Characterization and Comparison of Two Complete Plastomes of Rosaceae Species (Potentilla dickinsii var. glabrata and Spiraea insularis) Endemic to Ulleung Island, Korea.

International Journal of Molecular Sciences
JiYoung YangSeung-Chul Kim

Abstract

Potentilla dickinsii var. glabrata and Spiraea insularis in the family Rosaceae are species endemic to Ulleung Island, Korea, the latter of which is listed as endangered. In this study, we characterized the complete plastomes of these two species and compared these with previously reported plastomes of other Ulleung Island endemic species of Rosaceae (Cotoneaster wilsonii, Prunus takesimensis, Rubus takesimensis, and Sorbus ulleungensis). The highly conserved complete plastomes of P. dickinsii var. glabrata and S. insularis are 158,637 and 155,524 base pairs with GC contents of 37% and 36.9%, respectively. Comparative phylogenomic analysis identified three highly variable intergenic regions (trnT-UGU/trnL-UAA, rpl32/trnL-UAG, and ndhF/rpl32) and one variable genic region (ycf1). Only 14 of the 75 protein-coding genes have been subject to strong purifying selection. Phylogenetic analysis of 23 representative plastomes within the Rosaceae supported the monophyly of Potentilla and the sister relationship between Potentilla and Fragaria and indicated that S. insularis is sister to a clade containing Cotoneaster, Malus, Pyrus, and Sorbus. The plastome resources generated in this study will contribute to elucidating the plastome evol...Continue Reading

References

Jan 1, 1986·Journal of Molecular Evolution·P M Sharp, W H Li
Nov 21, 1997·Computer Applications in the Biosciences : CABIOS·Z Yang
Aug 7, 1998·Journal of Molecular Evolution·W Makalowski, M S Boguski
Mar 29, 1994·Proceedings of the National Academy of Sciences of the United States of America·T J GivnishW J Hahn
Mar 22, 2007·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·John M Archibald
Dec 1, 2007·Proceedings of the National Academy of Sciences of the United States of America·Robert K JansenJeffrey L Boore
Mar 20, 2008·Genome Research·Daniel R Zerbino, Ewan Birney
May 14, 2010·Molecular Biology and Evolution·Reto BurriLuca Fumagalli
Aug 31, 2010·Nature Genetics·Riccardo VelascoRoberto Viola
Dec 28, 2010·Nature Genetics·Vladimir ShulaevKevin M Folta
Nov 15, 2012·Genome Research·Jun WuShaoling Zhang
Jan 19, 2013·Molecular Biology and Evolution·Kazutaka Katoh, Daron M Standley
Jan 1, 2014·Molecular Phylogenetics and Evolution·Daniel B SloanDouglas R Taylor
Nov 6, 2014·Molecular Biology and Evolution·Lam-Tung NguyenBui Quang Minh
Sep 26, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Kyunghee KimKi-Byung Lim
Mar 24, 2016·Molecular Biology and Evolution·Sudhir KumarKoichiro Tamura
Feb 12, 2017·The New Phytologist·Shu-Dong ZhangTing-Shuang Yi
Oct 14, 2017·Molecular Biology and Evolution·Julio RozasAlejandro Sánchez-Gracia
Feb 15, 2019·BMC Genomics·Desre PinardEshchar Mizrachi
Apr 25, 2019·Ecology and Evolution·Fangluan GaoSimon Y W Ho
Nov 21, 2018·Mitochondrial DNA. Part B, Resources·Ji Young YangSeung-Chul Kim
Dec 29, 2020·Mitochondrial DNA. Part B, Resources·Ji Young YangSeung-Chul Kim
Nov 7, 2017·Mitochondrial DNA. Part B, Resources·Ji Young YangSeung-Chul Kim
Feb 24, 2018·Mitochondrial DNA. Part B, Resources·Myong-Suk ChoSeung-Chul Kim
Feb 24, 2018·Mitochondrial DNA. Part B, Resources·Hee-Young Gil, Seung-Chul Kim

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Datasets Mentioned

BETA
MT412406
MT412405

Software Mentioned

tRNAscan
MAFFT
EasyCodeML
CODEML
MEGA7
DnaSP
Geneious R10
TREE
predictive RNA editor for plants ( PREP ) suite
mVISTA

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