Phylogenetic relationships in the grass family (Poaceae) based on the nuclear single copy locus topoisomerase 6 compared with chloroplast DNA

Phylogenetic relationships in the grass family (Poaceae) based on the nuclear single copy locus topoisomerase 6 compared with chloroplast DNA

Phylogenetic relationships within the grass family were studied using a newly obtained locus of the nuclear single copy gene topoisomerase 6 (Topo6) spanning the four exons 8–11 and the chloroplast mat K gene. Data were evaluated using maximum parsimony, maximum likelihood and Bayesian methods. All...

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Bibliographic Details
Published in:Systematics and biodiversity Vol. 12; no. 1; pp. 111 - 124
Main Authors: Blaner, Anne, Schneider, Julia, Röser, Martin
Format: Journal Article
Language:English
Published: Taylor & Francis 02-01-2014
Subjects:
Anomochloa
Bambusoideae
BEP
biodiversity
Brachyelytrum
chloroplast DNA
chloroplasts
data collection
exons
genes
grasses
loci
matK
monophyly
nuclear genome
Pharus
phylogenetics
Poaceae
polymerase chain reaction
Pooideae
Topo6
topoisomerase
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Summary:Phylogenetic relationships within the grass family were studied using a newly obtained locus of the nuclear single copy gene topoisomerase 6 (Topo6) spanning the four exons 8–11 and the chloroplast mat K gene. Data were evaluated using maximum parsimony, maximum likelihood and Bayesian methods. All analyses showed genera Streptochaeta and Anomochloa as early diverging, followed by Pharus as sister to the rest of the Poaceae, and monophyly of the subfamily Anomochlooideae was supported by the nuclear dataset. The remaining grasses formed a strongly supported and monophyletic group, which split into the major clades BEP and PACMAD in the Topo6 analyses. Monophyly of the BEP clade was strongly supported by the Topo6 data. The results showed clearly incongruity between the two sets of data, such as the different subfamilial relationships of Bambusoideae, Ehrhartoideae and Pooideae. Most of the analysed species are representatives of subfamily Pooideae, which was analysed in more detail by PCR fragment length differences of another Topo6 region spanning the exons 17–19. Monophyly of Pooideae was strongly supported by the mat K data, whereas the nuclear data placed Brachyelytrum outside of the remaining Pooideae. Relationships within the early evolutionary lineages remained largely unresolved in the phylogenetic trees, but the ‘core’ Pooideae (Aveneae/Poeae tribe complex and Hordeeae) were highly supported in all analyses. The differences in amplification lengths illustrate the tribe and subtribe classification of Pooideae. The comparatively conserved structure of the newly studied Topo6 region makes it a promising marker from the nuclear genome that could be successfully PCR-amplified to study higher-level phylogenetic relationships within grasses and perhaps between families within the order Poales.
Bibliography:http://dx.doi.org/10.1080/14772000.2014.890137
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ISSN:1478-0933
1477-2000
1478-0933
DOI:10.1080/14772000.2014.890137