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Application of plant DNA metabarcoding of lake sediments for monitoring vegetation compositions on the Tibetan Plateau

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Science China Earth Sciences 2024年第11期67卷 3594-3609页

作者： Kai WU Kai LI Weihan JIA Kathleen R.STOOF-LEICHSENRING ulrike herzschuh Jian NI Mengna LIAO Fang TIAN College of Life Sciences Zhejiang Normal University Polar Terrestrial Environmental Systems Research Group Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research Institute of Environmental Science and Geography University of Potsdam Institute of Biochemistry and Biology University of Potsdam College of Resource Environment and Tourism Capital Normal University

Benefiting from the rapid development of environmental DNA(eDNA) technologies, sedimentary DNA(sedDNA)emerges as a promising tool for monitoring plant compositions in remote regions. The Tibetan Plateau(TP), renowned for its harsh environment and numerous ponds and lakes, presents a potentially demanding region for the application of sedDNA on vegetation investigations. Here, we used the g and h universal primers for the P6 loop region of the chloroplast trn L(UAA)intron to amplify plant DNA in surface sediments from 59 ponds and small lakes on the southwestern TP. The applicability and limitations of using plant DNA metabarcoding for modern vegetation monitoring and palaeo-vegetation reconstructions have been assessed by comparing sedDNA, pollen, and vegetation survey data. Our results showed that plant DNA metabarcoding recorded 186 terrestrial taxa, of which 30.1% can be identified at the species level. The plant sedDNA approach can effectively disclose the dominant plant taxa(including Asteraceae, Cyperaceae and Poaceae) and significant vegetation assemblages in the vicinity of the investigated sites. The number of taxa and taxonomic resolution of plant sedDNA exceeded that of pollen analysis(75 taxa detected, 5.3% can be identified at species level). Unlike pollen that retains a broad spectrum of regional plant signals(including Pinus and Artemisia), plant sedDNA mirrors very local plants, underscoring its utility in local vegetation monitoring and reconstructions. To conclude, plant DNA metabarcoding of(small) lake sediments warrant increased attention in the future for local vegetation monitoring and reconstructions on the TP.

关键词： Sedimentary DNA (sedDNA) Metabarcoding Pollen Vegetation composition Tibetan Plateau

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湖泊沉积植物DNA宏条形码技术在青藏高原植被调查中的应用

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中国科学:地球科学 2024年第11期54卷 3629-3646页

作者：吴铠李凯贾伟瀚 Kathleen R.STOOF-LEICHSENRING ulrike herzschuh 倪健廖梦娜田芳浙江师范大学生命科学学院 Polar Terrestrial Environmental Systems Research Group Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research Institute of Environmental Science and Geography University of Potsdam Institute of Biochemistry and Biology University of Potsdam 首都师范大学资源环境与旅游学院

得益于环境DNA技术的快速发展,沉积DNA(sedDNA)正在成为偏远地区植被监测和调查的便捷方法,并具有较大的发展潜力.青藏高原气候环境条件恶劣,同时小型湖泊众多,利用sedDNA进行植被调查不仅有助于了解高原现代植被状况,也是进行高原古植... 详细信息

得益于环境DNA技术的快速发展,沉积DNA(sedDNA)正在成为偏远地区植被监测和调查的便捷方法,并具有较大的发展潜力.青藏高原气候环境条件恶劣,同时小型湖泊众多,利用sedDNA进行植被调查不仅有助于了解高原现代植被状况,也是进行高原古植被重建的潜在需求.本研究以中国青藏高原西南部59个泡子/湖泊表层沉积物为研究对象,使用通用植物引物g-h扩增叶绿体trn L(UAA)内含子P6环区,获取了sedDNA中的植物组成信息,并将其与野外植被调查记录和沉积物花粉数据进行对比分析,探讨了基于沉积物的植物DNA宏条形码技术在青藏高原地区现代植被监测和古植被重建中的适用性和局限性.研究结果表明,植物DNA宏条形码信号共记录了186个陆生植物类群,其中30.1%的序列可以鉴定到种水平.植物sedDNA方法可以揭示调查地点周围的主要植物类群(包括菊科、莎草科和禾本科)以及重要植被组合.植物sedDNA的类群数量和分类学分辨率均超过花粉分析(75个类群,其中5.3%的类群可以鉴定到种水平).与花粉保留大量的区域植物信号(包括松属和蒿属)不同,植物sedDNA反映了高度局地的植物信号,凸显了植物sedDNA在局地植被监测和重建中的重要性.综上所述,(小型)湖泊植物sedDNA宏条形码研究在未来的青藏高原区域植被监测和重建中值得更多的关注.

