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Phylogenetic Community and Nearest Neighbor Structure of Disturbed Tropical Rain Forests Encroached by Streblus macrophyllus
2020
Forests
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Results showed that phylogenetic distance, phylogenetic diversity, and mean phylogenetic distance increased when species diversity increased and the abundance of S. macrophyllus decreased in forest communities ...
According to the forest disturbance effects, phylogenetic community properties showed the loss of phylogenetic relatedness when S. macrophyllus increased in abundance. ...
When increasing species diversity, phylogenetic distance (PD), and phylogenetic diversity (Pd) also increased from P1 to P3. ...
doi:10.3390/f11070722
fatcat:vexatcragrdmxcqp4bdoqxkcde
Impact of pine invasion on the taxonomic and phylogenetic diversity of a relict Mediterranean forest ecosystem
2016
Forest Ecology and Management
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phylogenetic diversity of the native seed plant community. ...
Both the NRI and NTI indices showed a significant reduction of phylogenetic evenness in the pine forest. ...
for providing information on the distribution and current management of the maritime pine and cork oak forest areas. ...
doi:10.1016/j.foreco.2016.02.013
fatcat:kurjbqr6pbcxrpnzphajsfivwu
Phylogenetics and Conservation Biology: Drawing a Path into the Diversity of Life
[chapter]
2016
Biodiversity Conservation and Phylogenetic Systematics
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It has turned the focus to the need of protecting the Tree of Life, i.e. the diversity of features resulting from the evolution of Life on Earth. ...
Phylogenetic diversity is one of the variables taken in account. ...
The consideration of phylogenetic systematics in biodiversity conservation opened a completely new line of investigation as it has turned the focus to the need of protecting the Tree of Life , i.e. the ...
doi:10.1007/978-3-319-22461-9_1
fatcat:o3rhdhlzqnf5zedyjqapmmfnme
Do drivers of forestry vehicles also drive herb layer changes (1970-2015) in a temperate forest with contrasting habitat and management conditions?
2019
Journal of Ecology
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The resurvey of plant communities sampled some decades ago is increasingly used for this purpose. 2.We used a life history trait-based approach to test a number of hypothesized drivers behind decadal changes ...
tested using paired comparisons (old vs new records) of community weighted means and conditional inference classification trees for a number of traits across soil and management types. ...
Acknowledgements We thank Paul Tombal who provided data of the initial survey and kindly gave further information on the methodology he used; and Jérôme Buridant who provided historical information on ...
doi:10.1111/1365-2745.13118
fatcat:3u5xm7oxn5g6zky6lv2x6nh4wa
Phylogenetic clustering increases with succession for lianas in a Chinese tropical montane rain forest
2014
Ecography
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Th e research was fi nanced by the Chinese Academy of Science and the National Natural Science Foundation China (Research Fund for International Young Scientists, grant number 31150110468). ...
Fougere and Y. Surget-Groba for advice on the molecular lab work and to Lu Yun for fi eld assistance. ...
As lianas have diff erent life histories compared to trees, the phylogenetic structure of the liana community may reveal diff erent patterns from those of trees, and thus provide a more complete picture ...
doi:10.1111/ecog.01051
fatcat:oeher6xianfe7cwmbjsrvmh5m4
The Phylogenetic Diversity of Metagenomes
2011
PLoS ONE
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Our approach opens up the possibility of using metagenomic data to study microbial diversity in a phylogenetic context. ...
The resulting metagenomic phylogeny can be used to quantify the phylogenetic diversity of microbial communities based on metagenomic data sets. ...
Acknowledgments Thanks to Srijak Bhatnagar, Jessica Bryant, Alexandros Stamatakis, Dongying Wu, and Martin Wu for assistance and advice on bioinformatics and phylogenetic analyses. ...
doi:10.1371/journal.pone.0023214
pmid:21912589
pmcid:PMC3166145
fatcat:pxfslginbnfqphoa3ii7hx5dpa
Mutualistic interactions reshuffle the effects of climate change on plants across the tree of life
2019
Science Advances
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Using seven pollination networks across Europe that include the phylogeny and life history traits of plants, we show a substantial variability across networks in climatically predicted plant extinction—and ...
These coextinctions not only increase the total number of plant species being driven to extinction but also add a bias in the way the major taxonomic and functional groups are pruned. ...
and phylogenetic diversity. ...
doi:10.1126/sciadv.aav2539
pmid:31106269
pmcid:PMC6520021
fatcat:3yxf5xk3j5fwviho23y4zqe464
Metabarcoding of insect-associated fungal communities: a comparison of internal transcribed spacer (ITS) and large-subunit (LSU) rRNA markers
2022
MycoKeys
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However, using phylogenetic trees (focused on the epidemiologically important Sordariomycetes) we placed OTUs obtained with either marker relative to reference sequences of the entire rRNA cistron that ...
Complex communities of fungi are regularly characterised by metabarcoding using the Internal Transcribed Spacer (ITS) and the Large-Subunit (LSU) gene of the rRNA locus, but reliance on a single short ...
