干旱区生态环境知识资源中心(Arid): Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny

Arid

DOI	10.1016/j.ympev.2020.107022
	Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny
	Uckele, Kathryn A.; Adams, Robert P.; Schwarzbach, Andrea E.; Parchman, Thomas L.
通讯作者	Uckele, KA (corresponding author), Univ Nevada, Dept Biol, MS 314,Max Fleischmann Agr Bldg, Reno, NV 89557 USA.
来源期刊	MOLECULAR PHYLOGENETICS AND EVOLUTION
ISSN	1055-7903
EISSN	1095-9513
出版年	2021
卷号	156
英文摘要	YJuniper (Juniperus) is an ecologically important conifer genus of the Northern Hemisphere, the members of which are often foundational tree species of arid regions. The serrate leaf margin clade is native to topologically variable regions in North America, where hybridization has likely played a prominent role in their diversification. Here we use a reduced-representation sequencing approach (ddRADseq) to generate a phylogenomic data set for 68 accessions representing all 22 species in the serrate leaf margin clade, as well as a number of close and distant relatives, to improve understanding of diversification in this group. Phylogenetic analyses using three methods (SVDquartets, maximum likelihood, and Bayesian) yielded highly congruent and well-resolved topologies. These phylogenies provided improved resolution relative to past analyses based on Sanger sequencing of nuclear and chloroplast DNA, and were largely consistent with taxonomic expectations based on geography and morphology. Calibration of a Bayesian phylogeny with fossil evidence produced divergence time estimates for the clade consistent with a late Oligocene origin in North America, followed by a period of elevated diversification between 12 and 5 Mya. Comparison of the ddRADseq phylogenies with a phylogeny based on Sanger-sequenced chloroplast DNA revealed five instances of pronounced discordance, illustrating the potential for chloroplast introgression, chloroplast transfer, or incomplete lineage sorting to influence organellar phylogeny. Our results improve understanding of the pattern and tempo of diversification in Juniperus, and highlight the utility of reduced-representation sequencing for resolving phylogenetic relationships in non-model organisms with reticulation and recent divergence.
英文关键词	Diversification Juniper RADseq Reticulation Western North America
类型	Article
语种	英语
开放获取类型	Green Submitted
收录类别	SCI-E
WOS记录号	WOS:000612817100001
WOS关键词	SPECIES-TREE ESTIMATION ; CYTOPLASMIC GENE FLOW ; DIVERSIFICATION RATES ; MITOCHONDRIAL-DNA ; DIVERGENCE TIMES ; HYBRID ZONES ; SNP DATA ; CUPRESSACEAE ; HYBRIDIZATION ; BIOGEOGRAPHY
WOS类目	Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
WOS研究方向	Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/351160
作者单位	[Uckele, Kathryn A.; Parchman, Thomas L.] Univ Nevada, Dept Biol, MS 314,Max Fleischmann Agr Bldg, Reno, NV 89557 USA; [Adams, Robert P.] Baylor Univ, Utah Lab, 201 N 5500 W, Hurricane, UT 84790 USA; [Schwarzbach, Andrea E.] Univ Texas Rio Grande Valley, Dept Hlth & Biomed Sci, 1 W Univ Dr, Brownsville, TX 78520 USA
推荐引用方式 GB/T 7714	Uckele, Kathryn A.,Adams, Robert P.,Schwarzbach, Andrea E.,et al. Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny[J],2021,156.
APA	Uckele, Kathryn A.,Adams, Robert P.,Schwarzbach, Andrea E.,&Parchman, Thomas L..(2021).Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny.MOLECULAR PHYLOGENETICS AND EVOLUTION,156.
MLA	Uckele, Kathryn A.,et al."Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny".MOLECULAR PHYLOGENETICS AND EVOLUTION 156(2021).