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Dimitrov D, Xu X, Su X, Shrestha N, Liu Y, Kennedy JD, Lyu L, Nogués-Bravo D, Rosindell J, Yang Y, Fjeldså J, Liu J, Schmid B, Fang J, Rahbek C, Wang Z. Diversification of flowering plants in space and time. Nat Commun 2023; 14:7609. [PMID: 37993449 PMCID: PMC10665465 DOI: 10.1038/s41467-023-43396-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Accepted: 11/08/2023] [Indexed: 11/24/2023] Open
Abstract
The rapid diversification and high species richness of flowering plants is regarded as 'Darwin's second abominable mystery'. Today the global spatiotemporal pattern of plant diversification remains elusive. Using a newly generated genus-level phylogeny and global distribution data for 14,244 flowering plant genera, we describe the diversification dynamics of angiosperms through space and time. Our analyses show that diversification rates increased throughout the early Cretaceous and then slightly decreased or remained mostly stable until the end of the Cretaceous-Paleogene mass extinction event 66 million years ago. After that, diversification rates increased again towards the present. Younger genera with high diversification rates dominate temperate and dryland regions, whereas old genera with low diversification dominate the tropics. This leads to a negative correlation between spatial patterns of diversification and genus diversity. Our findings suggest that global changes since the Cenozoic shaped the patterns of flowering plant diversity and support an emerging consensus that diversification rates are higher outside the tropics.
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Affiliation(s)
- Dimitar Dimitrov
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
- Department of Natural History, University Museum of Bergen, University of Bergen, P.O. Box 7800, 5020, Bergen, Norway
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
- Natural History Museum, University of Oslo, PO Box 1172 Blindern, NO-0318, Oslo, Norway
| | - Xiaoting Xu
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, Sichuan, China
| | - Xiangyan Su
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
- Land Consolidation and Rehabilitation Center, Ministry of Natural Resources, Beijing, 100035, China
| | - Nawal Shrestha
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, 730000, Gansu, China
| | - Yunpeng Liu
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
| | - Jonathan D Kennedy
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Lisha Lyu
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
- School of Urban Planning and Design, Shenzhen Graduate School, Peking University, Shenzhen, 518055, Shenzhen, China
| | - David Nogués-Bravo
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
| | - James Rosindell
- Department of Life Sciences, Imperial College London, Silwood Park Campus, Ascot, Berkshire, SL5 7PY, UK
| | - Yong Yang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Life Sciences, Nanjing Forestry University, 159 Longpan Rd., Nanjing, 210037, China
| | - Jon Fjeldså
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
- Natural History Museum, University of Oslo, PO Box 1172 Blindern, NO-0318, Oslo, Norway
| | - Jianquan Liu
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, Sichuan, China
| | - Bernhard Schmid
- Department of Geography, University of Zurich, Winterthurerstrasse 190, 8057, Zurich, Switzerland
| | - Jingyun Fang
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
| | - Carsten Rahbek
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark
- Danish Institute for Advanced Study, University of Southern Denmark, Odense, Denmark
| | - Zhiheng Wang
- Institute of Ecology and Key Laboratory for Earth Surface Processes of the Ministry of Education, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China.
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark.
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2
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Kulkarni SS, Steiner HG, Garcia EL, Iuri H, Jones RR, Ballesteros JA, Gainett G, Graham MR, Harms D, Lyle R, Ojanguren-Affilastro AA, Santibañez-López CE, Silva de Miranda G, Cushing PE, Gavish-Regev E, Sharma PP. Neglected no longer: Phylogenomic resolution of higher-level relationships in Solifugae. iScience 2023; 26:107684. [PMID: 37694155 PMCID: PMC10484990 DOI: 10.1016/j.isci.2023.107684] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 06/26/2023] [Accepted: 08/14/2023] [Indexed: 09/12/2023] Open
Abstract
Advanced sequencing technologies have expedited resolution of higher-level arthropod relationships. Yet, dark branches persist, principally among groups occurring in cryptic habitats. Among chelicerates, Solifugae ("camel spiders") is the last order lacking a higher-level phylogeny and have thus been historically characterized as "neglected [arachnid] cousins". Though renowned for aggression, remarkable running speed, and xeric adaptation, inferring solifuge relationships has been hindered by inaccessibility of diagnostic morphological characters, whereas molecular investigations have been limited to one of 12 recognized families. Our phylogenomic dataset via capture of ultraconserved elements sampling all extant families recovered a well-resolved phylogeny, with two distinct groups of New World taxa nested within a broader Paleotropical radiation. Divergence times using fossil calibrations inferred that Solifugae radiated by the Permian, and most families diverged prior to the Paleogene-Cretaceous extinction, likely driven by continental breakup. We establish Boreosolifugae new suborder uniting five Laurasian families, and Australosolifugae new suborder uniting seven Gondwanan families using morphological and biogeographic signal.
