Welcome to Acta Agronomica Sinica,

Acta Agron Sin ›› 2010, Vol. 36 ›› Issue (09): 1585-1595.doi: 10.3724/SP.J.1006.2010.01585

• RESEARCH ACTIVITIES • Previous Articles     Next Articles

Classification and Evolution Analysis for Vigna Subgenus Ceratotropis Based on SSR Markers and ITS Sequences

MA Yan-Ling,CHENG Xu-Zhen*,WANG Li-Xia,WANG Su-Hua,ZHAO Dan   

  1. Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
  • Received:2010-03-16 Revised:2010-04-23 Online:2010-09-12 Published:2010-07-05
  • Contact: CHENG Xu-Zhen,E-mail:chengxz@caas.net.cn; Tel: 010-62189159

Abstract: Ninety-three materials in subgenus Ceratotropis, two landraces ofsubgenus Vigna and one accession of Glycine soja from various regions of China were analyzed by using simple sequence repeat (SSR) makers and sequencing nrDNA internal transcribed spacer (ITS) for the genetic evaluation. Twenty-sevenspecific SSR primers were selected by screening 74 azuki bean primers and 14 blackgram primers that distributed in 11 linkage groups and five mungbean primers in linkage group 9 with the average polymorphic information content (PIC) value 0.4914. In UPGMA cluster analysis, 95 materials excluding HAI_103 (G. soja) were divided into Group I (including section Ceratotropis and three “transitional” materials) and Group II (section Angulares). And the transferability of 23 primers from azuki bean reached 88%. As for ITS analysis, Kimura-2-parameter distance was calculated based on ITS sequences of 28 representing materials. The shortest distance was found between V. minima and V. umbellata with 0–0.005 and V. radiata was the most intra-specific divergent. Phylogenetic trees constructed by maximum parsimony (MP) and neighbor-joining (NJ) methods with MEGA 4.0 showed that 28 materials were divided into three groups. This result was consistent with the classification results by phenotypes and SSR makers. Therefore, it is anticipated that more information for classification of subgenus Ceratotropis can be provided by these two molecular methods and also a system for evaluation combined by morphological characteristics can be established.

Key words: Subgenus Ceratotropis, Classification,SSR markers, ITS sequences, Evolution

