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Title: Enabling evolutionary studies at multiple scales in Apocynaceae through Hyb‐Seq
Premise

Apocynaceae is the 10th largest flowering plant family and a focus for study of plant–insect interactions, especially as mediated by secondary metabolites. However, it has few genomic resources relative to its size. Target capture sequencing is a powerful approach for genome reduction that facilitates studies requiring data from the nuclear genome in non‐model taxa, such as Apocynaceae.

Methods

Transcriptomes were used to design probes for targeted sequencing of putatively single‐copy nuclear genes across Apocynaceae. The sequences obtained were used to assess the success of the probe design, the intrageneric and intraspecific variation in the targeted genes, and the utility of the genes for inferring phylogeny.

Results

From 853 candidate nuclear genes, 835 were consistently recovered in single copy and were variable enough for phylogenomics. The inferred gene trees were useful for coalescent‐based species tree analysis, which showed all subfamilies of Apocynaceae as monophyletic, while also resolving relationships among species within the genusApocynum. Intraspecific comparison ofElytropus chilensisindividuals revealed numerous single‐nucleotide polymorphisms with potential for use in population‐level studies.

Discussion

Community use of this Hyb‐Seq probe set will facilitate and promote progress in the study of Apocynaceae across scales from population genomics to phylogenomics.

 
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Award ID(s):
1655553 1655223 1457473
NSF-PAR ID:
10455727
Author(s) / Creator(s):
 ;  ;  ;  
Publisher / Repository:
Wiley Blackwell (John Wiley & Sons)
Date Published:
Journal Name:
Applications in Plant Sciences
Volume:
8
Issue:
11
ISSN:
2168-0450
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
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