Development and Characterization of SSR Markers via de Novo Transcriptome Assembly in Apocynum. hendersonii

References

• Beier, S., T. Thiel, T. Munch, U. Scholz, and M. Mascher. 2017. MISA-web: A web server for microsatellite prediction. Bioinformatics 33 (16):2583–9. doi:10.1093/bioinformatics/btx198.
   PubMed Web of Science ®Google Scholar
• Chan, C., C. Lau, Y. Fung, L. Xu, S. Chen, S. Chan, and M. Daniel. 2015. Discrimination between leave of apocynum venetum and its adulterant, a. pictum based on antioxidant assay and chemical profiles combined with multivariate statistical analysis. Antioxidants 4 (2):359–72. doi:10.3390/antiox4020359.
   Web of Science ®Google Scholar
• Creste, S., A. Tulmann Neto, and A. Figueira. 2001. Detection of single sequence repeat polymorphisms in denaturing polyacrylamide sequencing gels by silver staining. Plant Molecular Biology Reporter 19 (4):299–306. doi:10.1007/BF02772828.
   Web of Science ®Google Scholar
• Eshbakova, K. A., E. Bahang, and H. A. Aisa. 2011. Constituents of Apocynum venetum. Chemistry of Natural Compounds 46 (6):974–75. doi:10.1007/s10600-011-9801-z.
   Web of Science ®Google Scholar
• Gao, G., P. Chen, J. Chen, K. Chen, A. Zhu, A. S. Abubakar, N. Liu, C. Yu, and A. Zhu. 2019. Genomic Survey, transcriptome, and metabolome analysis of Apocynum venetum and Apocynum hendersonii to reveal major flavonoid biosynthesis pathways. Metabolites 9 (12):296. doi:10.3390/metabo9120296.
   PubMed Web of Science ®Google Scholar
• Grabherr, M. G., B. Haas, M. Yassour, J. Levin, D. Thompson, I. Amit, X. Adiconis, L. Fan, R. Raychowdhury, Q. Zeng, et al. 2011. Full-length transcriptome assembly from RNA-seq data without a reference genome. Nature Biotechnology 29 (7):644–52. doi:10.1038/nbt.1883.
   PubMed Web of Science ®Google Scholar
• Gupta, P. K., S. Rustgi, S. Sharma, R. Singh, N. Kumar, and H. S. Balyan. 2003. Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Molecular Genetics and Genomics 270 (4):315–23. doi:10.1007/s00438-003-0921-4.
   PubMed Web of Science ®Google Scholar
• Kalia, R. K., M. Rai, S. Kalia, R. Singh, and A. K. Dhawan. 2011. Microsatellite markers: An overview of the recent progress in plants. Euphytica 177 (3):309–34. doi:10.1007/s10681-010-0286-9.
   Web of Science ®Google Scholar
• Li, D., Z. Deng, B. Qin, X. Liu, and Z. Men. 2012. De Novo assembly and characterization of bark transcriptome using Illumina sequencing and development of EST-SSR markers in rubber tree (Hevea brasiliensis Muell. Arg.). BMC Genomics 13 (1):192. doi:10.1186/1471-2164-13-192.
   PubMed Web of Science ®Google Scholar
• Li, M., G. Han, H. Chen, J. Yu, and Y. Zhang. 2012. Chemical compounds and antimicrobial activity of volatile oils from bast and fibers of Apocynum venetum. Fibers and Polymers 13 (3):322–28. doi:10.1007/s12221-012-0322-6.
   Web of Science ®Google Scholar
• Li, Y. C., A. B. Korol, T. Fahima, A. Beiles, and E. Nevo. 2002. Microsatellites: Genomic distribution, putative functions and mutational mechanisms: A review. Molecular ecology 11 (12):2453–65. doi:10.1046/j.1365-294x.2002.01643.x.
   PubMed Web of Science ®Google Scholar
• Li, G., S. Li, C. Jin, M. Li, Y. Wang, and Y. -F. Wang. 2019. Genome survey and SSR analysis of Apocynum venetum. Bioscience reports 39 (6):BSR20190146. doi:10.1042/BSR20190146.
   PubMedGoogle Scholar
• Nicoló, F., L. Christoph, B. Karsten, N. Lawrence, and S. Oliver. 2013. Detecting regulatory gene–environment interactions with unmeasured environmental factors. Bioinformatics 29 (11):1382–89. doi:10.1093/bioinformatics/btt148.