[1] Marechal R, Mascherpa J M, Stainier F. Etude taxonomique dun groupe complexe despeces des genres Phaseolus et Vigna (Pap ilionaceae) sur la base de donneesmorphologiques et polliniques, traitees par lanalyse informatique. Boissiera, 1978, 28: 1-237
[2] Baudoin J P, Marechal R. Taxonomy and evolution of the genus Vigna. In: Shanmugasundaram S, McLean B T, eds. Proceedings of the Second International Mungbean Symposium. Asian Vegetable Research and Development Center, Shanhua, Tainan, 1988. pp 2-12
[3] Tomooka N, Vaughan D A, Moss H. The Asian Vigna: Genus Vigna Subgenus Ceratotropis Genetic Resources. London: Kluwer Academic Publishers, 2002. pp 92-184
[4] Tomooka N, Egawa Y, Kaga A. Biosystematics and genetic resources of the genus Vigna subgenus Ceratotropis. In: 7thMAFF International Workshop on Genetic Resources, Wild Legumes. Tsukuba, Japan, 2000. pp 37-62
[5] Dong Y-C(董玉琛), Liu X(刘旭). Chinese Crops and Wild Relatives: Volume of Crops (中国作物及其野生近缘植物: 粮食作物卷). Beijing: China Agriculture Press, 2007. pp 412-426 (in Chinese)
[6] Tomooka N, Kaga A, Isemura T, Vaughan. Vigna genetic resources. In: 14th MAFF International Workshop on Genetic Resources. Tsukuba, Japan, 2009
[7] Maekawa F. Topo-morphological and taxonomical studies in Phaseoleae, Leguminosae. Jpn J Bot, 1955, 15: 103-116
[8] Egawa Y, Nakagahra M, Fernandez G C J. Cytogenetical analysis of tetraploid Vigna glabrescens by interspecific hybridization involving diploid Asian Vigna species. In: Proceedings of the Second International Mungbean Symposium, 1988. pp 200-204
[9] Chen N C, Baker L R, Honma S. Interspecific crossability among four species of Vigna food legumes
[10] Tomooka N, Yoon M S, Doi K, Kaga A, Vaughan D. AFLP analysis of diploid species in the genus Vigna subgenus Ceratotropis
[J].Genet Resour Crop Evol
[11] Doi K, Kaga A, Tomooka N, Vaughan D. Molecular phylogeny of genus Vigna subgenus Ceratotropis based on rDNA ITS and atpB-rbcL intergenic spacer of cpDNA sequences
[12] Dixit A, Ma K H, Yu J W, Cho E G, ParkY J. Reverse transcriptase domain sequences from mungbean (Vigna radiata) LTR retrotransposons: sequence characterization and phylogenetic analysis
[J].Plant Cell Rep
[13] Saini A, Jawali N. Molecular evolution of 5S rDNA region in Vigna subgenus Ceratotropis and its phylogenetic implications. Plant Syst Evol, 2009, 280: 187–206
[14] He H-H(贺浩华), Luo X-J(罗小金), Zhu C-L(朱昌兰), He X-P(贺晓鹏), Fu J-R(傅军如), Sun J-L(孙俊立), Zhang H-L(张洪亮), Li Z-C(李自超). Classification for some sterile lines and their restorers of hybrid rice with SSR Markers. Acta Agron Sin (作物学报), 2006, 32(2): 169-175 (in Chinese with English abstract)
[15] Wu X-L(吴晓雷), He C-Y(贺超英), Chen S-Y(陈受宜). Genetic diversity and evolution relationships of genus Glycine. Prog Nat Sci (自然科学进展), 2001, 11(7): 689-698 (in Chinese)
[16] Dikshit H K, Jhang T, Singh N K. Genetic differentiation of Vigna species by RAPD, URP and SSR markers
[J].Biol Plant
[17] Li X-Y(李学营), Peng J-Y(彭建营), Bai R-X(白瑞霞). Use of ITS sequence on nuclear rDNA for phylogenetic research of seed plants. Acta Bot Boreali-Occident Sin 西北植物学报), 2005, 25(4): 829-834 (in Chinese with English abstract)(
[18] Goel S, Raina S N, Ogihara Y. Molecular evolution and Phylogenetic implications of internal transcribed spacer sequences of nuclear ribosomal DNA in the Phaseolus-Vigna complex. Mol Phylogenet Evol, 2002, 22: 12-19
[19] Liang H-W(梁宏伟), Wang C-Z(王长忠), Li Z(李忠), Luo X-Z(罗相忠), Zou G-W(邹桂伟). Improvement of the silver-stained technique of polyacrylamide gel Electrophoresis. Hereditas (遗传), 2008, 30(10): 1379-1382 (in Chinese with English abstract)
[20] Saini A, Reddy S K, Jawali N. Intra-individual and intra-species heterogeneity in nuclear rDNA ITS region of Vigna species from subgenus Ceratotropis
[J]. Genet Res Camb
[21] Wang L-X(王丽侠), Cheng X-Z(程须珍), Wang S-H(王素华), Liu C-Y(刘长友), Liang H(梁辉). Transferability of SSR from adzuki bean to mungbean. Acta Agron Sin (作物学报), 2009, 35(5): 816−820 (in Chinese with English abstract)
[22] Hou X(侯鑫), Liu J-E(刘俊娥), Zhao Y-Z(赵一之), Zhao L-Q(赵利清). Interspecific relationships of Caragana microphylla, C. davazamcii and C. korshinskii (Leguminosae) based on ITS and trnL-F data sets. Acta Phytotaxonomica Sin (植物分类学报), 2006, 44(2): 126-134 (in Chinese with English abstract)
[23] Vir R, Bhat K V, Lakhanpau S. Transferability of sequences tagged microsatellite sites (STMS) primers to pulse yielding taxa belonging to Phaseolae. Intl J Interg Biol, 2009, 5: 62-66
[24] Gopinathan M C, Babu C R. Structural diversity and its adaptive significance in seeds of Vigna minima (Roxb.) Ohwi & Ohashi and its allies (Leguminosae-Papilionoideae).Ann Bot,1985, 56: 723-732
