Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers

doi:10.1016/S1671-2927(00)8575

Journal of Integrative Agriculture ›› 2012, Vol. 12 ›› Issue (4): 556-566.DOI: 10.1016/S1671-2927(00)8575

Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers

LI Wei, ZHI Hui, WANG Yong-fang, LI Hai-quan , DIAO Xian-min

1.National Millet Improvement Center/Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang 050031, P.R.China
2.National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI)/Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, P.R.China

收稿日期:2011-01-18 出版日期:2012-04-01 发布日期:2012-04-11
通讯作者: Correspondence DIAO Xian-min, Tel/Fax: +86-10-62126889, E-mail: xmdiao@yahoo.com.cn
基金资助:
This work was funded by the National Natural Science Foundation of China (31171560 and 30630045), the China Agricultural Research System, the Key Technologies R&D Program of China during the 11th Five-Year Plan period (2006BAD02B02), the Natural Science Foundation of Hebei Province, China (C2004000697 and C2008001172).

Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers

LI Wei, ZHI Hui, WANG Yong-fang, LI Hai-quan , DIAO Xian-min

1.National Millet Improvement Center/Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang 050031, P.R.China
2.National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI)/Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, P.R.China

Received:2011-01-18 Online:2012-04-01 Published:2012-04-11
Contact: Correspondence DIAO Xian-min, Tel/Fax: +86-10-62126889, E-mail: xmdiao@yahoo.com.cn
Supported by:
This work was funded by the National Natural Science Foundation of China (31171560 and 30630045), the China Agricultural Research System, the Key Technologies R&D Program of China during the 11th Five-Year Plan period (2006BAD02B02), the Natural Science Foundation of Hebei Province, China (C2004000697 and C2008001172).

摘要/Abstract

摘要： Inter simple sequence repeat (ISSR) analysis was applied to samples of foxtail millet and its wild ancestor and other close relatives of the genus Setaria in order to detect domestication-related geographical structure and phylogenetic relationship of those species. Eighty-one accessions of nine Setaria species that originated from different regions were used in this study. Fourteen out of the 27 ISSR primers screened amplified successfully and a total of 156 markers were scored for all the accessions, with a high level of polymorphism being detected. The dendrogram based on UPGMA cluster analysis showed clear geographic structure among foxtail millet and its wild ancestor green foxtail, which implies that northern China is the domestication center for both the Chinese and European foxtail millet landraces used in this study. This result did not support the hypothesis that China and Europe are independent domestication centers for foxtail millet proposed by several previous studies based on morphological and isozyme data. The dendrogram also clearly classified the Setaria sample used into two groups, a viridis and a pumila groups. The viridis group was composed of S. viridis, S. italica, S. faberii, S. verticillata, S. leucopila, and S. queenslandica, and the pumila group consisted of S. parviflora and S. pumila, which is consistent with the recently proposed hypothesis of multiple origin of Setaria species. The phylogenetic relationships among different species are discussed.

关键词: Setaria, foxtail millet, ISSR, domestication, phylogenetic relationship

Abstract: Inter simple sequence repeat (ISSR) analysis was applied to samples of foxtail millet and its wild ancestor and other close relatives of the genus Setaria in order to detect domestication-related geographical structure and phylogenetic relationship of those species. Eighty-one accessions of nine Setaria species that originated from different regions were used in this study. Fourteen out of the 27 ISSR primers screened amplified successfully and a total of 156 markers were scored for all the accessions, with a high level of polymorphism being detected. The dendrogram based on UPGMA cluster analysis showed clear geographic structure among foxtail millet and its wild ancestor green foxtail, which implies that northern China is the domestication center for both the Chinese and European foxtail millet landraces used in this study. This result did not support the hypothesis that China and Europe are independent domestication centers for foxtail millet proposed by several previous studies based on morphological and isozyme data. The dendrogram also clearly classified the Setaria sample used into two groups, a viridis and a pumila groups. The viridis group was composed of S. viridis, S. italica, S. faberii, S. verticillata, S. leucopila, and S. queenslandica, and the pumila group consisted of S. parviflora and S. pumila, which is consistent with the recently proposed hypothesis of multiple origin of Setaria species. The phylogenetic relationships among different species are discussed.

Key words: Setaria, foxtail millet, ISSR, domestication, phylogenetic relationship

LI Wei, ZHI Hui, WANG Yong-fang, LI Hai-quan , DIAO Xian-min. Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers[J]. Journal of Integrative Agriculture, 2012, 12(4): 556-566.

参考文献

[1]Ahanchede A, Poirier-Hamon S, Darmency H. 2004. Why no tetraploid cultivar of foxtail millet? Genetic Resources and Crop Evolution, 51, 227-230. Austin D F. 2006. Fox-tail millets (Setaria: Poaceae) -Abandoned food in two hemispheres. Economic Botany, 60, 143-158.