We thank Nicolas Magain and Brendan Furneaux for their most helpful comments on an earlier version of the manuscript. ...
doi:10.3897/mycokeys.88.77106
pmid:35585929
pmcid:PMC8924126
fatcat:jtdodr7nxvebtkldzibdgiqm2i
Horizontal gene transfer in human-associated microorganisms inferred by phylogenetic reconstruction and reconciliation
2019
Scientific Reports
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Finally, we identified several core and widespread genes least influenced by HGT that could become useful markers for building robust 'trees of life' and address several outstanding technical challenges ...
Comparisons with a control group representing microbial genomes from diverse natural environments indicated that HGT activity increased significantly in the genomes of human microbiota, which is confirmatory ...
AN would like to thank members of the Computational Biology and Bioinformatics Group at COMSATS and Evolutionary Bioinformatics Laboratory at Illinois for their support and insightful discussions. ...
doi:10.1038/s41598-019-42227-5
pmid:30976019
pmcid:PMC6459891
fatcat:c3psvswkzrgshkfingyjyb2euq
Changing Ecological Opportunities Facilitated the Explosive Diversification of New Caledonian Oxera (Lamiaceae)
2018
Systematic Biology
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This early diversification of Oxera was associated with an important phase of ecological diversification triggered by significant shifts of pollination syndromes, dispersal modes, and life forms. ...
The existence of adaptive radiations posits a central role of natural selection causing ecological divergence and speciation, and some plant radiations have been highlighted as paradigmatic examples of ...
We thank Daniel and Irène Létocart, Neil Sleddon, Druce Horton, and Kartuz Greenhouses for providing us with pictures of Oxera and habitats. ...
doi:10.1093/sysbio/syy070
pmid:30365031
fatcat:c53empml55b7tan2pne66wofn4
Abstracts of the 22nd Annual Meeting of the Willi Hennig Society
2004
Cladistics
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The strength and future of the Willi Hennig Society resides in the students and recent meetings indicate a healthy society for the future. The Student Awards Committee consisted of Jonathan A. ...
Lindgren, the Rosen Prize ($250) for "A New Phylogeny of the Cephalopoda Using Total Evidence". ...
The potential for using combined molecular and organismal data has opened up new avenues for taxonomy, phylogenetics and biogeography. ...
doi:10.1111/j.1096-0031.2003.00006.x
pmid:34892975
pmcid:PMC7159319
fatcat:wlq3m4zznjcvdofwi4dyfariyu
A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming
2020
Nature Communications
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, and should also be useful for plant and animal ecology. ...
Application of iCAMP to grassland microbial communities in response to experimental warming reveals dominant roles of homogeneous selection (38%) and 'drift' (59%). ...
The R package and an example with detailed notes are also available in the Supplementary Code file. All custom scripts are available from GitHub (https://github.com/DaliangNing/iCAMP1). ...
doi:10.1038/s41467-020-18560-z
pmid:32948774
pmcid:PMC7501310
fatcat:4vzacgvxergb5l4ziafnoi2nvu
Global diversity and geography of soil fungi
2014
Science
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Multiple regression models were used to disentangle the roles of climatic, spatial, edaphic, and floristic parameters on fungal diversity and community composition. ...
rule) and diversity increases toward the equator. ...
The use of homogenous sampling and analytical methods, as done in this study, are necessary to confidently compare macroecological patterns among distinct life forms and to reliably test degrees of consistency ...
doi:10.1126/science.1256688
pmid:25430773
fatcat:2uicmpgqrzh2ncq22ge4g6c3hy
Toward a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa
2016
Systematic Biology
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SUPERSMART will also accelerate the inference of a "Dated Tree of Life" where all node ages are directly comparable. ...
This framework assembles comprehensive data sets of molecular and fossil data for any taxa and infers dated phylogenies using robust species tree methods, also allowing for the inclusion of genomic data ...
The code was developed, tested, and benchmarked on the bioinformatics computer cluster Albiorix at the Department of Biological and Environmental Sciences, University of Gothenburg; at the Swedish National ...
doi:10.1093/sysbio/syw066
pmid:27616324
pmcid:PMC5410925
fatcat:i6wplqodwnf7tnrcbnhtsen7om
Effect of Simulated Climate Warming on the Ectomycorrhizal Fungal Community of Boreal and Temperate Host Species Growing Near Their Shared Ecotonal Range Limits
2017
Microbial Ecology
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While anthropogenic activity has, and will continue to, cause global temperature increases, few studies have investigated how increases in temperature will affect the community composition of ectomycorrhizal ...
Manipulations that increased air and soil temperature by 1.7 and 3.4°C above ambient temperatures, respectively, did not change ECM richness but did alter the composition of the ECM community in a manner ...
Open Access This article is distributed under the terms of the Creative Comm ons Attribution 4.0 International License (http:// creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution ...
doi:10.1007/s00248-017-1044-5
pmid:28741266
pmcid:PMC5742605
fatcat:kv6bzn7iine5pk7amxmvj2q2j4
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