Sampling with probability proportional to prediction: rethinking rapid plant diversity assessment

Plant diversity in the Arctic and at high altitudes strongly depends on and rebounds to climatic and environmental variability and is nowadays tremendously impacted by recent climate warming. Therefore, past changes in plant diversity in the high Arctic and high-altitude regions are used to infer climatic and environmental changes through time and allow future predictions. Sedimentary DNA (sedDNA) is an established proxy for the detection of local plant diversity in lake sediments, but still relationships between environmental conditions and preservation of the plant sedDNA proxy are far from being fully understood. Studying modern relationships between environmental conditions and plant sedDNA will improve our understanding under which conditions sedDNA is well-preserved helping to a.) evaluate suitable localities for sedDNA approaches, b.) provide analogues for preservation conditions and c.) conduct reconstruction of plant diversity and climate change. This study investigates modern plant diversity applying a plant-specific metabarcoding approach on sedimentary DNA of surface sediment samples from 262 lake localities covering a large geographical, climatic and ecological gradient. Latitude ranges between 25°N and 73°N and longitude between 81°E and 161°E, including lowland lakes and elevated lakes up to 5168 m a.s.l. Further, our sampling localities cover a climatic gradient ranging in mean annual temperature between -15°C and +18°C and in mean annual precipitation between 36 and 935 mm. The localities in Siberia span over a large vegetational gradient including tundra, open woodland and boreal forest. Lake localities in China include alpine meadow, shrub, forest and steppe and also cultivated areas. The assessment of plant diversity in the underlying dataset was conducted by a specific plant metabarcoding approach. We provide a large dataset of genetic plant diversity retrieved from surface sedimentary DNA from lakes in Siberia and China spanning over a large environmental gradient. Our dataset encompasses sedDNA sequence data of 259 surface lake sediments and three soil samples originating from Siberian and Chinese lakes. We used the established chloroplastidal P6 loop trnL marker for plant diversity assessment. The merged, filtered and assigned dataset includes 15,692,944 read counts resulting in 623 unique plant DNA sequence types which have a 100% match to either the EMBL or to the specific Arctic plant reference database. The underlying dataset includes a taxonomic list of identified plants and results from PCR replicates, as well as extraction blanks (BLANKs) and PCR negative controls (NTCs), which were run along with the investigated lake samples. This collection of plant metabarcoding data from modern lake sediments is still ongoing and additional data will be released in the future.

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Plant Diversity Assessment in Indian Sundarban Mangroves: A Geoinformatics Approach

Sundarbans Mangrove Systems ◽

10.1201/9781003083573-5 ◽

2021 ◽

pp. 95-108

Author(s):

Subrata Nandy ◽

Muna Tamang ◽

S.P.S. Kushwaha

Keyword(s):

Plant Diversity ◽

Diversity Assessment ◽

Indian Sundarban

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Plant Diversity Assessment on Mount Cameroon: Surveys from 1990 to 2000

Systematics and Geography of Plants ◽

10.2307/3668735 ◽

2001 ◽

Vol 71 (2) ◽

pp. 1017 ◽

Cited By ~ 1

Author(s):

Nouhou Ndam ◽

James Acworth ◽

David Kenfack ◽

Peguy Tchouto ◽

John B. Hall

Keyword(s):

Plant Diversity ◽

Mount Cameroon ◽

Diversity Assessment

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Plant Diversity Assessment and Traditional Knowledge Documentation of Home Gardens in Parit Raja, Batu Pahat, Johor

IOP Conference Series Earth and Environmental Science ◽

10.1088/1755-1315/269/1/012018 ◽

2019 ◽

Vol 269 ◽

pp. 012018 ◽

Cited By ~ 2

Author(s):

S Ganesan ◽

S F Sabran ◽

M H Mazlun

Keyword(s):

Traditional Knowledge ◽

Plant Diversity ◽

Home Gardens ◽

Diversity Assessment

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A New Approach to Plant Diversity Assessment Combining HPLC Data, Simplex Mixture Design and Discriminant Analysis

