Development and characterisation of EST-SSR markers by transcriptome sequencing in taro (Colocasia esculenta (L.) Schoot)

被引：28

作者：

You, Yongning ^{[1
]}

Liu, Duchen ^{[2
]}

Liu, Huabo ^{[3
]}

Zheng, Xingfei ^{[1
]}

Diao, Ying ^{[1
]}

Huang, Xinfang ^{[4
]}

Hu, Zhongli ^{[1
]}

机构：

[1] Wuhan Univ, Coll Life Sci, State Key Lab Hybrid Rice, Wuhan 430072, Hubei, Peoples R China

[2] Sichuan Acad Agr Sci, Inst Hort, Vegetable Germplasm Innovat & Variety Improvement, Chengdu 610066, Sichuan, Peoples R China

[3] Hubei Engn Univ, Coll Agr, Hubei Key Lab Qual Control Characterist Fruits &, Xiaogan 432000, Hubei, Peoples R China

[4] Wuhan Vegetable Inst Sci, Wuhan Natl Germplasm Repository Aquat Vegetables, Wuhan 430065, Hubei, Peoples R China

来源：

MOLECULAR BREEDING | 2015年 / 35卷 / 06期

关键词：

Taro; Simple sequence repeat marker; Transcriptome; Genetic diversity; GENIC MICROSATELLITE MARKERS; GENETIC-LINKAGE MAP; MOLECULAR CHARACTERIZATION; PLANTS; DNA; CONSTRUCTION; DIVERSITY; REPEATS; ARACEAE; LOCI;

D O I：

10.1007/s11032-015-0307-4

中图分类号：

S3 [农学（农艺学）];

学科分类号：

0901 ;

摘要：

Taro (Colocasia esculenta) is an important crop with a long history of cultivation. In this study 5278 SSRs were identified in taro transcriptome data. A total of 2858 primer pairs were designed for marker development. 100 primers were randomly selected and synthesized. Among them, 72 primer pairs were successfully amplified and 62 were polymorphic in taro accessions. The number of alleles ranged from 2 to 14 for each different polymorphic locus and the polymorphism information content valued ranged from 0.01 to 0.82. The phylogenetic tree was also constructed to analyse the genetic diversity in 68 taro accessions. The large number of taro SSR markers developed in the present study will be useful in the researches of genetic diversity, germplasm characterization and molecular breeding etc.

引用

页数：11

共 49 条

[1] Identification, characterization and utilization of EST-derived genic microsatellite markers for genome analyses of coffee and related species [J].

Aggarwal, Ramesh K. ;

Hendre, Prasad S. ;

Varshney, Rajeev K. ;

Bhat, Prasanna R. ;

Krishnakumar, V. ;

Singh, Lalji .

THEORETICAL AND APPLIED GENETICS, 2007, 114 (02) :359-372

[2] Identification of chloroplast genome loci suitable for high-resolution phylogeographic studies of Colocasia esculenta (L.) Schott (Araceae) and closely related taxa [J].

Ahmed, Ibrar ;

Matthews, Peter J. ;

Biggs, Patrick J. ;

Naeem, Muhammad ;

McLenachan, Patricia A. ;

Lockhart, Peter J. .

MOLECULAR ECOLOGY RESOURCES, 2013, 13 (05) :929-937

[3]

BOTSTEIN D, 1980, AM J HUM GENET, V32, P314

[4]

Cardle L, 2000, GENETICS, V156, P847

[5] Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh] [J].

Dutta, Sutapa ;

Kumawat, Giriraj ;

Singh, Bikram P. ;

Gupta, Deepak K. ;

Singh, Sangeeta ;

Dogra, Vivek ;

Gaikwad, Kishor ;

Sharma, Tilak R. ;

Raje, Ranjeet S. ;

Bandhopadhya, Tapas K. ;

Datta, Subhojit ;

Singh, Mahendra N. ;

Bashasab, Fakrudin ;

Kulwal, Pawan ;

Wanjari, K. B. ;

Varshney, Rajeev K. ;

Cook, Douglas R. ;

Singh, Nagendra K. .

BMC PLANT BIOLOGY, 2011, 11

[6] EST-SSRs as a resource for population genetic analyses [J].

Ellis, J. R. ;

Burke, J. M. .

HEREDITY, 2007, 99 (02) :125-132

[7] Assessment of genotypic variation among cultivated durum wheat based on EST-SSRS and genomic SSRS [J].

Eujayl, I ;

Sorrells, M ;

Baum, M ;

Wolters, P ;

Powell, W .

EUPHYTICA, 2001, 119 (1-2) :39-43

[8] Development, characterization and cross-species/genera transferability of EST-SSR markers for rubber tree (Hevea brasiliensis) [J].

Feng, S. P. ;

Li, W. G. ;

Huang, H. S. ;

Wang, J. Y. ;

Wu, Y. T. .

MOLECULAR BREEDING, 2009, 23 (01) :85-97

[9] The construction of a genetic linkage map of red raspberry (Rubus idaeus subsp idaeus) based on AFLPs, genomic-SSR and EST-SSR markers [J].

Graham, J ;

Smith, K ;

MacKenzie, K ;

Jorgenson, L ;

Hackett, C ;

Powell, W .

THEORETICAL AND APPLIED GENETICS, 2004, 109 (04) :740-749

[10] An optimal method of DNA silver staining in polyacrylamide gels [J].

Han, Yan-Chuang ;

Teng, Cai-Zhu ;

Hu, Zhong-Li ;

Song, Yun-Chun .

ELECTROPHORESIS, 2008, 29 (06) :1355-1358

← 1 2 3 4 5 →