TY - JOUR
T1 - Leveraging plastomes for comparative analysis and phylogenomic inference within Scutellarioideae (Lamiaceae)
AU - Zhao, Fei
AU - Li, Bo
AU - Drew, Bryan T.
AU - Chen, Ya Ping
AU - Wang, Qiang
AU - Yu, Wen Bin
AU - Liu, En De
AU - Salmaki, Yasaman
AU - Peng, Hua
AU - Xiang, Chun Lei
N1 - Funding Information:
This study was funded by the “Ten Thousand Talents Program of Yunnan (Top-notch Young Talents)” (No. YNWR-QNBJ-2018-279), CAS “Light of West China” Program and the “Excellent Youth Fund Project” (No. 2019FI009) of Yunnan Provincial Science and Technology Department to CLX, and the National Natural Science Foundation of China (No. 31870181) to QW. The authors are grateful to Prof. Shi-Xiao Luo, Prof. Shen-Zhuo Huang, Mr. Hong-Liang Chen, Mr. Yi Yang, Miss Yuan-Yuan Li, and Miss Qiao-Rong Zhang for their assistance in sample collection. We also thank Dr. Richard Olmstead and another anonymous reviewer for their constructive suggestions that greatly improved the paper.
Publisher Copyright:
© 2020 Zhao et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
PY - 2020/5
Y1 - 2020/5
N2 - Scutellaria, or skullcaps, are medicinally important herbs in China, India, Japan, and elsewhere. Though Scutellaria is the second largest and one of the more taxonomically challenging genera within Lamiaceae, few molecular systematic studies have been undertaken within the genus; in part due to a paucity of available informative markers. The lack of informative molecular markers for Scutellaria hinders our ability to accurately and robustly reconstruct phylogenetic relationships, which hampers our understanding of the diversity, phylogeny, and evolutionary history of this cosmopolitan genus. Comparative analyses of 15 plastomes, representing 14 species of subfamily Scutellarioideae, indicate that plastomes within Scutellarioideae contain about 151,000 nucleotides, and possess a typical quadripartite structure. In total, 590 simple sequence repeats, 489 longer repeats, and 16 hyper-variable regions were identified from the 15 plastomes. Phylogenetic relationships among the 14 species representing four of the five genera of Scutellarioideae were resolved with high support values, but the current infrageneric classification of Scutellaria was not supported in all analyses. Complete plastome sequences provide better resolution at an interspecific level than using few to several plastid markers in phylogenetic reconstruction. The data presented here will serve as a foundation to facilitate DNA barcoding, species identification, and systematic research within Scutellaria, which is an important medicinal plant resource worldwide.
AB - Scutellaria, or skullcaps, are medicinally important herbs in China, India, Japan, and elsewhere. Though Scutellaria is the second largest and one of the more taxonomically challenging genera within Lamiaceae, few molecular systematic studies have been undertaken within the genus; in part due to a paucity of available informative markers. The lack of informative molecular markers for Scutellaria hinders our ability to accurately and robustly reconstruct phylogenetic relationships, which hampers our understanding of the diversity, phylogeny, and evolutionary history of this cosmopolitan genus. Comparative analyses of 15 plastomes, representing 14 species of subfamily Scutellarioideae, indicate that plastomes within Scutellarioideae contain about 151,000 nucleotides, and possess a typical quadripartite structure. In total, 590 simple sequence repeats, 489 longer repeats, and 16 hyper-variable regions were identified from the 15 plastomes. Phylogenetic relationships among the 14 species representing four of the five genera of Scutellarioideae were resolved with high support values, but the current infrageneric classification of Scutellaria was not supported in all analyses. Complete plastome sequences provide better resolution at an interspecific level than using few to several plastid markers in phylogenetic reconstruction. The data presented here will serve as a foundation to facilitate DNA barcoding, species identification, and systematic research within Scutellaria, which is an important medicinal plant resource worldwide.
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U2 - 10.1371/journal.pone.0232602
DO - 10.1371/journal.pone.0232602
M3 - Article
C2 - 32379799
AN - SCOPUS:85084307298
SN - 1932-6203
VL - 15
JO - PloS one
JF - PloS one
IS - 5
M1 - e0232602
ER -