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Affiliation(s)
- Siddharth S. Kulkarni
- Department of Integrative Biology, University of Wisconsin–Madison, Madison, WI 53706, USA
| | - Hugh G. Steiner
- Department of Integrative Biology, University of Wisconsin–Madison, Madison, WI 53706, USA
| | - Erika L. Garcia
- Department of Zoology, Denver Museum of Nature & Science, Denver, CO 80205, USA
| | - Hernán Iuri
- División de Aracnología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”, Buenos Aires 1405DJR, Argentina
| | - R. Ryan Jones
- Department of Zoology, Denver Museum of Nature & Science, Denver, CO 80205, USA
| | | | - Guilherme Gainett
- Department of Integrative Biology, University of Wisconsin–Madison, Madison, WI 53706, USA
| | - Matthew R. Graham
- Department of Biology, Eastern Connecticut State University, Willimantic, CT 06226, USA
| | - Danilo Harms
- Museum of Nature Hamburg - Zoology, Department of Invertebrates, Leibniz Institute for the Analysis of Biodiversity Change, Hamburg, Germany
| | - Robin Lyle
- Biosystematics: Arachnology, ARC—Plant Health and Protection, Pretoria, South Africa
| | | | | | - Gustavo Silva de Miranda
- Department of Entomology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20560, USA
| | - Paula E. Cushing
- Department of Zoology, Denver Museum of Nature & Science, Denver, CO 80205, USA
| | - Efrat Gavish-Regev
- The National Natural History Collections, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Prashant P. Sharma
- Department of Integrative Biology, University of Wisconsin–Madison, Madison, WI 53706, USA
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3
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Bridges JD, Tarduno JA, Cottrell RD, Herbert TD. Rapid strengthening of westerlies accompanied intensification of Northern Hemisphere glaciation. Nat Commun 2023; 14:3905. [PMID: 37400450 DOI: 10.1038/s41467-023-39557-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Accepted: 06/19/2023] [Indexed: 07/05/2023] Open
Abstract
The trigger, pace, and nature of the intensification of Northern Hemisphere Glaciation (iNHG) are uncertain, but can be probed by study of ODP Site 1208 North Pacific marine sediments. Herein, we present magnetic proxy data that indicate a 4-fold increase of dust between ~ 2.73 and ~ 2.72 Ma, with subsequent increases at the start of glacials thereafter, indicating a strengthening of the mid-latitude westerlies. Moreover, a permanent shift in dust composition after 2.72 Ma is observed, consistent with drier conditions in the source region and/or the incorporation of material which could not have been transported via the weaker Pliocene winds. The sudden increase in our dust proxy data, a coeval rapid rise in dust recorded by proxy dust data in the North Atlantic (Site U1313), and the Site 1208 shift in dust composition, suggest that the iNHG represents a permanent crossing of a climate threshold toward global cooling and ice sheet growth, ultimately driven by lower atmospheric CO2.
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Affiliation(s)
- Joshua D Bridges
- Department of Earth and Environmental Sciences, University of Rochester, Rochester, NY, 14627, USA.
| | - John A Tarduno
- Department of Earth and Environmental Sciences, University of Rochester, Rochester, NY, 14627, USA.
- Department of Physics and Astronomy, University of Rochester, Rochester, NY, 14627, USA.
- Laboratory of Laser Energetics, University of Rochester, Rochester, NY, 14623, USA.
| | - Rory D Cottrell
- Department of Earth and Environmental Sciences, University of Rochester, Rochester, NY, 14627, USA
| | - Timothy D Herbert
- Department of Earth, Environmental and Planetary Sciences, Brown University, Providence, RI, 02912, USA
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4
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Late Miocene Tarim desert wetting linked with eccentricity minimum and East Asian monsoon weakening. Nat Commun 2022; 13:3977. [PMID: 35803935 PMCID: PMC9270403 DOI: 10.1038/s41467-022-31577-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Accepted: 06/23/2022] [Indexed: 11/08/2022] Open
Abstract
Periodic wetting is an inherent feature of many monsoon marginal region deserts. Previous studies consistently demonstrate desert wetting during times of Earth's high orbital eccentricity and strong summer monsoon. Here we report the first evidence demonstrating desert wetting during Earth's low orbital eccentricity from the late Miocene strata of the northwestern Tarim Basin of northern China, which is commonly thought to be beyond the range of Asian monsoon precipitation. Using mechanisms for modern Tarim wetting as analogs, we propose that East Asian summer monsoon weakening enhanced westward moisture transport and caused opposite desert wetting pattern to that observed in monsoon marginal region deserts. This inference is supported by our model simulations. This result has far-reaching implications for understanding environmental variations in non-monsoonal deserts in the next few thousands of years under high atmospheric CO2 content and low eccentricity.
