Journal ArticleDOI
A metacalibrated time-tree documents the early rise of flowering plant phylogenetic diversity
TLDR
This time-frame documents an early phylogenetic proliferation that led to the establishment of major angiosperm lineages, and the origin of over half of extant families, in the Cretaceous.Abstract:
The establishment of modern terrestrial life is indissociable from angiosperm evolution. While available molecular clock estimates of angiosperm age range from the Paleozoic to the Late Cretaceous, the fossil record is consistent with angiosperm diversification in the Early Cretaceous. The time-frame of angiosperm evolution is here estimated using a sample representing 87% of families and sequences of five plastid and nuclear markers, implementing penalized likelihood and Bayesian relaxed clocks. A literature-based review of the palaeontological record yielded calibrations for 137 phylogenetic nodes. The angiosperm crown age was bound within a confidence interval calculated with a method that considers the fossil record of the group. An Early Cretaceous crown angiosperm age was estimated with high confidence. Magnoliidae, Monocotyledoneae and Eudicotyledoneae diversified synchronously 135-130 million yr ago (Ma); Pentapetalae is 126-121 Ma; and Rosidae (123-115 Ma) preceded Asteridae (119-110 Ma). Family stem ages are continuously distributed between c. 140 and 20 Ma. This time-frame documents an early phylogenetic proliferation that led to the establishment of major angiosperm lineages, and the origin of over half of extant families, in the Cretaceous. While substantial amounts of angiosperm morphological and functional diversity have deep evolutionary roots, extant species richness was probably acquired later.read more
Citations
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Fundamentals of molecular evolution
TL;DR: Fundamentals of Molecular Evolution Dan Graur, Wen ...
Journal ArticleDOI
Constructing a broadly inclusive seed plant phylogeny.
Stephen A. Smith,Joseph W. Brown +1 more
TL;DR: This study demonstrates a means for combining available resources to construct a dated phylogeny for plants by combining genetic data from public repositories with phylogenetic data from Open Tree of Life, resulting in a seed plant phylogeny.
Journal ArticleDOI
The pineapple genome and the evolution of CAM photosynthesis
Ray Ming,Ray Ming,Robert VanBuren,Robert VanBuren,Robert VanBuren,Ching Man Wai,Ching Man Wai,Haibao Tang,Haibao Tang,Michael C. Schatz,John E. Bowers,Eric Lyons,Ming Li Wang,Jung Chen,Eric Biggers,Jisen Zhang,Lixian Huang,Lingmao Zhang,Wenjing Miao,Jian Zhang,Zhangyao Ye,Chenyong Miao,Zhicong Lin,Hao Wang,Hongye Zhou,Won Cheol Yim,Henry D. Priest,Chunfang Zheng,Margaret R. Woodhouse,Patrick P. Edger,Romain Guyot,Hao-Bo Guo,Hong Guo,Guangyong Zheng,Ratnesh Singh,Anupma Sharma,Xiang Jia Min,Yun Zheng,Hayan Lee,James Gurtowski,Fritz J. Sedlazeck,Alex Harkess,Michael R. McKain,Zhenyang Liao,Jingping Fang,Juan Liu,Xiaodan Zhang,Qing Zhang,Weichang Hu,Yuan Qin,Kai Wang,Li Yu Chen,Neil J. Shirley,Yann-Rong Lin,Li Yu Liu,Alvaro G. Hernandez,Chris L. Wright,Vincent Bulone,Gerald A. Tuskan,Katy D. Heath,Francis Zee,Paul H. Moore,Ramanjulu Sunkar,Jim Leebens-Mack,Todd C. Mockler,Jeffrey L. Bennetzen,Michael Freeling,David Sankoff,Andrew H. Paterson,Xin-Guang Zhu,Xiaohan Yang,J. Andrew C. Smith,John C. Cushman,Robert E. Paull,Qingyi Yu +74 more
TL;DR: The pineapple lineage has transitioned from C3 photosynthesis to CAM, with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues, providing the first cis-regulatory link between CAM and circadian clock regulation.
Journal ArticleDOI
Origin of angiosperms and the puzzle of the Jurassic gap
Hong-Tao Li,Ting-Shuang Yi,Lian-Ming Gao,Peng-Fei Ma,Ting Zhang,Jun-Bo Yang,Matthew A. Gitzendanner,Matthew A. Gitzendanner,Peter W. Fritsch,Jie Cai,Yang Luo,Hong Wang,Michelle van der Bank,Shu-Dong Zhang,Qing-Feng Wang,Jian Wang,Zhirong Zhang,Chao-Nan Fu,Jing Yang,Peter M. Hollingsworth,Mark W. Chase,Mark W. Chase,Douglas E. Soltis,Pamela S. Soltis,Pamela S. Soltis,De-Zhu Li +25 more
TL;DR: A study reconstructed angiosperm phylogeny on the basis of plastome data representing 2,351 angiosperm and 187 gymnosperm species, and dated the origin of crown angiosperms to be significantly earlier than the estimates based on fossil data.
Journal ArticleDOI
Evolutionary history of Coleoptera revealed by extensive sampling of genes and species.
TL;DR: A time-calibrated phylogeny for Coleoptera is infer based on 95 protein-coding genes in 373 beetle species and an association between the hyperdiversification of beetles and the rise of angiosperms is suggested.
References
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TL;DR: MUSCLE is a new computer program for creating multiple alignments of protein sequences that includes fast distance estimation using kmer counting, progressive alignment using a new profile function the authors call the log-expectation score, and refinement using tree-dependent restricted partitioning.
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