Study : Targeted capture of hundreds of nuclear genes unravels phylogenetic relationships of the diverse Neotropical palm tribe Geonomateae

Identification

Name
Targeted capture of hundreds of nuclear genes unravels phylogenetic relationships of the diverse Neotropical palm tribe Geonomateae
Identifier
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Source
Description
The tribe Geonomateae is a widely distributed group of 103 species of Neotropical palms which contains six ecologically importantunderstory or subcanopy genera. Although it has been the focus of many studies, our understanding of the evolutionary history of this group, and in particular of the taxonomically complex genus Geonoma, is far from complete due to a lack of molecular data. Specifically, the previous Sanger sequencing-based studies used a few informative characters and partial sampling. To overcome these limitations, we used a recently developed Arecaceae-specific target capture bait set to undertake a phylogenomic analysis of the tribe Geonomateae. We sequenced about 4,000 genes for 85% of the species of the tribe, including 84% of the species of the largest genus, Geonoma. Phylogenetic relationships were inferred using both concatenation and coalescent methods. Overall, our phylogenetic tree is highly supported and congruent with taxonomic delimitations although several morphological taxa were revealed to be non-monophyletic. It is the first time that such a large genomic dataset is provided for an entire tribe within the Arecaceae. Our study lays the groundwork not only for detailed macro- and micro-evolutionary studies within the group, but also sets a workflow for understanding other species complexes across the tree of life.

Genotype

Accession number Name Taxon
Daly 6057 Geonoma frontinensis 3070
FALM88 Geonoma pohliana subsp. pohliana FALM88
FTBG 20030645A Calyptronoma rivalis AC14
IO247 Geonoma orbignyana IO247
IO295 Geonoma macrostachys var. acaulis IO295
IO343 Geonoma orbignyana IO343
IO363 Geonoma maxima subsp. camptoneura IO363
IO364 Geonoma brongniartii subsp. brongniartii IO364
IO371 Geonoma stricta IO371
IO436 Pholidostachys sanluisensis IO436
IO504 Geonoma interrupta subsp. rivalis IO504
JBQ 1195 Pholidostachys sanluisensis AC70
JR129 Geonoma brongniartii subsp. pascoensis JR129
MK14688 Geonoma interrupta subsp. platybothros MK14688
OL016 Pholidostachys pulchra OL016
OL019 Geonoma longivaginata OL019
OL049 Geonoma cuneata OL049
OL084 Geonoma congesta subsp. congesta OL084
Stahl 2874 Geonoma undata subsp. skovii 3086
TC108 Geonoma multisecta TC108