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5
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Eccentricity forcing of East Asian monsoonal systems over the past 3 million years. Proc Natl Acad Sci U S A 2021; 118:2107055118. [PMID: 34670836 DOI: 10.1073/pnas.2107055118] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/14/2021] [Indexed: 11/18/2022] Open
Abstract
The East Asian summer monsoon and the precipitation it brings are relevant for millions of people. Because of the monsoon's importance, there has been a substantial amount of work attempting to describe the driving mechanisms behind its past variability. However, discrepancies exist, with speleothem-based East Asian monsoon reconstructions differing from those based on loess records from the Chinese Loess Plateau during the late Quaternary. The periodicity of wet and dry phases experienced by desert areas that lie on the periphery of the East Asian monsoon's influence offer another independent view of monsoonal variability. Here, we provide environmental records based on magnetic parameters for the last 3 million years from the Tengger Desert, China, one such marginal arid region. Our results reveal wet-dry cycles at a dominant frequency of 405 kiloyears, with drier intervals corresponding to eccentricity minima. These findings are consistent with previous reconstructions of East Asian summer and North African summer monsoon precipitation variability. Our records emphasize the dominant role of eccentricity in forcing East Asian monsoonal precipitation as well as monsoonal-derived environmental fluctuations experienced in peripheral desert areas. These results challenge the traditional view that high-latitude ice sheets are the primary driver of East Asian monsoon precipitation during the Quaternary based on Chinese loess records.
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6
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Xie G, Sun B, Li JF, Wang SQ, Yao YF, Li M, Zhang XC, Ferguson DK, Li CS, Liu XD, Deng T, Wang YF. Fossil evidence reveals uplift of the central Tibetan Plateau and differentiated ecosystems during the Late Oligocene. Sci Bull (Beijing) 2021; 66:1164-1167. [PMID: 36654353 DOI: 10.1016/j.scib.2021.02.022] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Revised: 01/29/2021] [Accepted: 02/01/2021] [Indexed: 01/20/2023]
Affiliation(s)
- Gan Xie
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Bin Sun
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Jin-Feng Li
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Shi-Qi Wang
- Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yi-Feng Yao
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Min Li
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Xian-Chun Zhang
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - David K Ferguson
- Department of Paleontology, University of Vienna, Vienna A-1090, Austria
| | - Cheng-Sen Li
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Xiao-Dong Liu
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an 710075, China; Center for Excellence in Tibetan Plateau Earth Sciences, Chinese Academy of Sciences, Beijing 100101, China.
| | - Tao Deng
- Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Yu-Fei Wang
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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7
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Abell JT, Winckler G, Anderson RF, Herbert TD. Poleward and weakened westerlies during Pliocene warmth. Nature 2021; 589:70-75. [PMID: 33408375 DOI: 10.1038/s41586-020-03062-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Accepted: 10/19/2020] [Indexed: 11/09/2022]
Abstract
The prevailing mid-latitude westerly winds, known as the westerlies, are a fundamental component of the climate system because they have a crucial role in driving surface ocean circulation1 and modulating air-sea heat, momentum and carbon exchange1-3. Recent work suggests that westerly wind belts are migrating polewards in response to anthropogenic forcing4,5. Reconstructing the westerlies during past warm periods such as the Pliocene epoch, in which atmospheric carbon dioxide (CO2) was about 350 to 450 parts per million6 and temperatures were about 2 to 4 degrees Celsius higher than today7, can improve our understanding of changes in the position and strength of these wind systems as the climate continues to warm. Here we show that the westerlies were weaker and more poleward during the warm Pliocene than during glacial periods after the intensification of Northern Hemisphere glaciation (iNHG), which occurred around 2.73 million years ago8. Our results, which are based on dust and export productivity reconstructions, indicate that major ice sheet development during the iNHG was accompanied by substantial increases in dust fluxes in the mid-latitude North Pacific Ocean, especially compared to those in the subarctic North Pacific. Following this shift, changes in dust and productivity largely track the glacial-interglacial cycles of the late Pliocene and early Pleistocene epochs. On the basis of this pattern, we infer that shifts in the westerlies were primarily driven by variations in Plio-Pleistocene thermal gradients and ice volume. By combining this relationship with other dust records9-11 and climate modelling results12, we find that the proposed changes in the westerlies were globally synchronous. If the Pliocene is predictive of future warming, we posit that continued poleward movement and weakening of the present-day westerlies in both hemispheres can be expected.
