Characterization of the DNA molecular sequence of complete plastid genome of <i>Paeonia rockii</i> subsp. <i>taibaishanica</i>, an endemic species in China

Dong, Peng-Bin; Zhang, Li; Lu, Zhao-Ping; Wang, Yuan; Song, Xiaoyu; Wang, Jiu-Xia; He, Dan; Lei, Xiaofeng; Wang, Ma-Li; Fang, Min-Feng; Li, Zhong-Hu

doi:10.1080/23802359.2021.1917311

Cited by 1 publication

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References 9 publications

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“…Onaepia . In contrast to previous studies [ 7 , 16 ], our findings suggest that sect. Onaepia represents the first branch to diverge from the ancient Paeonia lineage.…”

Section: Discussioncontrasting

confidence: 99%

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The plastome reveals new insights into the evolutionary and domestication history of peonies in East Asia

Chen

Silva³

et al. 2023

BMC Plant Biol

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Backgroud Paeonia holds considerable value in medicinal, ornamental horticultural, and edible oil industries, but the incomplete state of phylogenetic research in this genus poses a challenge to the effective conservation and development of wild germplasm, and also impedes the practical utilization of existing cultivars. Due to its uniparental inheritance and lack of recombination, the plastome (i.e., plastid genome), which is a valuable molecular marker for phylogenetic analyses, is characterized by an appropriate rate of nucleotide evolution. Methods In this study, 10 newly assembled data and available reported data were combined to perform a comparative genomics and phylogenetics analysis of 63 plastomes of 16 Paeonia species, primarily from East Asia, which is the origin and diversity center of Paeonia. Results Ranging between 152,153 and 154,405 bp, most plastomes displayed a conserved structure and relatively low nucleotide diversity, except for six plastomes, which showed obvious IR construction or expansion. A total of 111 genes were annotated in the Paeonia plastomes. Four genes (rpl22, rps3, rps19 and ycf1) showed different copy numbers among accessions while five genes (rpl36, petN, psbI, rpl33 and psbJ) showed strong codon usage biases (ENC < 35). Additional selection analysis revealed that no genes were under positive selection during the domestication of tree peony cultivars whereas four core photosynthesis-related genes (petA, psaA, psaB and rbcL) were under positive selection in herbaceous peony cultivars. This discovery might contribute to the wide adaption of these cultivars. Two types of molecular markers (SSR and SNP) were generated from the 63 plastomes. Even though SSR was more diverse than SNP, it had a weaker ability to delimit Paeonia species than SNP. The reconstruction of a phylogenetic backbone of Paeonia in East Asia revealed significant genetic divergence within the P. ostii groups. Evidence also indicated that the majority of P. suffruticosa cultivars had a maternal origin, from P. ostii. The results of this research also suggest that P. delavayi var. lutea, which likely resulted from hybridization with P. ludlowii, should be classified as a lineage within the broader P. delavayi group. Conclusions Overall, this study’s research findings suggest that the Paeonia plastome is highly informative for phylogenetic and comparative genomic analyses, and could be useful in future research related to taxonomy, evolution, and domestication.

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“…Onaepia . In contrast to previous studies [ 7 , 16 ], our findings suggest that sect. Onaepia represents the first branch to diverge from the ancient Paeonia lineage.…”

Section: Discussioncontrasting

confidence: 99%

“…Paeonia than to sect. Moutan , while Dong et al [ 16 ] reported opposite results. Thus, a more comprehensive plastome-based phylogenetic study is needed to provide new insight into the evolutionary history of Paeonia .…”

Section: Introductionmentioning

confidence: 99%

The plastome reveals new insights into the evolutionary and domestication history of peonies in East Asia

Chen

Silva³

et al. 2023

BMC Plant Biol

View full text Add to dashboard Cite

show abstract

Characterization of the DNA molecular sequence of complete plastid genome of Paeonia rockii subsp. taibaishanica, an endemic species in China

Cited by 1 publication

References 9 publications

The plastome reveals new insights into the evolutionary and domestication history of peonies in East Asia

The plastome reveals new insights into the evolutionary and domestication history of peonies in East Asia

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