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. 2017 Jul 8:15:101-106.
doi: 10.1016/j.btre.2017.07.003. eCollection 2017 Sep.

Evaluation of ITS2 for intraspecific identification of Paeonia lactiflora cultivars

Qian Li  1   2 , Jinguang Xu  3 , Lu Han  1   2 , Chengrong Gao  3 , Jie Lu  3 , Guangcong Du  1   2 , Xia Sun  1   2
Affiliations

Evaluation of ITS2 for intraspecific identification of Paeonia lactiflora cultivars

Qian Li et al. Biotechnol Rep (Amst). .

Abstract

Herbaceous peony (Paeonia lactiflora Pall.) is an important ornamental and medicinal plant. DNA barcodes can reveal species identity via the nucleotide diversity of short DNA segments. In this study, two main candidate DNA barcodes (ITS2 and psbA-trnH) were tested to identify twenty-one cutting cultivars of P. lactiflora and their wild species. The efficacy of the candidate DNA barcodes was assessed by PCR amplification, sequence quality, sequence diversity, rate of correct identification, and phylogenetic analysis. ITS2 was easy to be amplified and sequenced among the samples. The identification by Blastn and phylogenetic analysis was 95.4% and 63.6%, respectively. For psbA-trnH, the presence of poly A-T led to sequencing failure which limited its use as DNA barcode candidate. Moreover, the authentic efficiency of psbA-trnH was lower than ITS2. The results showed that ITS2 is suitable as a candidate DNA barcode for the intraspecific identification of P. lactiflora cultivars.

Keywords: DNA barcode; Intra-specific; Paeonia lactiflora.

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Figures

Fig. 1
Fig. 1
Leaf morphology of partial cut peony cultivars under the stereoscope observation with magnification of 30 times. The cultivars used in this study (1). P. lactiflora (2). ‘Qingtanlan’ (3). ‘Xueyuanhonghua’ (4). ‘Fushi’ (5).‘Yangfeichuyu’(6).‘Qihualushuang’(7).‘Gaoganhong’(8).‘Dongjingnvlang’(9). ‘Fenchijinyu’.
Fig. 2
Fig. 2
ITS2 secondary structures of cut peony cultivars in ITS2 database. (a) Type I. (b) Type II. (c) Type III. (d) Type IV. (e) Type V. (f) Type VI. (g) Type VII. (h) Type VIII. (i) Type IX. Note: I –IV represent the helices of ITS2 secondary structures.
Fig. 3
Fig. 3
UPGMA tree of pairwise K2P substitution rates of ITS2 for cut peony cultivars with 1000 replicates. Numbers on branch represent UPGMA support values (%).
Fig. 4
Fig. 4
UPGMA tree of pairwise K2P substitution rates of psbA-trnH for cut peony cultivars with 1000 replicates. Numbers on branch represent UPGMA support values (%).
See this image and copyright information in PMC

References

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