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Affiliation(s)
- Jordan T Abell
- Lamont-Doherty Earth Observatory, Columbia University, Palisades, NY, USA. .,Department of Earth and Environmental Sciences, Columbia University, New York, NY, USA.
| | - Gisela Winckler
- Lamont-Doherty Earth Observatory, Columbia University, Palisades, NY, USA.,Department of Earth and Environmental Sciences, Columbia University, New York, NY, USA
| | - Robert F Anderson
- Lamont-Doherty Earth Observatory, Columbia University, Palisades, NY, USA.,Department of Earth and Environmental Sciences, Columbia University, New York, NY, USA
| | - Timothy D Herbert
- Department of Earth, Environmental and Planetary Sciences, Brown University, Providence, RI, USA
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8
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Phylogeny, Taxonomy, and Biogeography of Pterocarya (Juglandaceae). PLANTS 2020; 9:plants9111524. [PMID: 33182441 PMCID: PMC7696814 DOI: 10.3390/plants9111524] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Revised: 11/02/2020] [Accepted: 11/06/2020] [Indexed: 12/11/2022]
Abstract
Relict species play an important role in understanding the biogeography of intercontinental disjunctions. Pterocarya (a relict genus) is the valuable model taxon for studying the biogeography of East Asian versus southern European/West Asian disjunct patterns. This disjunction has not been as well studied as others (e.g., between Eastern Asia and North America). Several phylogenetic studies on Pterocarya have been conducted, but none have provided a satisfactory phylogenetic resolution. Here, we report the first well-resolved phylogeny of Pterocarya using restriction site-associated DNA sequencing data based on the sampling of all taxa across the entire distribution area of the genus. Taxonomic treatments were also clarified by combining morphological traits. Furthermore, fossil-calibrated phylogeny was used to explore the biogeography of Pterocarya. Our results support the existence of two sections in Pterocarya, which is in accordance with morphological taxonomy. Section Platyptera comprises three species: P. rhoifolia, P. macroptera, and P. delavayi. Section Pterocarya also comprises three species: P. fraxinifolia, P. hupehensis, and P. stenoptera. The divergence between the two sections took place during the early Miocene (20.5 Ma). The formation of the Gobi Desert and climate cooling of northern Siberia in the Middle Miocene (15.7 Ma) might have caused the split of the continuous distribution of this genus and the formation of the East Asian versus southern European/West Asian disjunct pattern. Lastly, the divergence between P. hupehensis and P. stenoptera as well as between P. rhoifolia and P. macroptera/P. delavayi (10.0 Ma) supports the late Miocene diversification hypothesis in East Asia.
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Jia H, Liu G, Li J, Zhang J, Sun P, Zhao S, Zhou X, Lu M, Hu J. Genome resequencing reveals demographic history and genetic architecture of seed salinity tolerance in Populus euphratica. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:4308-4320. [PMID: 32242238 PMCID: PMC7475257 DOI: 10.1093/jxb/eraa172] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Accepted: 04/01/2020] [Indexed: 05/07/2023]
Abstract
Populus euphratica is a dominant tree species in desert riparian forests and possesses extraordinary adaptation to salinity stress. Exploration of its genomic variation and molecular underpinning of salinity tolerance is important for elucidating population evolution and identifying stress-related genes. Here, we identify approximately 3.15 million single nucleotide polymorphisms using whole-genome resequencing. The natural populations of P. euphratica in northwest China are divided into four distinct clades that exhibit strong geographical distribution patterns. Pleistocene climatic fluctuations and tectonic deformation jointly shaped the extant genetic patterns. A seed germination rate-based salinity tolerance index was used to evaluate seed salinity tolerance of P. euphratica and a genome-wide association study was implemented. A total of 38 single nucleotide polymorphisms were associated with seed salinity tolerance and were located within or near 82 genes. Expression profiles showed that most of these genes were regulated under salt stress, revealing the genetic complexity of seed salinity tolerance. Furthermore, DEAD-box ATP-dependent RNA helicase 57 and one undescribed gene (CCG029559) were demonstrated to improve the seed salinity tolerance in transgenic Arabidopsis. These results provide new insights into the demographic history and genetic architecture of seed salinity tolerance in desert poplar.