关键词：沉积DNA 宏条形码花粉植被组成青藏高原

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Complex vegetation responses to climate change on the Tibetan Plateau: a paleoecological perspective

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National Science Review 2015年第4期2卷 400-402页

作者： Yan Zhao ulrike herzschuh Quan Li Institute of Geographic Sciences and Natural Resources Research Chinese Academy of Sciences

Rapid major shits in vegetation types are most oten atributed to abrupt climate ***,recent studies have revealed non-linear vegetation responses to current global warming on the Tibetan Plateau[1].his also seems to be the case for the Holocene vegetation on the Tibetan *** high-elevation region is under the control of the Asian monsoon,causing relatively moist summers and dry *** inluence rapidly decreases from the southeastern to the northwestern parts of the

关键词： Complex vegetation responses to climate change on the Tibetan Plateau Lake a paleoecological perspective

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Complementarity of lacustrine pollen and sedimentary DNA in representing vegetation on the central-eastern Tibetan Plateau

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Frontiers of Earth Science 2023年第4期17卷 1037-1048页

作者： Fang TIAN Meijiao CHEN Weihan JIA ulrike herzschuh Xianyong CAO College of Resource Environment and Tourism Capital Normal UniversityBeijing 100048China Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research Polar Terrestrial Environmental Systems Research GroupPotsdam 14473Germany University of Potsdam Institute of Environmental Science and GeographyPotsdam 14476Germany University of Potsdam Institute of Biochemistry and BiologyPotsdam 14476Germany Group of Alpine Paleoecology and Human Adaptation(ALPHA) State Key Laboratory of Tibetan Plateau Earth SystemEnvironment and Resources(TPESER)Institute of Tibetan Plateau ResearchChinese Academy of SciencesBeijing 100101China

Plant environmental DNA extracted from lacustrine sediments(sedimentary DNA,sedDNA)has been increasingly used to investigate past vegetation changes and human impacts at a high taxonomic ***,the representation of vegetation communities surrounding the lake is still *** this study,we compared plant sedDNA metabarcoding and pollen assemblages from 27 lake surface-sediment samples collected from alpine meadow on the central-eastern Tibetan Plateau to investigate the representation of sedDNA *** general,the identified components of sedDNA are consistent with the counted pollen taxa and local plant *** to pollen identification,sedDNA data have higher taxonomic resolution,thus providing a potential approach for reconstructing past plant *** sedDNA signal is strongly influenced by local plants while rarely affected by exogenous *** of the overrepresentation of local plants and PCR bias,the abundance of sedDNA sequence types is very variable among sites,and should be treated with caution when investigating past vegetation cover and climate based on sedDNA *** finding suggests that sedDNA analysis can be a complementary approach for investigating the presence/absence of past plants and history of human land-use with higher taxonomic resolution.

