Phylogeny of the ingoid clade (Caesalpinioideae, Fabaceae), based on nuclear and plastid data
Creators: name: Ferm, Julia
name: Ståhl, Bertil
name: Wikström, Niklas
name: Rydin, Catarina
Publisher: name: Zenodo
Year: 2021

description: We investigated generic relationships in the ingoid clade (Fabaceae) (sensu Koenen &amp; al. 2020a), with main focus on genera with a taxonomic history in <i>Calliandra</i> s.l. of the tribe Ingeae (i.e. <i>Afrocalliandra</i>, <i>Calliandra</i> s.s., <i>Sanjappa</i>,<i>Thailentadopsis</i>,<i> Viguieranthus,</i> <i>Zapoteca</i>), and three genera of the tribe Acacieae (i.e., <i>Acacia</i>, <i>Acaciella, Senegalia</i>). The nuclear ribosomal ETS and ITS, and the plastid <i>matK</i>, <i>trnL</i>-<i>trnF </i>and <i>ycf1 </i>DNA-regions were analysed for 246 representatives from 36 genera using maximum likelihood as implemented in IQ-tree. The results show an Ingeae–<i>Acacia </i>clade within the ingoid clade, resolved in three major clades. Clade 1 (<i>Calliandra</i> s.s. and <i>Afrocalliandra</i>) is sister to clades 2 and 3. Clade 2 comprises <i>Faidherbia</i>, <i>Sanjappa</i>, <i>Thailentadopsis</i>, <i>Viguieranthus</i> and <i>Zapoteca</i>. Clade 3 comprises the remaining genera of the Ingeae, plus <i>Acacia</i>. The ingoid genus <i>Senegalia</i> is excluded from the Ingeae–<i>Acacia </i>clade. <i>Acaciella </i>is sister to the remaining ingoid clade when nuclear ribosomal data is included in the analyses, but included in the Ingeae–<i>Acacia</i> clade based on plastid data. <i>Acacia </i>and perhaps also <i>Acaciella </i>are thus nested within Ingeae. Species traditionally referred to <i>Calliandra </i>(<i>Calliandra</i> s.l.) are resolved in two clades, and the "<i>Calliandra</i>-pod" has apparently evolved independently several times.
description: Nuclear dataset: ETS 1-844; ITS 845-2049 Plastid dataset: <em>trnL</em>-<em>trnF</em> 1-1562; <em>matK</em> 1563-5000; <em>ycf1</em> 5001-12107 Datasets with excluded bases shown, as used for analysis. Funding provided by: Stiftelsen Lars Hiertas Minne<br>Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100004722<br>Award Number: Funding provided by: Helge Ax:son Johnsons Stiftelse<br>Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100003788<br>Award Number: Funding provided by: Regnell foundation, Uppsala University*<br>Crossref Funder Registry ID: <br>Award Number: Funding provided by: Royal Swedish Academy of Sciences<br>Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100001725<br>Award Number:
description: Alignment files of the DNA sequences ETS, ITS, <em>trnL</em>-<em>trnF</em>, <em>matK</em> and <em>ycf1</em>. Sequences amplified using sanger sequencing and DNA extracted from herbarium material or silica dried leaf material. Additional sequences downloaded from Genbank, information in appendix 1. The consensus trees from the separate analyses of the nuclear (Suppl. Fig. 1) and plastid datasets (Suppl. Fig. 2) are also provided, as well as the results from the combined (nuclear and plastid) analysis excluding nuclear sequences for <em>Acaciella</em> (Suppl. Fig. 3). All phylogenetic trees are provided with support values, approximate Bayes support values (aBS) and maximum likelihood Bootstrap support values (BS), on nodes, presented aBS/BS.