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Affiliation(s)
- Huixia Jia
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
| | | | - Jianbo Li
- Experimental Center of Forestry in North China, Chinese Academy of Forestry, Beijing, China
| | - Jin Zhang
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Pei Sun
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
| | - Shutang Zhao
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
| | - Xun Zhou
- Beijing Novogene Co. Ltd, Beijing, China
| | - Mengzhu Lu
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Correspondence: or
| | - Jianjun Hu
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Correspondence: or
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Kumar B, Cheng J, Ge D, Xia L, Yang Q. Phylogeography and ecological niche modeling unravel the evolutionary history of the Yarkand hare, Lepus yarkandensis (Mammalia: Leporidae), through the Quaternary. BMC Evol Biol 2019; 19:113. [PMID: 31153378 PMCID: PMC6545225 DOI: 10.1186/s12862-019-1426-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2019] [Accepted: 04/22/2019] [Indexed: 01/29/2023] Open
Abstract
Background The Taklimakan Desert in China is characterized by unique geological and historical dynamics and endemic flora and fauna, but the influence of historical climate oscillations on the evolutionary history of endemic animals is poorly understood. Lepus yarkandensis is an oases-dependent Near Threatened species that lives in fragmented oasis habitats in the Taklimakan Desert, China. We investigated the geological and climatic impacts on its geographical differentiation, demographic history and influence of Pleistocene glacial-interglacial cycles on the evolutionary history of L. yarkandensis. Further, studied the impact of climatic oscillation based modification on phylogeography, distribution and diversification pattern of Yarkand hare by using Cytb (1140 bp), MGF (592 bp) and SPTBN1 (619 bp) markers. Ecological niche modeling (ENM) revealed the evolutionary history of this species in response to climate change during the Quaternary. Paleodistribution modeling was used to identify putative refugia and estimate their historical distributions. Results Both historical demographic analyses and climatic niche modeling revealed strong effects of glacial climate changes, suggesting recurrent range contractions and expansions. The EBSP results indicated clear population expansion of L. yarkandensis since the Pleistocene. In the “early Pleistocene”, the demographic expansion continued from 0.83 MYA to the last glacial period. The ENM analysis supported a wide distribution of Lepus yarkandensis at high altitudes during the last interglacial (LIG) period. During the last glacial maximum (LGM), the suitable climate was reduced and restricted to the western part of the Taklimakan Desert. Conclusions Inland aridification, oasis evolution and river flow played major roles in the population differentiation and demographic history of Yarkand hares. Historically, the large, continuous oases in the Taklimakan Desert contained a viable and unique population of L. yarkandensis. The fragmented desert environment might have caused low gene flow between individuals or groups, thus leading to predominant genetic differentiation. The Pleistocene climatic cycles triggered the diversification and expansion of this species during cold and warm periods, respectively, leading to multiple colonization events within the Taklimakan Desert. These events might be due to the expansion of the Taklimakan Desert during the Middle Pleistocene. Yarkand hare previously occupied vast areas at low and intermediate altitudes in Xinjiang, Gansu, Shanxi, Henan and Shaanxi Provinces in China. The past aridification, climate change-induced oasis modifications, changes in river volumes and flow directions, and human activities all affected the population demography and phylogeography of the Yarkand hare. Electronic supplementary material The online version of this article (10.1186/s12862-019-1426-z) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Brawin Kumar
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing, 100101, People's Republic of China.,International College, University of Chinese Academy of Sciences, Beijing, People's Republic of China
| | - Jilong Cheng
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing, 100101, People's Republic of China
| | - Deyan Ge
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing, 100101, People's Republic of China
| | - Lin Xia
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing, 100101, People's Republic of China
| | - Qisen Yang
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing, 100101, People's Republic of China.
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11
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Oxygen and Carbon Stable Isotope Composition of Cretaceous to Pliocene Calcareous Paleosols in the Tian Shan Region (Central Asia): Controlling Factors and Paleogeographic Implications. GEOSCIENCES 2018. [DOI: 10.3390/geosciences8090330] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The Late Mesozoic–Cenozoic topographic and climate evolution of Central Asia remains highly debated. The final retreat of the proto-Paratethys Sea from the western Tarim Basin is thought to correspond in time with the onset of tectonic uplift in the Pamir, Tian Shan and Altai ranges, as well as with regional aridification. The oxygen and carbon isotope compositions of the sediment deposits in the various Central Asian basins have already been used to decipher both the topographic and climatic changes that occurred in that region during the Cenozoic, generally concentrating on one sedimentary section and/or on a limited time range and either using multiple-type samples including sandstone calcitic cements, marine carbonates, fossils, or paleosols. In order to get a homogeneous dataset, minimizing variations in the isotopic composition of the material depending on its type and/or depositional environment, we selected only calcareous paleosols sampled in several continuous sections covering a wide time range from the Late Jurassic to the Pliocene. Our sampling also covers a wide area encompassing the whole Tian Shan region, which allows detecting regional variations in the δ18O and δ13C values. We show that the influence of the distance to the proto-Paratethys Sea on the paleosol δ18O record was not significant. Besides local factors such as the occurrence of large lakes that can have a significant effect on the isotopic composition of the calcareous paleosols, the long-term evolution of both the δ18O and δ13C values possibly reflects the hypsometry of the river drainage systems that bring water to the basins. However, as it is commonly accepted that the δ18O of soil carbonates is controlled by the δ18O of in-situ precipitation, this last conclusion remains to be further investigated.