关键词： Tibetan Plateau plant DNA metabarcoding pollen lake sediment plant diversity vegetation history

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A large Middle Pleistocene freshwater to oligohaline lake in the contemporary hyperarid Qaidam Basin （China）

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Episodes 2006年第1期29卷 34-38页

作者： Steffen Mischke ulrike herzschuh Naida Sun Zizhen Qiao Zhencheng Sun Institute of Geological Sciences Freie Universitiit Berlin Malteserstr. 74-100 12249 Berlin Germany. Alfred Wegener Institute for Polar and Marine Research Research Unit Potsdam Telegrafenberg A43 14473 Potsdam Germany China University of Petroleum Department of Earth Science Beijing 102200 P.R. China Headquarter of Petroleum Exploration and Development of Qinghai Province CNPC Dunhuang 736202 P.R. China

The Qaidam Basin （NW China） at the northern margin of the Tibetan Plateau is one of the driest places on Earth with mean annual precipitation not exceeding 25 mm in the western central part. Flat salt plains and wind-shaped hills characterise the bare ground over thousands of square kilometres. In contrast to presentday conditions, remnants of ancient shorelines in high positions identified by Chen and Bowler （1986） and HiJvermann and Siissenberger （1986） about 20 years ago herald of a former large lake but were not investigated further till now. Here we present the results of microfossil analysis and optically stimulated luminescence （OSL） as well as uranium-series （TIMS） dating of sediments from a thick sequence of predominantly lake deposits in the eastern central Qaidam Basin. Based on abundant ostracod （micro-crustacean） shells from this sequence, we infer that a large lake of several metres depth at least maintained primarily fresh to oligohaline conditions in the late Middle Pleistocene.

关键词： CENTRAL-ASIA PLATEAU MAGNETOSTRATIGRAPHY PROTOCOL UPLIFT LOESS

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Vegetation and climate change during Marine Isotope Stage 3 in China

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Chinese Science Bulletin 2014年第33期59卷 4444-4455页

作者： Yan Zhao Zicheng Yu ulrike herzschuh Bao Yang Hui Zhao Keyan Fang Huan Li Quan Li Institute of Geographic Sciences and Natural Resources Research Chinese Academy of Sciences Department of Earth and Environmental Sciences Lehigh University Alfred Wegner Institute for Polar and Marine Research Cold and Arid Regions Environment and Engineering Research Institute Chinese Academy of Sciences Fujian Normal University Research School of Arid Environment and Climate Change Lanzhou University

Fossil pollen records from 45 sites across China were evaluated and synthesized to document vegetation and climate change during Marine Isotope Stage 3(MIS 3)at 60–27 ka and to understand the large-scale *** MIS3, vegetation type was dominantly forest in eastern China, forest steppe/meadow in the north and Tibetan Plateau, and steppe desert in northwestern arid China. We developed a semi-quantitative vegetation index to reflect change in plant abundance(by inferring the general climate conditions), with a vegetation score from 1to 3 based on the different vegetation types inferred from pollen data at individual sites at intervals of 2,000 *** reconstructed vegetation index shows higher values during MIS 3, especially during the period 53–40 ka, than at the Last Glacial Maximum. Our results also suggest that climate on the basis of vegetation change was cooler and drier during MIS 3 than during the Holocene optimum;however, MIS 3 vegetation was probably similar to modern vegetation. The close relationship between vegetation change, insolation and Asian summer monsoon strength suggests that climate variations, probably in both temperature and precipitation, are the primary drivers of regional vegetation change. Additional well-dated, high-resolution palaeoclimate records from many locations across China will be needed to understand the vegetation change and climate forcings on millennial and centennial scales within MIS 3.

关键词：深海氧同位素植被类型气候变化中国海洋草原化荒漠植被变化中国东部地区森林草原

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Influence of plant coverage and environmental variables on pollen productivities:evidence from northern China

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Frontiers of Earth Science 2020年第4期14卷 789-802页

