yu. Integrated analysis between folate metabolites profiles and transcriptome of panicle in foxtail millet [J]. Acta Agronomica Sinica, 2021, 47(5): 837-846.
[8]	LI Peng-Cheng, BI Zhen-Zhen, SUN Chao, QIN Tian-Yuan, LIANG Wen-Jun, WANG Yi-Hao, XU De-Rong, LIU Yu-Hui, ZHANG Jun-Lian, BAI Jiang-Ping. Key genes mining of DNA methylation involved in regulating drought stress response in potato [J]. Acta Agronomica Sinica, 2021, 47(4): 599-612.
[9]	WANG Rui-Li, WANG Liu-Yan, LEI Wei, WU Jia-Yi, SHI Hong-Song, LI Chen-Yang, TANG Zhang-Lin, LI Jia-Na, ZHOU Qing-Yuan, CUI Cui. Screening candidate genes related to aluminum toxicity stress at germination stage via RNA-seq and QTL mapping in Brassica napus L. [J]. Acta Agronomica Sinica, 2021, 47(12): 2407-2422.
[10]	ZHANG Huan, LUO Huai-Yong, LI Wei-Tao, GUO Jian-Bin, CHEN Wei-Gang, ZHOU Xiao-Jing, HUANG Li, LIU Nian, YAN Li-Ying, LEI Yong, LIAO Bo-Shou, JIANG Hui-Fang. Genome-wide identification of peanut resistance genes and their response to Ralstonia solanacearum infection [J]. Acta Agronomica Sinica, 2021, 47(12): 2314-2323.
[11]	LIU Shao-Rong, YANG Yang, TIAN Hong-Li, YI Hong-Mei, WANG Lu, KANG Ding-Ming, FANG Ya-Ming, REN Jie, JIANG Bin, GE Jian-Rong, CHENG Guang-Lei, WANG Feng-Ge. Genetic diversity analysis of silage corn varieties based on agronomic and quality traits and SSR markers [J]. Acta Agronomica Sinica, 2021, 47(12): 2362-2370.
[12]	SUN Qian, ZOU Mei-Ling, ZHANG Chen-Ji, JIANG Si-Rong, Eder Jorge de Oliveira, ZHANG Sheng-Kui, XIA Zhi-Qiang, WANG Wen-Quan, LI You-Zhi. Genetic diversity and population structure analysis by SNP and InDel markers of cassava in Brazil [J]. Acta Agronomica Sinica, 2021, 47(1): 42-49.
[13]	QIN Tian-Yuan, SUN Chao, BI Zhen-Zhen, LIANG Wen-Jun, LI Peng-Cheng, ZHANG Jun-Lian, BAI Jiang-Ping. Identification of drought-related co-expression modules and hub genes in potato roots based on WGCNA [J]. Acta Agronomica Sinica, 2020, 46(7): 1033-1051.
[14]	TAO Ai-Fen,YOU Zi-Yi,XU Jian-Tang,LIN Li-Hui,ZHANG Li-Wu,QI Jian-Min,FANG Ping-Ping. Development and verification of CAPS markers based on SNPs from transcriptome of jute (Corchorus L.) [J]. Acta Agronomica Sinica, 2020, 46(7): 987-996.
[15]	Meng-Liang ZHAO,Li-Hui WANG,Yan-Jing REN,Xue-Mei SUN,Zhi-Qiang HOU,Shi-Peng YANG,Li LI,Qi-Wen ZHONG. Genetic diversity of phenotypic traits in 257 Jerusalem artichoke accessions [J]. Acta Agronomica Sinica, 2020, 46(5): 712-724.