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First long-term detection of paleo-oceanic signature of dust aerosol at the southern marginal area of the Taklimakan Desert. Sci Rep 2018; 8:6779. [PMID: 29712972 PMCID: PMC5928038 DOI: 10.1038/s41598-018-25166-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Accepted: 04/16/2018] [Indexed: 11/23/2022] Open
Abstract
We firstly conducted a long-term in-situ field measurement at a marginal area (Hotan) of the southern Taklimakan Desert covering all four seasons. Detailed chemical characterization of dust aerosol over Hotan showed several unconventional features, including (1) ubiquity of high Na+ and Cl− abundances in the Taklimakan dust aerosol and its Cl−/Na+ ratio close to seawater; (2) high Ca content in the Taklimakan dust (7.4~8.0%) which was about two times of that in the natural crust; (3) high abundance of soluble sulfate concentrations and strong correlations between sulfate and Na+ and Cl− as well as typical mineral tracers such as Al and Ca. Our results collectively indicated that the dust aerosol from the Taklimakan Desert was characterized of evident paelo-oceanic signature as the Taklimakan Desert was found as an ocean in the ancient times from the perspective of paleogeology. It was estimated that primary sources dominated the total abundances of sulfate during the dust seasons while previous climate modeling works had seldom considered the cooling effects of sulfate from the Taklimakan Desert.
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Solovyeva EN, Lebedev VS, Dunayev EA, Nazarov RA, Bannikova AA, Che J, Murphy RW, Poyarkov NA. Cenozoic aridization in Central Eurasia shaped diversification of toad-headed agamas ( Phrynocephalus; Agamidae, Reptilia). PeerJ 2018; 6:e4543. [PMID: 29576991 PMCID: PMC5863718 DOI: 10.7717/peerj.4543] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2017] [Accepted: 03/06/2018] [Indexed: 12/03/2022] Open
Abstract
We hypothesize the phylogenetic relationships of the agamid genus Phrynocephalus to assess how past environmental changes shaped the evolutionary and biogeographic history of these lizards and especially the impact of paleogeography and climatic factors. Phrynocephalus is one of the most diverse and taxonomically confusing lizard genera. As a key element of Palearctic deserts, it serves as a promising model for studies of historical biogeography and formation of arid habitats in Eurasia. We used 51 samples representing 33 of 40 recognized species of Phrynocephalus covering all major areas of the genus. Molecular data included four mtDNA (COI, ND2, ND4, Cytb; 2,703 bp) and four nuDNA protein-coding genes (RAG1, BDNF, AKAP9, NKTR; 4,188 bp). AU-tests were implemented to test for significant differences between mtDNA- and nuDNA-based topologies. A time-calibrated phylogeny was estimated using a Bayesian relaxed molecular clock with nine fossil calibrations. We reconstructed the ancestral area of origin, biogeographic scenarios, body size, and the evolution of habitat preference. Phylogenetic analyses of nuDNA genes recovered a well-resolved and supported topology. Analyses detected significant discordance with the less-supported mtDNA genealogy. The position of Phrynocephalus mystaceus conflicted greatly between the two datasets. MtDNA introgression due to ancient hybridization best explained this result. Monophyletic Phrynocephalus contained three main clades: (I) oviparous species from south-western and Middle Asia; (II) viviparous species of Qinghai–Tibetan Plateau (QTP); and (III) oviparous species of the Caspian Basin, Middle and Central Asia. Phrynocephalus originated in late Oligocene (26.9 Ma) and modern species diversified during the middle Miocene (14.8–13.5 Ma). The reconstruction of ancestral areas indicated that Phrynocephalus originated in Middle East–southern Middle Asia. Body size miniaturization likely occurred early in the history of Phrynocephalus. The common ancestor of Phrynocephalus probably preferred sandy substrates with the inclusion of clay or gravel. The time of Agaminae radiation and origin of Phrynocephalus in the late Oligocene significantly precedes the landbridge between Afro-Arabia and Eurasia in the Early Miocene. Diversification of Phrynocephalus coincides well with the mid-Miocene climatic transition when a rapid cooling of climate drove progressing aridification and the Paratethys salinity crisis. These factors likely triggered the spreading of desert habitats in Central Eurasia, which Phrynocephalus occupied. The origin of the viviparous Tibetan clade has been associated traditionally with uplifting of the QTP; however, further studies are needed to confirm this. Progressing late Miocene aridification, the decrease of the Paratethys Basin, orogenesis, and Plio–Pleistocene climate oscillations likely promoted further diversification within Phrynocephalus. We discuss Phrynocephalus taxonomy in scope of the new analyses.