作者： Kaixiu Zhang Wen Qin Fang Tian Xianyong Cao Yuecong Li Jule Xiao Wei Ding ulrike herzschuh Qinghai Xu College of Resource Environment and Tourism Beijing Key Laboratory of Resource Environment and GISCapital Normal UniversityBeijing100048China Key Laboratory of Alpine Ecology Institute of Tibetan Plateau ResearchChinese Academy of SciencesBeijing100101China Alpine Paleoecology and Human Adaptation Group(ALPHA) Key Laboratory of Alpine EcologyInstitute of Tibetan Plateau ResearchChinese Academy of Sciences(CAS)Beijing100101China College of Resources and Environment Sciences Hebei Normal UniversityShijiazhuang050024China Key Laboratory of Cenozoic Geology and Environment Institute of Geology and GeophysicsChinese Academy of SciencesBeijing100029China Institute of Geological Sciences PalaeontologyFree University of BerlinBerlin12249Germany Alfred Wegener Institute Helmholtz Center for Polarand Marine Research Research Unit PotsdamPotsdam14473Germany Institute of Earth and Environmental Sciences University of PotsdamPotsdam14476Germany

Pollen productivity is a critical parameter in the interpretation of pollen-vegetation relationships,and in the quantitative reconstructions of past vegetation from fossil pollen ***-year monitoring records were collected for 143 pollen traps in various parts of northern China,together with modern vegetation *** Pollen Productivity Estimates(APPE)were calculated for 11 taxa using the ratio of pollen influx to plant coverage at each applicable sampling site,in which the plants of the target taxon were *** Pollen Productivity Estimates(RPPE)were calculated for the 11 taxa(taking Poaceae as the reference taxon)at those sites in which each taxon occurred together with *** and Chenopodiaceae were found to have the highest RPPEs and the largest RPPEs ranges,while Pinus and Quercus also had higher RPPEs than Poaceae;Abies,Betula,Larix,Picea and Cyperaceae had relatively low *** in RPPE between different areas may be explained by variations in climatic conditions,plant coverage and land use practices which might influence plant growing *** effect that variations in pollen productivity can have on vegetation reconstructions was demonstrated by applying these distinct RPPEs to reconstructions of Holocene vegetation in the Lake Daihai area(northern China),such as a large range of RPPE produces a large range of plant *** in RPPEs within a single taxon,related to vegetation coverage and climatic conditions,therefore need to be considered in future vegetation reconstructions.

关键词： pollen influx pollen productivity vegetation reconstruction REVEALS model northern China

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中国第四纪晚期孢粉记录整理

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植物生态学报 2010年第8期34卷 1000-1005页

作者：倪健陈瑜 ulrike herzschuh 董丹中国科学院植物研究所植被与环境变化国家重点实验室北京100093 阿尔弗瑞德-魏格纳极地与海洋研究所波茨坦14473 中国科学院研究生院北京100049

孢粉数据库是重建过去植被格局以及研究古气候变化和大气圈-生物圈-人类活动相互关系的基础,而孢粉取样信息的记录和整理是建立孢粉数据库的重要前提。该文在收集我国1960–2008年发表的孢粉研究文献的基础上,整理分析了第四纪晚期,尤其... 详细信息

孢粉数据库是重建过去植被格局以及研究古气候变化和大气圈-生物圈-人类活动相互关系的基础,而孢粉取样信息的记录和整理是建立孢粉数据库的重要前提。该文在收集我国1960–2008年发表的孢粉研究文献的基础上,整理分析了第四纪晚期,尤其是2万年以来(全新世为主)全国孢粉采样点的信息,包括采样地点名称、详细采样位置、省份、采样点经纬度和海拔高度、样品类型、取样深度、孢粉样品数量、14C测年数量及年代记录、覆盖的时间段和参考文献。总结发现,我国目前共有2324个表土/湖泊表层花粉采样点和987个第四纪晚期的地层沉积剖面和钻孔,其中高质量的地层孢粉采样点714个。虽然我国以及部分国际上从事第四纪研究的科学家尽了最大努力开展中国疆域的孢粉学研究,但由于人力、物力以及地形条件的限制,在我国仍然存在部分孢粉采样的"地理空隙",比如北方和西北荒漠地区、青藏高原无人区、中南部山区和东部人类活动频繁区域。然而,该数据信息库的不断完善,将为中国第四纪孢粉数据库的建立奠定良好基础。

关键词：中国孢粉数据库地层孢粉全新世第四纪晚期现代花粉

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Palaeoenvironmental Changes on the South-eastern Margin of the Tibetan Plateau:a Pollen-data Based Analysis

Palaeoenvironmental Changes on the South-eastern Margin of t...