[25] Lin R-F(林汝法), Chai Y(柴岩), Liao M(廖敏), Sun S-X(孙世贤). Minor Grain Crops in China. Beijing: China Agricultural and Technical Press, 2002. pp 193-208 (in Chinese)
[26] Tateishi Y. A Revision of the Azuki Bean Group, the Subgenus Ceratotropis of the Genus Vigna (Leguminosae). PhD Dissertation of Tohoku University, 1985 (in Japanese)
[27] Wang Z-C(王子成), Li Z-A(李忠爱), Li S-P(李锁平). The technology of MSAP and its applications in plant. Biotechnol Bull (生物技术通报), 2006, (suppl): 195-196 (in Chinese with English abstract)
[28] Yang X-Y(杨秀英), Gao Y(高英), Shen M(沈敏). Comparative analysis of chromosomal karyotype for three species of Vigna savi
[J]. Plant J Tianjin Norm Univ (Nat Sci Edn) (天津师范大学学报·自然科学版.2003, 23(4):23-26
[29] Stebbins G L. Chromosomal Evolution in Higher Plants. London: Edward Arnold Ltd, 1971. pp 85-104
[1] JIN Min-Shan, QU Rui-Fang, LI Hong-Ying, HAN Yan-Qing, MA Fang-Fang, HAN Yuan-Huai, XING Guo-Fang. Identification of sugar transporter gene family SiSTPs in foxtail millet and its participation in stress response [J]. Acta Agronomica Sinica, 2022, 48(4): 825-839.
[2] JIN Rong, JIANG Wei, LIU Ming, ZHAO Peng, ZHANG Qiang-Qiang, LI Tie-Xin, WANG Dan-Feng, FAN Wen-Jing, ZHANG Ai-Jun, TANG Zhong-Hou. Genome-wide characterization and expression analysis of Dof family genes in sweetpotato [J]. Acta Agronomica Sinica, 2022, 48(3): 608-623.
[3] ZHAO Jia-Jia, QIAO Ling, WU Bang-Bang, GE Chuan, QIAO Lin-Yi, ZHANG Shu-Wei, YAN Su-Xian, ZHENG Xing-Wei, ZHENG Jun. Seedling root characteristics and drought resistance of wheat in Shanxi province [J]. Acta Agronomica Sinica, 2021, 47(4): 714-727.
[4] WANG Yan-Hua,XIE Ling,YANG Bo,CAO Yan-Ru,LI Jia-Na. Flowering genes in oilseed rape: identification, characterization, evolutionary and expression analysis [J]. Acta Agronomica Sinica, 2019, 45(8): 1137-1145.
[5] Hong-Ju JIAN,Bo YANG,Yang-Yang LI,Hong YANG,Lie-Zhao LIU,Xin-Fu XU,Jia-Na LI. Identification and expression analysis of PEBP gene family in oilseed rape [J]. Acta Agronomica Sinica, 2019, 45(3): 354-364.
[6] ZHANG Li-Lan,WANG Jun,WAN Xue-Bei,XU Yi,ZHANG Lie-Mei,FANG Ping-Ping,QI Jian-Min,ZHANG Li-Wu. Analysis of Internal Transcribed Spacers (ITS) Sequences and Phylogenetics of Main Bast Fiber Crops [J]. Acta Agron Sin, 2017, 43(06): 862-874.
[7] MA Jian-Hui,ZHANG Dai-Jing,GAO Xiao-Long,SHAO Yun,JIANG Li-Na. Identification and Analysis of WRKY Transcription Factors in Triticum urartu [J]. Acta Agron Sin, 2015, 41(06): 900-909.
[8] TAN He-Lin,XU Xin-Ying,FU Li-Man,XIANG Xiao-E,LI Jian-Qiao,GUO Hao-Lun,YE Wen-Xue. Cloningand Expression Pattern of DNA Methylase I (MET1) from Brassica napus L. and Its Progenitors [J]. Acta Agron Sin, 2015, 41(03): 405-413.
[9] LIU Zhang-Xiong1,SUN Shi1,LI Wei-Dong2,CHEN Li-Jun3,CHANG Ru-Zhen1,QIU Li-Juan1,*. Analysis of Parental Relationship for Soybean Cultivars Released from 1983 to 2010 in Beijing [J]. Acta Agron Sin, 2013, 39(09): 1693-1700.
[10] LIU Yan,CHENG Xu-Zhen*,WANG Li-Xia,WANG Su-Hua,BAI Peng. Genetic Evolution for Vigna Subgenus Ceratotropis Based on Chloroplast DNA Sequences [J]. Acta Agron Sin, 2013, 39(06): 979-991.
[11] YANG Jin-Zhong,ZHANG Hong-Sheng,DU Jin-Zhe. Meta-Analysis of Evolution Trend from 1950s to 2000s in the Relationship between Crop Yield and Plant Density in Maize [J]. Acta Agron Sin, 2013, 39(03): 515-519.
[12] QI Jian-Min,LIANG Jing-Xia,CHEN Mei-Xia,XU Jian-Tang,NIU Xiao-Ping,ZHOU Dong-Xin,WANG Tao,CHEN Shun-Hui. Genetic Diversity and Evolutionary Analysis of Tobacco (Nicotiana tabacum L.) Germplasm Resources Based on ISSR and SRAP Markers [J]. Acta Agron Sin, 2012, 38(08): 1425-1434.
[13] DAO Ai-Fen, QI Jian-Min, SU Jian-Guang, LI Ai-Jing, LI Mu-Lan, FANG Beng-Beng, LIN Li-Hui, XU Jian-Tang, TUN Jian-Mei, LIN Pei-Qing. Method Comparison of Using SRAP and ISSR and Combination of Both in Origin and Evolution of Jute [J]. Acta Agron Sin, 2011, 37(12): 2277-2284.
[14] ZHANG Hao, HUANG Zuan-Hua, WANG Jing-Chao, WANG Zhi-Qin, YANG Jian-Chang. Changes in Morphological and Physiological Traits of Roots and Their Relationships with Grain Yield during the Evolution of Mid-season Indica Rice Cultivars in Jiangsu Province [J]. Acta Agron Sin, 2011, 37(06): 1020-1030.
[15] LI Jun, ZHAO Ai-Chun, WANG Qian-Ling, ZHANG Qiong-Yu, LI Ji-You, JIN Xiao-Yun, LI Tian-Gang, TU Mao-De. Molecular Cloning and Tissues Expression Analysis of Three Actin Genes from Mulberry (Morus alba) [J]. Acta Agron Sin, 2011, 37(04): 641-649.
Full text



No Suggested Reading articles found!