Abstract Detail

Phylogenomics

Clarkson, James [1], Maurin, Olivier [1], Brewer, Grace [1], Epitawalage, Niroshini [1], Zuntini, Alexandre [1], Kim, Jan [1], Bailey, Paul [1], Smith, James [2], Plunkett, Gregory [3], Downie, Stephen [4], Forest, Felix [1], Baker, William [1].

The Plant and Fungal Trees of Life (PAFTOL) project: a case study from the carrot family (Apiaceae).

To better understand how the world’s plants and fungi have evolved, the Plant and Fungal Trees of Life (PAFTOL) project was initiated at the Royal Botanic Gardens, Kew. PAFTOL aims to generate extensive new data for every genus of plant and fungus using high-throughput DNA sequencing technologies. This talk will focus on the plant component of PAFTOL in which we are using a targeted sequence capture approach. Our recently developed probe kit can isolate up to 353 nuclear genes across all angiosperm families and we have now sequenced over 25% of the 14,000 angiosperm genera. Named “Angiosperms 353”, the probe kit is unlocking herbarium collections including specimens older than 200 years which have proved difficult to sequence via traditional Sanger methods. Here, we use this approach to shed light on one of the most poorly understood angiosperm orders. Order Apiales is a vastly under-represented clade in terms of both taxon sampling density and the number of genes sequenced in previous studies. We are currently focusing attention on the 442 recognised genera of the Apiaceae family. Many economically important crops belong to Apiaceae (e.g. carrots, parsnips, fennel, caraway, aniseed, cumin, celery, dill, parsley and coriander). Previous molecular studies have shown a number of taxonomic groups within Apiaceae are non-monophyletic. This may in part be due to the traditional reliance on fruit characters to define groups. We are forming an international collaborative group to produce and interpret the largest and best-supported genus-level phylogeny available for the family. This will be used to evaluate the current classification, investigate congruence/conflict in our multigene dataset, explore trait distribution, produce a robust timeframe for the evolution of genera and examine biogeography patterns. PAFTOL aspires to be highly open with the sharing of data/tools at the earliest opportunity and we welcome new collaborations on Apiales, or indeed other groups of angiosperms.

1 - Royal Botanic Gardens Kew, Jodrell Laboratory, Kew Road, Richmond, Surrey, TW9 3DS, United Kingdom
2 - BOISE STATE UNIVERSITY, Department Of Biological Sciences, 1910 University Drive, Ms1515, Boise, ID, 83725, United States
3 - New York Botanical Garden, Cullman Program For Molecular Systematics, 2900 Southern Blvd., Bronx, NY, 10458, United States
4 - University Of Illinois At Urbana-Champaign, Department Of Plant Biology, 239 Morrill Hall, 505 S Goodwin Ave, Urbana, IL, 61801, United States

Keywords:
Tree of Life
PAFTOL
Angiosperms 353
Sequence Capture
Apiaceae.

Presentation Type: Oral Paper
Session: PHYL1, Phylogenomics I
Location: San Ignacio/Starr Pass
Date: Monday, July 29th, 2019
Time: 9:15 AM
Number: PHYL1006
Abstract ID:400
Candidate for Awards:None