[2]Benabdelmouna A, Abirached-Darmency M, Darmency H. 2001a. Phylogenetic and genomic relationships in Setaria italica and its close relatives based on the molecular diversity and chromosomal organization of 5S and 18S-5.8S-25S rDNA genes. Theoretical and Applied Genetics, 103, 668-677.

[3]Benabdelmouna A, Shi Y, Abirached-Darmency M, Darmency H. 2001b. Genomic in situ hybridization (GISH) discriminates between the A and the B genomes in diploid and tetraploid Setaria species. Genome, 44, 685-690.

[4]Blair M W, Panaud O, Mccouch S R. 1999. Inter-simple sequence repeat (ISSR) amplification for analysis of microsatellite motif frequency and fingerprinting in rice (Oryza sativa L.). Theoretical and Applied Genetics, 98, 780-792.

[5]Brantestam A K, Bothmer R V, Bayteg C, Rashal I, Tuvesson S, Weibull J. 2004. Inter simple sequence repeat analysis of genetic diversity and relationships in cultivated barley of Nordic and Baltic origin. Hereditas, 141, 186-192.

[6]Crouillebois M L, Barreneche M T, de Cherisey H, Pernes J. 1988. Intraspecific differentiation of Setaria italica (L.) PB: study of abnormalities (weakness, segregation distortion, and partial sterility) observed in F1 and F2 generations. Genome, 32, 203-207.

[7]Dekker J. 2003. Evolutionary biology of the foxtail (Setaria) species-group. In: Inderjit K, ed., Principles and Practices in Weed Management: Weed Biology and Management. Kluwer Academic Publishers, The Netherlands. pp. 65-114.

[8]Dellaporta S L, Wood J, Hick J B. 1983. A plant DNA minipreparation: version II. Plant Molecular Biology Reporter, 1, 19-21.

[9]Domeniuk V P, Verbitskaia T G, Belousov A A, Sivolap I M. 2002. Marker analysis of quantitative traits in maize by ISSR-PCR. Genetika, 38, 1370-1378.

[10]Doust A N, Kellogg E A. 2002. Inflorescence diversification in the panicoid “bristle grass” clade (paniceae, poaceae): evidence from molecular phylogenies and developmental morphology. American Journal of Botany, 89, 1203-1222.

[11]Doust A N, Penly A M, Jacobs S W L, Kellogg E A. 2007. Congruence, conflict and polyploidization shown by nuclear and chloroplast markers in the monophyletic “bristle clade” (Paniceae, Panicoideae, Poaceae). Systematic Botany, 32, 531-544.

[12]Fukunaga K, Ichitani K, Kawase M. 2006. Phylogenetic analysis of the rDNA intergenic spacer subrepeats and its implication for the domesticated history of foxtail millet, Setaria italica. Theoretical and Applied Genetics, 113, 261-269.

[13]Fukunaga K, Wang Z M, Kato K, Kawase M. 2002a. Geographical variation of nuclear genome RFLPs and genetic diferentiation in foxtail millet, Setaria italica (L.) P. Beauv. Genetic Resources and Crop Evolution, 49, 95-101.

[14]Fukunaga K, Kawase M, Kato K. 2002b. Structural variation in the Waxy gene and differentiation in foxtail millet [Setaria italica (L.) P. Beauv.]: implications for multiple origins of the waxy phenotype. Molecular Genetics and Genomics, 268, 214-222.

[15]Harlan J R. 1975. Crops and Man. America Society of Agronomy, America, Madison. Harlan J R, de Wet J M J. 1971. Towards a rational classification of cultivated plants. Taxon, 20, 509-517.

[16]Joshi S P, Gupta V S, Aggrwal R K, Ranjekar P K, Brar D S. 2000. Genetic diversity and phylogenetic relationship as revealed by inter simple sequence repeat (ISSR) polymorphism in genus Oryza. Theoretical and Applied Genetics, 100, 1311-1320.

[17]Jusuf M, Pernès J. 1985. Genetic variability of foxtail millet (Setaria italica P. Beauv). Theoretical and Applied Genetics, 71, 385-391.

[18]Kawase M, Sakamoto S. 1984. Variation, geographical distribution and genetic analysis of esterase isozymes in foxtail millet, Setaria italica (L.) Beauv. Theoretical and Applied Genetics, 67, 529-533.

[19]Kellogg E A, Aliscioni S S, Morrone O, Pensiero J, Zuloaga F. 2009. A phylogeny of Setaria (Poaceae, Panicoideae, Paniceae) and related genera, based on the chloroplast gene ndhF. International Journal of Plant Sciences, 170, 117-131.

[20]Kihara H, Kishimoto E. 1942. Bastarde zwischen Setaria italica und S. viridis. The Botanical Magazine TOKYO, 56, 62-67.

[21](in Japanese) Kumar S, Gadagkar S R. 2000. Efficiency of the neighborjoining method in reconstructing deep and shallow evolutionary relationships in large phylogenies. Journal of Molecular Evolution, 51, 544-543.

