Imperial College London
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ProfessorAlfriedVogler

Faculty of Natural Sciences, Department of Life Sciences (Silwood Park)

Professor of Molecular Systematics
 
 
 
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Contact

 

+44 (0)20 7942 5613a.vogler

 
 
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Location

 

Sir Alexander Fleming BuildingSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@article{Bian:2022:10.3389/fevo.2022.787560,
author = {Bian, X and Garner, B and Liu, H and Vogler, AP},
doi = {10.3389/fevo.2022.787560},
journal = {Frontiers in Ecology and Evolution},
title = {The SITE-100 project: site-based biodiversity genomics for species discovery, community ecology, and a global tree-of-life},
url = {http://dx.doi.org/10.3389/fevo.2022.787560},
volume = {10},
year = {2022}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - Most insect communities are composed of evolutionary diverse lineages, but detailed phylogenetic analyses of whole communities are lacking, in particular in species-rich tropical faunas. Likewise, our knowledge of the Tree-of-Life to document life’s evolutionary diversity remains highly incomplete and especially requires the inclusion of unstudied lineages from species-rich ecosystems. Here we present the SITE-100 program, which is an attempt at building the Tree-of-Life from whole-community sampling of high-biodiversity sites around the globe. Combining the local data sets into a global tree produces an increasingly comprehensive tree, while also re-tracing evolutionary history of lineages constituting the local community. Local sets are collected in bulk in standardised passive traps and imaged with a large-scale high-resolution camera, which is followed by a parataxonomy step for the preliminary separation of morphospecies and selection of specimens for phylogenetic analysis. Selected specimens are used for individual DNA extraction and sequencing, usually to sequence mitochondrial genomes. All remaining specimens are bulk extracted and subjected to metabarcoding. Phylogenetic analysis on the mitogenomes produces a reference tree to which short barcode sequences are added in a secondary analysis using phylogenetic placement or backbone constrainedtree searches. However, the approach may be hampered by the fact that (1) mitogenomes are limited in phylogeneticinformativeness, and (2) site-based sampling may produce poor taxon coverage and cause a suite of challenges for phylogenetic inference. To mitigate problems of phylogenetic reconstruction at deep levels, we follow a hierarchical way of gathering molecular information, where nuclear genome and mitogenome data from taxonomically chosen specimens consolidate the base and middle portion of the tree, respectively, and adding species-resolution contributed by DNA barcode data. We posit that site-based samplin
AU  - Bian,X
AU  - Garner,B
AU  - Liu,H
AU  - Vogler,AP
DO  - 10.3389/fevo.2022.787560
PY  - 2022///
SN  - 2296-701X
TI  - The SITE-100 project: site-based biodiversity genomics for species discovery, community ecology, and a global tree-of-life
T2  - Frontiers in Ecology and Evolution
UR  - http://dx.doi.org/10.3389/fevo.2022.787560
UR  - http://hdl.handle.net/10044/1/93919
VL  - 10
ER  -
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