Dataset Information

Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.

ABSTRACT:

Premise

Information on orthologous groups of genes, their sequence variability, and annotation is required for project design in phylogenetic reconstruction. This resource is unavailable for the flowering plant family Acanthaceae (>4000 species).

Methods

We compared transcriptome sequences spanning the extant diversity of Acanthaceae in order to provide a set of orthologous low-copy nuclear genes and assess their utility for reconstructing phylogenetic relationships within this group of plants.

Results

We present new transcriptome assemblies for eight species representing all major clades of Acanthaceae. The assemblies of five of these species are entirely based on new sequence data. Of these five species, three are from subfamilies for which no genomic resources were previously available (Nelsonioideae and Thunbergioideae). These five new transcriptomes are more complete than all others from public databases. Furthermore, we provide alignments with sequence information, annotation, and statistics for potential phylogenetic utility of 1619 orthologous low-copy nuclear markers.

Discussion

Our method of inferring assemblies from multiple pooled tissue samples delivers more complete transcriptomes than any available ones from Acanthaceae. We make available to the community new resources (e.g., sequence information, variability, and annotation of orthologous low-copy nuclear genes) that will help phylogenetic reconstruction in Acanthaceae.

SUBMITTER: Morais EB

PROVIDER: S-EPMC6764435 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

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Publications

Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.

Morais Erica B EB Schönenberger Jürg J Conti Elena E Conti Elena E Antonelli Alexandre A Szövényi Péter P

Applications in plant sciences 20190925 9

<h4>Premise</h4>Information on orthologous groups of genes, their sequence variability, and annotation is required for project design in phylogenetic reconstruction. This resource is unavailable for the flowering plant family Acanthaceae (>4000 species).<h4>Methods</h4>We compared transcriptome sequences spanning the extant diversity of Acanthaceae in order to provide a set of orthologous low-copy nuclear genes and assess their utility for reconstructing phylogenetic relationships within this gr ...[more]

PMID: 31572631

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Dataset Information

Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.

Premise

Methods

Results

Discussion

Publications

Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.

Similar Datasets

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