@ARTICLE{TreeBASE2Ref27545,
author = {Rose Barrett and Michael J. Bayly and Marco Duretto and Paul I. Forster and Pauline Y Ladiges and David J. Cantrill},
title = {Phylogenetic analysis of Zieria (Rutaceae) in Australia and New Caledonia based on nuclear ribosomal DNA shows species polyphyly, divergent paralogues and incongruence with chloroplast DNA},
year = {2018},
keywords = {},
doi = {10.1071/SB16034},
url = {http://www.publish.csiro.au/SB/SB16034},
pmid = {},
journal = {Australian Systematic Botany},
volume = {31},
number = {},
pages = {16--47},
abstract = {This study presents a phylogeny of Zieria Sm. (Rutaceae) based on sequences of internal transcribed spacer and external transcribed spacer regions of nrDNA, and using Neobyrnesia suberosa J.A.Armstr. as the outgroup. The phylogeny includes 109 samples, representing 58 of the 60 currently recognised species of Zieria, with multiple accessions of most. Ten species were resolved as monophyletic on the basis of two, or in one case four, samples. Monophyly of four species was neither supported nor rejected, and all other species with more than one accession were resolved as polyphyletic or paraphyletic. Results showed that divergent paralogues of nrDNA are present in some individuals, although the underlying evolutionary process that gave rise to those paralogues is uncertain. Divergent paralogues within genomes could predate speciation and be variably retained or variably detected within the species sampled here; alternatively, they could represent novel nrDNA combinations formed through hybridisation after speciation. There was no strong evidence for recombination between paralogues or that paralogues represent pseudogenes. Variation of nrDNA sequences was clearly incongruent with previously published cpDNA variation, with the nrDNA potentially providing a better indication of species relationships in Zieria. Evidence for this comes from the greater level of congruence, in some species at least, between nrDNA and existing species-level taxonomy than between cpDNA and taxonomy. Incomplete lineage sorting is proposed as a plausible cause for much of the conflict between nrDNA and cpDNA in Zieria, although, in most cases, there was insufficient information to identify the underlying causes with confidence. Implications for species-level taxonomy are discussed. }
}
Taxa for tree 106415 of Study 21451
Citation title:
"Phylogenetic analysis of Zieria (Rutaceae) in Australia and New Caledonia based on nuclear ribosomal DNA shows species polyphyly, divergent paralogues and incongruence with chloroplast DNA".
Study name:
"Phylogenetic analysis of Zieria (Rutaceae) in Australia and New Caledonia based on nuclear ribosomal DNA shows species polyphyly, divergent paralogues and incongruence with chloroplast DNA".
This study is part of submission 21451
(Status: Published).
Taxa
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ID |
Taxon Label |
NCBI taxid |
uBIO namebankID |
2868773 |
Neobyrnesia suberosa |
|
8884192
|
2868865 |
Zieria adenodonta MTM764 |
|
9372789
|
2868761 |
Zieria adenophora MJB2010 |
|
10788155
|
2868807 |
Zieria alata KM629212 |
|
|
