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Complete chloroplast genome of Macadamia integrifolia confirms the position of the Gondwanan early-diverging eudicot family Proteaceae
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Journal article
Complete chloroplast genome of Macadamia integrifolia confirms the position of the Gondwanan early-diverging eudicot family Proteaceae
BMC Genomics, Vol.15, S13
2014
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Abstract
<p><h4>Background</h4></p>
<p>Sequence data from the chloroplast genome have played a central role in elucidating the evolutionary history of flowering plants, <em>Angiosperma</em>e. In the past decade, the number of complete chloroplast genomes has burgeoned, leading to well-supported angiosperm phylogenies. However, some relationships, particulary among early-diverging lineages, remain unresolved. The diverse Southern Hemisphere plant family Proteaceae arose on the ancient supercontinent Gondwana early in angiosperm history and is a model group for adaptive radiation in response to changing climatic conditions. Genomic resources for the family are limited, and until now it is one of the few early-diverging 'basal eudicot' lineages not represented in chloroplast phylogenomic analyses. <h4>Results</h4></p>
<p>The chloroplast genome of the Australian nut crop tree <em>Macadamia integrifolia </em>was assembled <em>de novo </em>from Illumina paired-end sequence reads. Three contigs, corresponding to a collapsed inverted repeat, a large and a small single copy region were identified, and used for genome reconstruction. The complete genome is 159,714bp in length and was assembled at deep coverage (3.29 million reads; ~2000 x). Phylogenetic analyses based on 83-gene and inverted repeat region alignments, the largest sequence-rich datasets to include the basal eudicot family Proteaceae, provide strong support for a Proteales clade that includes <em>Macadamia, Platanus </em>and <em>Nelumbo</em>. Genome structure and content followed the ancestral angiosperm pattern and were highly conserved in the Proteales, whilst size differences were largely explained by the relative contraction of the single copy regions and expansion of the inverted repeats in <em>Macadamia</em>. <h4>Conclusions</h4></p>
<p>The <em>Macadamia </em>chloroplast genome presented here is the first in the Proteaceae, and confirms the placement of this family with the morphologically divergent Plantanaceae (plane tree family) and Nelumbonaceae (sacred lotus family) in the basal eudicot order Proteales. It provides a high-quality reference genome for future evolutionary studies and will be of benefit for taxon-rich phylogenomic analyses aimed at resolving relationships among early-diverging angiosperms, and more broadly across the plant tree of life.</p>
Details
- Title
- Complete chloroplast genome of Macadamia integrifolia confirms the position of the Gondwanan early-diverging eudicot family Proteaceae
- Creators
- Catherine Nock - Southern Cross UnivesityAbdul KMA Baten - Southern Cross UniversityGraham J King - Southern Cross University
- Publication Details
- BMC Genomics, Vol.15, S13
- Identifiers
- 1756; 991012821866802368
- Academic Unit
- Faculty of Science and Engineering; Southern Cross Plant Science; Science
- Resource Type
- Journal article