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Affiliation(s)
| | | | - Evgeniy A Dunayev
- Zoological Museum, Lomonosov Moscow State University, Moscow, Russia
| | - Roman A Nazarov
- Zoological Museum, Lomonosov Moscow State University, Moscow, Russia
| | - Anna A Bannikova
- Biological Faculty, Department of Vertebrate Zoology, Lomonosov Moscow State University, Moscow, Russia
| | - Jing Che
- State Key Laboratory of Genetic Resources and Evolution, and Center for Excellence in Animal Evolution and Genetics, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, China.,Southeast Asia Biodiversity Research Institute, Chinese Academy of Sciences, Yezin, Nay Pyi Taw, Myanmar
| | - Robert W Murphy
- State Key Laboratory of Genetic Resources and Evolution, and Center for Excellence in Animal Evolution and Genetics, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, China.,Faculty of Arts and Science, Department of Ecology & Evolutionary Biology, University of Toronto, Toronto, ON, Canada
| | - Nikolay A Poyarkov
- Biological Faculty, Department of Vertebrate Zoology, Lomonosov Moscow State University, Moscow, Russia
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Resilience of the Asian atmospheric circulation shown by Paleogene dust provenance. Nat Commun 2016; 7:12390. [PMID: 27488503 PMCID: PMC4976207 DOI: 10.1038/ncomms12390] [Citation(s) in RCA: 57] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2016] [Accepted: 06/28/2016] [Indexed: 11/08/2022] Open
Abstract
The onset of modern central Asian atmospheric circulation is traditionally linked to the interplay of surface uplift of the Mongolian and Tibetan-Himalayan orogens, retreat of the Paratethys sea from central Asia and Cenozoic global cooling. Although the role of these players has not yet been unravelled, the vast dust deposits of central China support the presence of arid conditions and modern atmospheric pathways for the last 25 million years (Myr). Here, we present provenance data from older (42-33 Myr) dust deposits, at a time when the Tibetan Plateau was less developed, the Paratethys sea still present in central Asia and atmospheric pCO2 much higher. Our results show that dust sources and near-surface atmospheric circulation have changed little since at least 42 Myr. Our findings indicate that the locus of central Asian high pressures and concurrent aridity is a resilient feature only modulated by mountain building, global cooling and sea retreat.
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Betzler C, Eberli GP, Kroon D, Wright JD, Swart PK, Nath BN, Alvarez-Zarikian CA, Alonso-García M, Bialik OM, Blättler CL, Guo JA, Haffen S, Horozal S, Inoue M, Jovane L, Lanci L, Laya JC, Mee ALH, Lüdmann T, Nakakuni M, Niino K, Petruny LM, Pratiwi SD, Reijmer JJG, Reolid J, Slagle AL, Sloss CR, Su X, Yao Z, Young JR. The abrupt onset of the modern South Asian Monsoon winds. Sci Rep 2016; 6:29838. [PMID: 27436574 PMCID: PMC4951686 DOI: 10.1038/srep29838] [Citation(s) in RCA: 100] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2016] [Accepted: 06/21/2016] [Indexed: 11/23/2022] Open
Abstract
The South Asian Monson (SAM) is one of the most intense climatic elements yet its initiation and variations are not well established. Dating the deposits of SAM wind-driven currents in IODP cores from the Maldives yields an age of 12. 9 Ma indicating an abrupt SAM onset, over a short period of 300 kyrs. This coincided with the Indian Ocean Oxygen Minimum Zone expansion as revealed by geochemical tracers and the onset of upwelling reflected by the sediment’s content of particulate organic matter. A weaker ‘proto-monsoon’ existed between 12.9 and 25 Ma, as mirrored by the sedimentary signature of dust influx. Abrupt SAM initiation favors a strong influence of climate in addition to the tectonic control, and we propose that the post Miocene Climate Optimum cooling, together with increased continentalization and establishment of the bipolar ocean circulation, i.e. the beginning of the modern world, shifted the monsoon over a threshold towards the modern system.