Environmental Modeling & Assessment ◽

10.1007/s10666-006-9082-2 ◽

2007 ◽

Vol 13 (1) ◽

pp. 17-33 ◽

Cited By ~ 3

Author(s):

Nabil Semmar ◽

Maurice Jay ◽

Muhammad Farman ◽

Maurice Roux

Keyword(s):

Discriminant Analysis ◽

Plant Diversity ◽

Mixture Design ◽

New Approach ◽

Diversity Assessment ◽

Hplc Data

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Vegetative Community Diversity Assessment of a Beneficial Use Salt Marsh Restoration

10.21203/rs.3.rs-507079/v1 ◽

2021 ◽

Author(s):

Nickolas Murphy ◽

Patrick Biber

Keyword(s):

Plant Diversity ◽

Salt Marshes ◽

De Novo ◽

Vascular Plant ◽

Community Diversity ◽

Juncus Roemerianus ◽

Salt Marsh Restoration ◽

Beneficial Use ◽

Diversity Assessment ◽

Reference Marsh

Abstract Restoration of lost marsh platforms can include de-novo construction using dredged sediments. Two restoration projects constructed with beneficial use material in 2004 and 2015 were planted with native vegetation in the anticipation they would function similarly to adjacent Juncus roemerianus (Black needlerush) dominated salt marshes. Planted J. roemerianus, however, failed to establish and exists sparsely in the restored marsh. To better understand potential sources of failure, this study assessed vascular plant diversity in Spring and Fall of 2017 through 2019 and demonstrated establishment of both planted and naturally recruited vegetation. The two constructed sites were found to have higher species richness and plant diversity (Shannon-Wiener H’, and Simpson’s D) than the natural reference marsh, in part due to the higher elevations of the two constructed sites. The plant diversity metrics indicated the two beneficial use restorations did not meet the species composition of the reference marsh. Further monitoring should be conducted to observe the species development over the long term with considerations given to the potential future marsh change.

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Plant diversity assessment of selected forest sites of Gaya district of Bihar, India

Journal of Applied and Natural Science ◽

10.31018/jans.v13i2.2523 ◽

2021 ◽

Vol 13 (2) ◽

pp. 424-432

Author(s):

A. Chandra ◽

H. B. Naithani ◽

P. K. Verma ◽

J. Saxena ◽

S. Prajapati

Keyword(s):

Plant Diversity ◽

Wiener Index ◽

Sustainable Utilization ◽

Forest Sites ◽

Diversity Assessment ◽

The Status ◽

Monitoring Of Biodiversity ◽

Study Sites ◽

Herb Diversity ◽

Important Value Index

Regular inventorization and monitoring of biodiversity is paramount for its conservation and sustainable utilization. Gaya district of the Bihar is endowed with rich biodiversity. For proper understanding of plant diversity, quantitative status of the vegetation is essentially required. The aim of the study was to assess different forest sites of the Gaya district of Bihar in India for their plant diversity. Study was carried out in these randomly selected eleven forest sites (Site I to Site XI). A total of 174 species belonging to 150 genera and58 families(48 Dicotyledons, 7 monocotyledons and 3 pteridophytes) were reported from all eleven study sites. Five largest families in the area were Poaceae (22 spp.), Fabaceae (14 spp.), Asteraceae (11 spp.), Rubiaceae (9 spp.) and Acanthaceae (7 spp). Different diversity attributes such as Important Value Index (IVI ), Species richness, Shannon Wiener index, Concentration of dominance and Evenness for tree, shrub and herb layers were estimated. For different sites highest IVI values for tree, shrubby and herbaceous layers were reported.Shannon wiener Index values for tree, shrubby and herbaceous layer of Nagobar site were estimated3.376, 1.986 and 2.350 respectively. Tree diversity was highest at Nagobar site whereas shrub and herb diversity was also reasonably better than most of the sites. Hence, it was revealed from the study that Nagobar site was most diverse site in the Gaya district. Study will be immense use for officials of forest department, researcher, students etc. for carrying out conservation and management work. Similar kind of study should be carried out in different forest sites of the country to get capture the status of the plant diversity for conservation and sustainable utilization.

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