Hostname: page-component-cd9895bd7-hc48f Total loading time: 0 Render date: 2024-12-28T01:32:52.773Z Has data issue: false hasContentIssue false
  • English
  • Français

Development of novel polymorphic microsatellite markers in the invasive plant shortawn foxtail (Alopecurus aequalis Sobol.)

Published online by Cambridge University Press:  07 June 2018

Ning Zhao ,
Yanyan Yan ,
Weitang Liu  and
Jinxin Wang Open the ORCID record for Jinxin Wang [Opens in a new window]
Ning Zhao
Affiliation:
Key Laboratory of Pesticide Toxicology and Application Technique, College of Plant Protection, Shandong Agricultural University, Tai'an 271018, Shandong, People's Republic of China
Yanyan Yan
Affiliation:
State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an 271018, Shandong, People's Republic of China
Weitang Liu*
Affiliation:
Key Laboratory of Pesticide Toxicology and Application Technique, College of Plant Protection, Shandong Agricultural University, Tai'an 271018, Shandong, People's Republic of China
Jinxin Wang*
Affiliation:
Key Laboratory of Pesticide Toxicology and Application Technique, College of Plant Protection, Shandong Agricultural University, Tai'an 271018, Shandong, People's Republic of China
*
*Corresponding author. E-mail: wangjx@sdau.edu.cn; liuwt@sdau.edu.cn
*Corresponding author. E-mail: wangjx@sdau.edu.cn; liuwt@sdau.edu.cn
Get access Rights & Permissions [Opens in a new window]

Abstract

Shortawn foxtail (Alopecurus aequalis Sobol.) is an invasive and highly troublesome weed species originating from North America that has become widespread across China. Since its proliferation seriously threatens crop production worldwide, understanding its genetic diversity is critical for developing a forecasting system for integrated pest management plans. To accelerate the application of molecular markers in A. aequalis, this study aimed to develop a set of expressed sequence tag-simple sequence repeat (SSR) markers using previous high-throughput sequencing data. In this study, a total of 1411 SSR loci were identified from 95,479 unigenes. Tri-nucleotide repeat motifs were the most abundant type with a frequency of 66.27%, followed by di- (24.95%) and tetra-nucleotide (8.78%). Among the loci, 584 primer pairs were successfully designed for marker development. Subsequently, a subset of 36 primer pairs was randomly selected and synthesized, of which 12 (33.33%) pairs successfully revealed abundant allelic polymorphism. Additionally, to investigate their utility, the genotypes of 160 individuals from 20 natural populations representing diverse wild genotypes of A. aequalis were analysed by using these 12 polymorphic markers. These novel SSR markers developed here are reliable and useful for genetic analysis on this invasive plant and will greatly enrich its genetic resource.

Keywords

Genetic resourcegrass weedmolecular markersimple sequence repeat
Type
Short Communication
Information
Plant Genetic Resources , Volume 16 , Issue 6 , December 2018 , pp. 564 - 567
Copyright
Copyright © NIAB 2018 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Bouck, A and Vision, T (2007) The molecular ecologist's guide to expressed sequence tags. Molecular Ecology 16: 907–924.Google Scholar
Deng, SY, Wang, XR, Zhu, PL, Wen, Q and Yang, CX (2015) Development of polymorphic microsatellite markers in the medicinal plant Gardenia jasminoides (Rubiaceae). Biochemical Systematics and Ecology 58: 149–155.Google Scholar
He, YJ, Gao, JH, Guo, N and Guo, YJ (2016) Variations of leaf cuticular waxes among C3 and C4 gramineae herbs. Chemistry & Biodiversity 13: 1460–1468.Google Scholar
Liang, XQ, Chen, XP, Hong, YB, Liu, HY, Zhou, GY, Li, SX and Guo, BZ (2009) Utility of EST-derived SSR in cultivated peanut (Arachis hypogaea L.) and Arachis wild species. BMC Plant Biology 9: 35.Google Scholar
Liu, MM, Xing, YM, Zhang, DW and Guo, SX (2015) Novel microsatellite markers suitable for genetic studies in Polyporus umbellatus (Polyporales, Basidiomycota). Biochemical Systematics and Ecology 61: 450–457.Google Scholar
Passos, MA, de Cruz, VO, Emediato, FL, de Teixeira, CC, Azevedo, VCR, Brasileiro, AC, Amorim, EP, Ferreira, CF, Martins, NF and Togawa, RC (2013) Analysis of the leaf transcriptome of Musa acuminata during interaction with Mycosphaerella musicola: gene assembly, annotation and marker development. BMC Genomics 14: 78.Google Scholar
Porebski, S, Bailey, LG and Baum, BR (1997) Modification of a CTAB DNA extraction protocol for plants containing high polysaccharide and polyphenol components. Plant Molecular Biology Reporter 15: 8–15.Google Scholar
Sun, JT, Wang, MM, Zhang, YK, Chapuis, MP, Jiang, XY, Hu, G, Yang, XM, Ge, C, Xue, XF and Hong, XY (2015) Evidence for high dispersal ability and mito-nuclear discordance in the small brown planthopper, Laodelphax striatellus. Scientific Reports 5: 8045.Google Scholar
Varshney, RK, Graner, A and Sorrells, ME (2005a) Genic microsatellite markers in plants: features and applications. Trends in Biotechnology 23: 48–55.Google Scholar
Varshney, RK, Sigmund, R, Börner, A, Korzun, V, Stein, N, Sorrells, ME, Langridge, P and Graner, A (2005b) Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice. Plant Science 168: 195–202.Google Scholar
Wang, ZY, Li, J, Luo, ZX, Huang, LF, Chen, XL, Fang, BP, Li, YJ, Chen, JY and Zhang, XJ (2011) Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas). BMC Plant Biology 11: 139.Google Scholar
Xie, ZZ, Xiao, L, Wang, DD, Fang, C, Liu, QY, Li, ZH, Liu, XC, Zhang, Y, Li, SS and Lin, HR (2014) Transcriptome analysis of the Trachinotus ovatus: identification of reproduction, growth and immune-related genes and microsatellite markers. PloS ONE 9: e109419.Google Scholar
Yeh, F (1997) Population genetic analysis of codominant and dominant markers and quantitative traits. Belgian Journal of Botany 129: 157.Google Scholar
Zhao, N, Li, W, Bai, S, Guo, WL, Yuan, GH, Wang, F, Liu, WT and Wang, JX (2017) Transcriptome profiling to identify genes involved in mesosulfuron-methyl resistance in Alopecurus aequalis. Frontiers in Plant Science 8: 1391.Google Scholar
Zhao, N, Li, Q, Guo, WL, Zhang, LL, Ge, LA and Wang, JX (2018) Effect of environmental factors on germination and emergence of shortawn foxtail (Alopecurus aequalis). Weed Science 66: 47–56.Google Scholar
Zheng, X, Pan, C, Diao, Y, You, YN, Yang, CZ and Hu, ZL (2013) Development of microsatellite markers by transcriptome sequencing in two species of Amorphophallus (Araceae). BMC Genomics 14: 490.Google Scholar
Supplementary material: File

Zhao et al. supplementary material

Zhao et al. supplementary material 1

Download Zhao et al. supplementary material(File)
File 369.7 KB