Abstract Detail

Phylogenomics

Pokorny, Lisa [1], Steven, Dodsworth [2], Johnson, Matthew [3], Maurin, Olivier [4], Epitawalage, Niroshini [4], Bellot, Sidonie [4], Botigué, Laura R. [5], Brewer, Grace [4], Chase, Mark [6], Cowan, Robyn [4], Eiserhardt, Wolf [7], de la Estrella, Manuel [8], Hidalgo, Oriane [9], Kersey, Paul [4], Kim, Jan [4], Larridon, Isabel [10], Murphy, Bruce [4], Pellicer, Jaume [4], de Vos, Jurriaan [11], Wickett, Norman [12], Leitch, Ilia [13], Forest, Felix [14], Baker, William [4].

A phylogenomic approach to decode contentious relationships across all angiosperm families.

Here we describe the first (order- and) family-complete phylogenomic analysis across all angiosperms. We demonstrate that the angiosperms 353 kit we developed, in the context of the Plant and Fungal Trees of Life (PAFTOL) project (https://www.kew.org/science/our-science/projects/plant-and-fungal-trees-of-life), works to enrich up to 353 nuclear orthologs for all angiosperm families. Additionally, we recover organellar off-target coding regions as well as non-coding introns, the latter of use to resolve relationships at shallow levels, e.g. genera and species. Our phylogenomic pipeline explores effects of alignment, trimming, partitioning, gene tree inference, and species tree inference on our phylogenetic reconstruction. Recalcitrant nodes are explored in light of recent support measures to discuss robustness of alternative contentious relationships and present a backbone hypothesis for the flowering plant tree of life.

Related Links:
Plant and Fungal Trees of Life Project web

1 - Royal Botanic Gardens, Kew, Jodrell Laboratory, Jodrell Laboratory, Richmond, SRY, TW9 3DS, United Kingdom
2 - University of Bedfordshire, School of Life Sciences, University Square, Luton, LU1 3JU, UK
3 - Texas Tech University, Biological Sciences, 2901 Main Street, Ms3131, Lubbock, TX, 79409, United States
4 - Royal Botanic Gardens, Kew, Jodrell Laboratory, Richmond, Surrey, TW9 3DS, UK
5 - Centre for Research in Agricultural Genomics (CRAG), Plant and Animal Genomics, Campus UAB - Edifici CRAG, Cerdanyola, 08193, Spain
6 - Royal Botanic Gardens, Kew, Jodrell Laboratory, Kew Road, Richmond, TW9 3DS, United Kingdom
7 - Aarhus University, Department of Bioscience - Ecoinformatics and Biodiversity, Ny Munkegade 116, building 1535, 225, Aarhus, 8000, Denmark
8 - Universidad de Córdoba, Departamento de Botánica, Ecología y Fisiología Vegetal, Campus de Rabanales, Edif. Celestino Mutis, planta 3, Córdoba, 14071, Spain
9 - Universitat de Barcelona, Facultad de Farmacia y Ciencias de la Alimentación, Joan XXIII, 27, Barcelona, 08028, Spain
10 - Royal Botanic Gardens Kew, Royal Botanic Gardens Kew, Royal Botanic Gardens Kew, Richmond, TW9 3AE, United Kingdom
11 - University of Basel, Department of Environmental Sciences, Schönbeinstrasse 6, Basel, 4056, Switzerland
12 - Chicago Botanic Garden, 1000 Lake Cook Rd., Glencoe, IL, 60022, United States
13 - Jordell Laboratory, Royal Botanic Gardens Kew, Richmond, SRY, TW9-3AB, United Kingdom
14 - Jodrell Laboratory, Royal Botanic Gardens Kew, Richmond, Surrey, TW9 3DS, United Kingdom

Keywords:
Angiosperms
phylogenomics
Hyb-Seq
target enrichment
Sequence Capture
Systematic Botany
Phylogenetic Conflict.

Presentation Type: Oral Paper
Session: PHYL1, Phylogenomics I
Location: San Ignacio/Starr Pass
Date: Monday, July 29th, 2019
Time: 9:00 AM
Number: PHYL1005
Abstract ID:393
Candidate for Awards:None