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Affiliation(s)
- Christian Betzler
- Institute of Geology, CEN, University of Hamburg, Bundesstrasse 55, Hamburg 20146, Germany
| | - Gregor P Eberli
- Department of Marine Geosciences, Rosenstiel School of Marine &Atmospheric Science, University of Miami, Miami FL 33149, USA
| | - Dick Kroon
- Department of Geology and Geophysics, University of Edinburgh, Grant Institute, The King's Buildings, West Mains Road, Edinburgh EH9 3JW, United Kingdom
| | - James D Wright
- Department of Geological Sciences, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway NJ 08854-8066, USA
| | - Peter K Swart
- Department of Marine Geosciences, Rosenstiel School of Marine &Atmospheric Science, University of Miami, Miami FL 33149, USA
| | - Bejugam Nagender Nath
- Geological Oceanography Division, CSIR-National Institute of Oceanography, Dona Paula Goa 403004, India
| | - Carlos A Alvarez-Zarikian
- International Ocean Discovery Program, Texas A&M University, Discovery Drive, College Station TX 77845, USA
| | - Montserrat Alonso-García
- Instituto Portugues do Mar e da Atmosfera (IPMA), Divisão de Geologia e Georecursos Marinhos, Avenida de Brasilia 6, 1449-006 Lisboa, Portugal.,Centro de Ciencias do Mar (CCMAR), Universidade do Algarve, Faro, Portugal
| | - Or M Bialik
- Dr. Moses Strauss Department of Marine Geosciences, The Leon H. Charney School of Marine Sciences, University of Haifa, Carmel 31905, Israel
| | - Clara L Blättler
- Department of Geosciences, Princeton University, Guyot Hall, Princeton NJ 08544, USA
| | - Junhua Adam Guo
- Department of Geological Sciences, California State University Bakersfield, 9001 Stockdale Highway, Bakersfield, CA 93311, USA
| | - Sébastien Haffen
- Physical Properties Specialist, Ecole Nationale Superieure de Geologie, Universite de Lorraine, 2 rue du Doyen Marcel Roubault, Vandoeuvre-les-Nancy 54501, France
| | - Senay Horozal
- Petroleum and Marine Research Division, Korea Institute of Geoscience &Mineral Resources (KIGAM), Gwahang-no 124, Yuseong-gu, Daejeon 305-350, Korea
| | - Mayuri Inoue
- Graduate School of Natural Science and Technology, Okayama University, 3-1-1 Tsushima-naka 700-8530, Japan
| | - Luigi Jovane
- Instituto Oceanográfico da Universidade de São Paulo, Praça do Oceanográfico, 191, São Paulo, SP 05508-120, Brazil
| | - Luca Lanci
- Istituto di Scienze della Terra, Università di Urbino, Via S. Chiara 27, Urbino 61029, Italy
| | - Juan Carlos Laya
- Department of Geology and Geophysics, Texas A&M University, Mail Stop 3115, College Station TX 77843-3115, USA
| | - Anna Ling Hui Mee
- Department of Marine Geosciences, Rosenstiel School of Marine &Atmospheric Science, University of Miami, Miami FL 33149, USA
| | - Thomas Lüdmann
- Institute of Geology, CEN, University of Hamburg, Bundesstrasse 55, Hamburg 20146, Germany
| | - Masatoshi Nakakuni
- Department of Environmental Engineering for Symbiosis, Soka University, 1-236 Tangi-cyo, Hachioji-shi Tokyo 192-0003, Japan
| | - Kaoru Niino
- Graduate School of Science and Engineering, Yamagata University, 1-4-12 Kojirakawa-machi, Yamagata City 990-8560, Japan
| | - Loren M Petruny
- Environmental Science and Policy Department, David King Hall Rm 3005, MSN 5F2, George Mason University, University Drive, Fairfax, VA 22030-4444, USA
| | - Santi D Pratiwi
- Department of Geosciences, Geotechnology and Materials Engineering for Resources, Akita University, 1-1 Teagata-Gakuencho, Akita 010-8502 Japan
| | - John J G Reijmer
- Department of Earth and Life Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1085, HV Amsterdam, The Netherlands
| | - Jesús Reolid
- Institute of Geology, CEN, University of Hamburg, Bundesstrasse 55, Hamburg 20146, Germany
| | - Angela L Slagle
- Lamont-Doherty Earth Observatory, Columbia University, Borehole Bldg. 61 Route 9W, Palisades NY 10964, USA
| | - Craig R Sloss
- Earth and Environmental Sciences, University of Technology Queensland, R-Block 317, 2 George Street, Brisbane Queensland 4001, Australia
| | - Xiang Su
- Key Laboratory of Marginal Sea Geology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, West Xingang Road, Guangzhou 510301, P.R. China
| | - Zhengquan Yao
- Department of Marine Geology, First Institute of Oceanography (FIO) State Oceanic Administration (SOA), #6 Xian Xia Ling Road, Qingdao Shandong Province 266061, P.R. China.,Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, P.R. China
| | - Jeremy R Young
- Department of Earth Sciences, University College London, Gower Street, London WC1E 6BT, United Kingdom
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Zheng H. Asia dust production ramped up since latest Oligocene driven by Tibetan Plateau uplift. Natl Sci Rev 2016. [DOI: 10.1093/nsr/nww028] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Hongbo Zheng
- School of Geography Science, Nanjing Normal University, China
- CAS Center for Excellence in Tibetan Plateau Earth Sciences, China
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Reply to Sun et al.: Confirming the evidence for Late Oligocene-Early Miocene birth of the Taklimakan Desert. Proc Natl Acad Sci U S A 2015; 112:E5558-9. [PMID: 26430244 DOI: 10.1073/pnas.1517735112] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Refuting the evidence for an earlier birth of the Taklimakan Desert. Proc Natl Acad Sci U S A 2015; 112:E5556-7. [PMID: 26430245 DOI: 10.1073/pnas.1517525112] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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