   PubMed Web of Science ®Google Scholar
• Park, Y. J., J. K. Lee, and N. S. Kim. 2009. Simple sequence repeat polymorphisms (SSRPs) for evaluation of molecular diversity and germplasm classification of minor crops. Molecules 14 (11):4546–69. doi:10.3390/molecules14114546.
   PubMed Web of Science ®Google Scholar
• Pertea, G., X. Huang, F. Liang, V. Antonescu, R. Sultana, S. Karamycheva, Y. Lee, J. White, F. Cheung, B. Parvizi, et al. 2003. TIGR gene indices clustering tools (TGICL): A software system for fast clustering of large EST datasets. Bioinformatics 19 (5):651–52. doi:10.1093/bioinformatics/btg034.
   PubMed Web of Science ®Google Scholar
• Schorderet, F., and S. Gartler. 1992. Analysis of CpG suppression in methylated and nonmethylated species. Proceedings of the National Academy of Sciences 89 (3):957–61. doi:10.1073/pnas.89.3.957.
   PubMed Web of Science ®Google Scholar
• Simko, I. 2008. Development of EST-SSR markers for the study of population structure in Lettuce (Lactuca sativa L.). The Journal of Heredity 100 (2):256–62. doi:10.1093/jhered/esn072.
   PubMed Web of Science ®Google Scholar
• Toth, G. R., Z. Gaspari, and J. Jurka. 2000. Microsatellites in different eukaryotic genomes: survey and analysis. Genome Research 10 (7):967–81. doi:10.1101/gr.10.7.967.
   PubMed Web of Science ®Google Scholar
• Varshney, R., A. Graner, and M. Sorrells. 2005. Genic microsatellite markers in plants: Features and applications. Trends in Biotechnology 23 (1):48–55. doi:10.1016/j.tibtech.2004.11.005.
   PubMed Web of Science ®Google Scholar
• Wang, L., G. Han, and Y. Zhang. 2007. Comparative study of composition, structure and properties of Apocynum venetum fibers under different pretreatments. Carbohydrate polymers 69 (2):391–97. doi:10.1016/j.carbpol.2006.12.028.
   Web of Science ®Google Scholar
• Xie, W., X. Zhang, T. Wang, and J. Hu. 2012. Botany, traditional uses, phytochemistry and pharmacology of Apocynum venetum L. (Luobuma): A review. Journal of Ethnopharmacology 141 (1):1–8. doi:10.1016/j.jep.2012.02.003.
   PubMed Web of Science ®Google Scholar
• Xiong, Z. Y., and J. C. Pires. 2011. Karyotype and identification of all homoeologous chromosomes of Allopolyploid Brassica napus and its diploid progenitors. Genetics 187 (1):37–49. doi:10.1534/genetics.110.122473.
   PubMed Web of Science ®Google Scholar
• Xu, X., J. Gong, T. Zhang, Z. Li, J. Zhang, L. Wang, and J. Huang. 2020. Insights into antibacterial mechanism of Apocynum Venetum L. fiber: Evolution of bioactive natural substances in bast during chemical degumming process. Industrial Crops and Products 151 (151):112419. doi:https://doi.org/10.1016/j.indcrop.2020.112419.
   Google Scholar
• Yuan, N., M. Li, and C. Jia. 2020. De Novo transcriptome assembly and population genetic analyses of an important coastal shrub, Apocynum venetum L. BMC Plant Biology 20 (1):408. doi:10.1186/s12870-020-02626-7.
   PubMed Web of Science ®Google Scholar
• Yuan, Y. N., J. Zhou, Y. Zheng, Z. Xu, Y. Li, S. Zhou, and C. Zhang. 2020. Beneficial effects of polysaccharide-rich extracts from Apocynum venetum leaves on hypoglycemic and gut microbiota in type 2 diabetic mice. Biomedicine & Pharmacotherapy 127 (127):110182. doi:https://doi.org/10.1016/j.biopha.2020.110182.
   PubMedGoogle Scholar
• Zalapa, J., H. Cuevas, H. Zhu, S. Steffan, D. Senalik, E. Zeldin, B. McCown, R. Harbut, and P. Simon. 2012. Using next-generation sequencing approaches to isolate simple sequence repeat (SSR) loci in the plant sciences. American Journal of Botany 99 (2):193–208. doi:10.3732/ajb.1100394.
   PubMed Web of Science ®Google Scholar
• Zhang, Y., Q. Yang, Z. Zhou, and G. Jin. 2013. Divergence among Masson pine parents revealed by geographical origins and SSR markers and their relationships with progeny performance. New Forests 44 (3):341–55. doi:10.1007/s11056-012-9340-x.
   Web of Science ®Google Scholar