Research ArticleOpen Access

Characteristics of SSR Markers in Floccularia Luteo-virens by RNA -Sequencing

Volume 2 - Issue 1

**Kairui Li^1,2, Ritian Qin^1,2, Zhanling Xie^1,2*, Jing Guo¹, Qing Meng¹ and Hongyan Xu¹**

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- ¹National Key Laboratory Breeding Base for Innovation and Utilization of Plateau Crop Germplasm, China
- ²College of Eco-Environmental Engineering, Qinghai University, China
*Corresponding author: Zhanling Xie, Key Laboratory Breeding Base for Innovation and Utilization of Plateau Crop Germplasm, No. 251, Ningda Road, Chengbei District, Xining, Qinghai Province, China, 810016

Received: January 10, 2018; Published: January 18, 2018

DOI: 10.26717/BJSTR.2018.02.000673

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Abstract

Simple sequence repeats (SSRs) in Transcript and Unigene of Floccularia Luteo-virens were determined by RNA sequencing. There were 4, 715 SSRs in 38, 988 Transcript sequences and 2, 910 SSRs in 22, 122 Unigene sequences using de novo sequencing, respectively. Mononucleotides showed the highest frequency of 26.16% in Transcript, and the ratio of mononucleotides was A>T>G>C; while in Unigene, dinucleotides showed the highest of 59.27%, and the ratio of dinucleotides was TG/GT>AC/CA>AT/TA>AG/GA. The SSR with 10 repeats was the most abundant in Transcript (26.36%), while that with six repeats was the most abundant in Unigene (22.71%). Motif A had the highest frequency of 17.50% and 11.65% in Transcript and Unigene, while Motif C had the lowest frequency of l 1.10% and 1.08% in Transcript and Unigene, respectively. For the PCR products, seven primers were screened and tested from the motifs, the result were in consistent with RNA sequencing results.

Keywords: Floccularia Luteo-virens; RNA-Sequencing; Characterization

Abbreviations: SSR: Simple Sequence Repeats