TY - JOUR
T1 - Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes
AU - Liu, Yang
AU - Johnson, Matthew G.
AU - Cox, Cymon J.
AU - Medina, Rafael
AU - Devos, Nicolas
AU - Vanderpoorten, Alain
AU - Hedenäs, Lars
AU - Bell, Neil E.
AU - Shevock, James R.
AU - Aguero, Blanka
AU - Quandt, Dietmar
AU - Wickett, Norman J.
AU - Shaw, A. Jonathan
AU - Goffinet, Bernard
N1 - Funding Information:
This study was made possible through financial support from the US National Science Foundation (grants DEB-1240045 to BG; DEB-1239992 to N.J.W.; DEB-1239980 to A.J. S.), from the Fundação para a Ciência e a Technologia (FCT), Portugal (PTDC/BIA-EVF/ 1499/2014 to C.J.C.), as well as from the National Natural Science Foundation of China (grant 31470314 to Y.L.). DEB-1146168 to B.A. covered the specimen acquisition. For their contribution of specimens, we are also grateful to Hiroyuki Akiyama (Museum of Nature and Human Activities, Hyogo, Japan), William R. Buck (New York Botanical Garden), Patrick Dalton (University of Tasmania, Australia), Judith Harpel (University of British Columbia, Canada), Yu Jia (Institute of Botany, Chinese Academy of Sciences), Juan Larraín (Pontificia Universidad Católica de Valparaíso, Chile), Élisabeth Lavocat Bernard (Guadeloupe), Niklas Lönnell (University of Stockholm, Sweden), Jairo Patiño (Instituto de Productos Naturales and Agrobiología (IPNA-CSIC), La Laguna, Tenerife, Spain), Ann Rushing (Baylor University, TX), Steve Sillett (Humbold State University, USA), Li-Song Wang (Chinese Academy of Sciences, Kunming Botanical Garden, China), Patrick Williston (Smithers, British Columbia). We also wish to acknowledge the generosity of Mark Smith (Macroscopic Solution, CT) for his continuous assistance with the macropod photography, Dr. Adam Wilson (University at Buffalo) for the picture of Sphagnum, and of Dr. Yu-Kin He (Capital Normal University, Beijing, China) for providing fresh material of Takakia needed for the illustration. Dr. Wei Wang (Institute of Botany, Chinese Academy of Sciences) kindly commented on an earlier draft of the manuscript. Our probe design was made possible thanks to early access to transcriptome data from the One-Thousand Plant Transcriptome (1KP) Project, facilitated by Gane Wong, Jim Leebens-Mack, and Sean Graham. The Royal Botanic Garden Edinburgh (N. E.B.) is supported by the Scottish Government’s Rural and Environment Science and Analytical Services Division, and we are also grateful for the support in 2018 of players of People’s Postcode Lottery toward our scientific research.
Publisher Copyright:
© 2019, The Author(s).
PY - 2019/12/1
Y1 - 2019/12/1
N2 - Mosses are a highly diverse lineage of land plants, whose diversification, spanning at least 400 million years, remains phylogenetically ambiguous due to the lack of fossils, massive early extinctions, late radiations, limited morphological variation, and conflicting signal among previously used markers. Here, we present phylogenetic reconstructions based on complete organellar exomes and a comparable set of nuclear genes for this major lineage of land plants. Our analysis of 142 species representing 29 of the 30 moss orders reveals that relative average rates of non-synonymous substitutions in nuclear versus plastid genes are much higher in mosses than in seed plants, consistent with the emerging concept of evolutionary dynamism in mosses. Our results highlight the evolutionary significance of taxa with reduced morphologies, shed light on the relative tempo and mechanisms underlying major cladogenic events, and suggest hypotheses for the relationships and delineation of moss orders.
AB - Mosses are a highly diverse lineage of land plants, whose diversification, spanning at least 400 million years, remains phylogenetically ambiguous due to the lack of fossils, massive early extinctions, late radiations, limited morphological variation, and conflicting signal among previously used markers. Here, we present phylogenetic reconstructions based on complete organellar exomes and a comparable set of nuclear genes for this major lineage of land plants. Our analysis of 142 species representing 29 of the 30 moss orders reveals that relative average rates of non-synonymous substitutions in nuclear versus plastid genes are much higher in mosses than in seed plants, consistent with the emerging concept of evolutionary dynamism in mosses. Our results highlight the evolutionary significance of taxa with reduced morphologies, shed light on the relative tempo and mechanisms underlying major cladogenic events, and suggest hypotheses for the relationships and delineation of moss orders.
UR - http://www.scopus.com/inward/record.url?scp=85063749214&partnerID=8YFLogxK
U2 - 10.1038/s41467-019-09454-w
DO - 10.1038/s41467-019-09454-w
M3 - Article
C2 - 30940807
AN - SCOPUS:85063749214
VL - 10
JO - Nature Communications
JF - Nature Communications
SN - 2041-1723
IS - 1
M1 - 1485
ER -