[22]Li C H, Pao W K, Li H W. 1942. Interspecific crosses in Setaria. II. Cytological studies of interspecific hybrids involving 1, S. faberii and S. italica, and 2, a three way cross, F2 of S. italica, S. viridis and S. faberii. The Journal of Heredity, 33, 351-355.

[23]Li H W, Li C H, Pao W K. 1945. Cytological and genetical studies of the interspecific cross of the cultivated foxtail millet, Setaria italica (L.) Beauv. and the green foxtail millet, S. viridis L. America Society of Agronomy, 37, 32-54.

[24]Li Y, Jia J Z, Wang Y R, Wu S Z. 1998. Intraspecific and interspecific variation in setaria revealed by RAPD analysis. Genetic Resources and Crop Evolution, 45, 279-285.

[25]Li Y, Wu S, Cao Y. 1995. Cluster analysis of an international collection of foxtail millet [Setaria italica (L.) P. Beauv]. Euphytica, 83, 79-85.

[26]Mihaescu R, Levy D, Pachter L. 2007. Why neighbor-joining works. Algorithmica, 54, 1-24.

[27]Nakayama H, Namai H, Okuno K. 1999. Genes controlling prolamin biosynthesis, Pro1 and Pro2, in foxtail millet, Setaria italica (L.) Beauv. Genes & Genetic Systems, 74, 93-97.

[28]Panaud O. 2006. Foxtail millet. In: Kole C, ed., Genome Mapping and Molecular Breeding in Plants. vol. 1, Cereals and Millets. Springer-Verlag Berlin Heidelberg, France. pp. 325-332.

[29]Rohlf F J. 1998. NTSYS-pc 2.0 Numerical Taxonomy and Multivariate Analysis System. Exeter Software, New York. Rominger J M. 1962. Taxonomy of Setaria (Gramineae) in North America. Illinois Biological Monographs No. 29. University of Illinois Press, Urbana, Illinois, USA. Schontz D, Rether B. 1998. Genetic variability in foxtail millet, Setaria italica (L.) P. Beauv. -RFLP using a heterologous probe. Plant Breeding, 117, 231-234.

[30]Schontz D, Rether B. 1999. Genetic variability in foxtail millet, Setaria italica (L.) P. Beauv.: identification and classification of lines with RAPD markers. Plant Breeding, 118, 190-192.

[31]Sokal R R, Michener C D. 1958. A statistic method for evaluating systematic relationship. The University of Kansas Science Bulletin, 28, 1409-1438.

[32]le Thierry d’Ennequin M, Penaud O, Toupance B, Sarr A. 2000. Assessment of genetic relationships between Setaria italica and its wild relative S. viridis using AFLP marker. Theoretical and Applied Genetics, 100, 1061-1066.

[33]Till-Bottraud I, Reboud X, Brabant P, Lefranc M, Rherissi B, Vedel E, Darmency H. 1992. Outcrossing and hybridization in wild and cultivated foxtail millets. Theoretical and Applied Genetics, 83, 940-946.

[34]Vavilov N I. 1926. Studies on the origin of cultivated plants. Bulletin of Applied Botany, 16, 1-248.

[35]Wang R L, Wendel J F, Dekker J H. 1995a. Weedy adaptation in Setaria ssp. I. Isozyme analysis of genetic diversity and population genetic structure in Setaria viridis. American Journal of Botany, 82, 308-317.

[36]Wang R L, Wendel J F, Dekker J H. 1995b. Weedy adaptation in Setaria ssp. II. Genetic diversity and population genetic structure in S. glauca, S. geniculata, and S. faberii (Poaceae). American Journal of Botany, 82, 1031-1039.

[37]Wang Y Q, Zhi H, Li W, Li H Q, Wang Y F, Diao X M. 2007. Chromosome number identification of some wild Setaria species. Journal of Plant Genetic Resources, 8, 159-164.

[38]Wang Y Q, Zhi H, Li W, Li H Q, Wang Y F, Huang Z J, Diao X M. 2009. A novel genome of C and the first autotetraploid species in the Setaria genus identified by genomic in situ hybridization. Genetic Resources and Crops Evolution, 56, 843-850.

[39]Wanous M K. 1990, Origin, taxonomy and ploidy level of foxtail millet and minor cereals. Plant Varieties and Seeds, 3, 99-112.

[40]de Wet J M J, OestryStidd L L, Cubero J I. 1979. Origins and evolution of foxtail millet. Journal d’Agriculture Tropicale et de Botanique Appliquée, 26, 54-64.

[41]Wu Q M, Bai J L. 2000. Cytogenetic and isoenzymic studies on Setaria millet and S. verticillata (2X) and S. verticiformis (4X). Acta Botanica Boreali-Occidentalia Sinica, 20, 954-959.

[42]Zietkiewicz E, Rafalski A, Labuda D. 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics, 20, 176-183.

Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers

Assessment of Genetic Relationship of Foxtail Millet with Its Wild Ancestor and Close Relatives by ISSR Markers

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