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Asian Conference on Permafrost

作者： Annette Kramer ulrike herzschuh Steffen Mischke Alfred Wegener Institute for Polar and Marine Research Freie Universitaet Berlin Institute of Geological Sciences

An 18 m long sediment core from Lake Naleng in the south-eastern part of the Qinghai-Xizang Plateau(present-day precipitation:800mm) was examined to reconstruct the vegetation and climate history of the region,considering the composition of fossil *** retrace precipitation patterns quantitatively,a pollen-precipitation transfer function was *** region is influenced by the Indian Monsoon;a shift in the intensity of the monsoon circulation is therefore *** age of the core base was determinate by means of AMS-Dating to 16.5 ka cal *** from qualitative and quantitative analysis show a periglacial vegetation,composed of alpine cushion plants and species which indicate perturbed conditions,for the beginning of the Late *** reconstructed precipitation shows an annual amount of ca.300-400 *** conditions stabilised and alpine meadows established around the lake during the later Late *** Pleistocene/Holocene transition is marked by a rise of arboreal pollen(mainly Abies and Betula).Forests were reconstructed for the first half of the Holocene,pointing to an enhanced summer monsoon for this period with annual rainfall of about 800 *** increase in alpine herb and shrub taxa and a decrease of arboreal taxa during the Late Holocene indicate a decrease of the forest vegetation in the area.

关键词： Tibetan Plateau Pollen Analysis palaeoclimate transfer-functions Monsoon

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河北安固里淖孢粉记录的晚冰期以来的植被演替与气候变化

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第四纪研究 2018年第5期38卷 1203-1210页

作者：齐惠慧刘兴起李华淑李峻峰曹现勇 ulrike herzschuh 首都师范大学资源环境与旅游学院北京100048 中国科学院青藏高原研究所北京100101 Polar Terrestrial EnvironmentalSystems Alfred Wegener Institute for Polar and Marine Research in the Helmhohz Association Telegraphenberg A43 14473 Potsdam Germany

河北安固里淖地处东南季风的边缘地区，是研究古气候环境演化的理想地区之一。文章以安固里淖的沉积岩芯（长18.4 m）为研究对象，利用AMS 14C测年和孢粉数据，重建了安固里淖湖区14.3 *** B.P.以来的植被与气候演化历史。结果表明：14.... 详细信息

河北安固里淖地处东南季风的边缘地区，是研究古气候环境演化的理想地区之一。文章以安固里淖的沉积岩芯（长18.4 m）为研究对象，利用AMS 14C测年和孢粉数据，重建了安固里淖湖区14.3 *** B.P.以来的植被与气候演化历史。结果表明：14.3~11.0 *** B.P.期间，湖区以疏林草原植被为主，气候偏干；11.0~6.0 *** B.P.以森林草原植被为主，气候湿润；6.0~3.2 *** B.P.以疏林草原植被为主，气候偏湿；3.2~0 *** B.P.以荒漠草原植被为主，气候干旱。总体而言，自晚冰期以来安固里淖的气候经历了由干变湿再逐渐变干的过程，全新世适宜期出现在早中全新世。通过区域对比发现，安固里淖揭示的晚冰期以来东南季风的气候演化特征与西南季风的演化具有很大的相似性，表明晚冰期以来东南季风与西南季风在轨道尺度上的演化并无太大差异，太阳辐射是二者演化的共同驱动力。

关键词：安固里淖孢粉晚冰期环境变化东南季风

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