2868762 |
Zieria arborescens DJO110 |
483717
|
10788156
|
2868832 |
Zieria arborescens MBT270 |
483717
|
10788156
|
2868774 |
Zieria arborescens MFD2035 |
483717
|
10788156
|
2868819 |
Zieria arborescens MJB1868 |
483717
|
10788156
|
2868847 |
Zieria arborescens MJB2251a |
483717
|
10788156
|
2868780 |
Zieria arborescens RAB504 |
483717
|
10788156
|
2868765 |
Zieria arborescens RAB512a |
483717
|
10788156
|
2868776 |
Zieria arborescens glabrifolia MTM213 |
|
10844615
|
2868770 |
Zieria aspalathoides Bean27984 |
|
10788157
|
2868863 |
Zieria baeuerlenii 275527 |
|
10788158
|
2868778 |
Zieria baeuerlenii MJB2011 |
|
10788158
|
2868783 |
Zieria bifida MTM537 |
|
|
2868784 |
Zieria boolbunda KMS616 |
|
|
2868804 |
Zieria buxijugum RJ1897 |
|
10788159
|
2868821 |
Zieria caducibracteata 745482 |
|
9372806
|
2868775 |
Zieria caducibracteata IRT9585 |
|
10788160
|
2868844 |
Zieria cephalophila TH339 |
|
|
2868837 |
Zieria chevalieri MJB2119 |
|
7141116
|
2868812 |
Zieria citriodora NGW2038 |
|
9373095
|
2868824 |
Zieria collina MJB2012 |
|
10788162
|
2868789 |
Zieria collina MTM507 |
|
10788162
|
2868828 |
Zieria compacta PIF34479 |
|
10788164
|
2868796 |
Zieria covenyi MJB2013 |
|
9373080
|
2868760 |
Zieria cytisoides AF5451 |
|
9373111
|
2868803 |
Zieria cytisoides DJO416 |
|
9373111
|
2868860 |
Zieria distans CMH157 |
|
|
2868763 |
Zieria distans MTM287 |
|
|
2868853 |
Zieria eungellaensis Bean4435 |
|
|
2868856 |
Zieria exsul 2659 2691 |
|
|
2868867 |
Zieria exsul 2661 2698 |
|
|
2868843 |
Zieria formosa MJB2014 |
|
10788166
|
2868842 |
Zieria fraseri fraseri SPP1995 |
|
9372832
|
2868840 |
Zieria fraseri robusta MTB3739 |
|
|
2868801 |
Zieria furfuracea euthadenia MTM280 |
|
10844618
|
2868835 |
Zieria furfuracea furfuracea 466549 |
|
9372844
|
2868841 |
Zieria furfuracea gymnocarpa PIF34232 |
|
10844619
|
2868756 |
Zieria graniticola MTM479 |
|
|
2868806 |
Zieria granulata MJB2016 |
|
10788168
|
2868846 |
Zieria hindii 413359 |
|
10788169
|
2868862 |
Zieria hydroscopica PIF38247 |
|
|
2868833 |
Zieria inexpectata CMH201 |
|
|
2868851 |
Zieria ingramii 759202 |
|
10788171
|
2868771 |
Zieria ingramii IRT613 |
|
10788171
|
2868864 |
Zieria insularis 2653 2682 |
|
|
2868797 |
Zieria insularis 2656 2681 |
|
|
2868781 |
Zieria involucrata 506074 |
|
9372869
|
2868855 |
Zieria involucrata LMD143 |
|
9372869
|
2868758 |
Zieria laevigata MTM258 |
|
10788172
|
2868791 |
Zieria laevigata PIF34475 |
|
10788172
|
2868866 |
Zieria lasiocaulis 492944 |
|
10788174
|
2868810 |
Zieria lasiocaulisPG7908 |
|
10788174
|
2868827 |
Zieria laxiflora MTM385 |
|
9372886
|
2868785 |
Zieria littoralis MJB2017 |
|
10788175
|
2868845 |
Zieria littoralis RAB508 |
|
10788175
|
2868792 |
Zieria madida AF5320 |
|
|
2868808 |
Zieria minutiflora minutiflora ABP2356 |
|
9372936
|
2868838 |
Zieria minutiflora minutiflora PIF34313 |
|
9372936
|
2868772 |
Zieria minutiflora trichocarpa KRM8283 |
|
10844620
|
2868818 |
Zieria montana PIF36219 |
|
10788178
|
2868857 |
Zieria murphyi 440349 |
|
10788179
|
2868831 |
Zieria murphyi JA1356 |
|
10788179
|
2868795 |
Zieria obcordata RJC106 |
|
10788180
|
2868859 |
Zieria obovata KRM8071 |
|
|
2868802 |
Zieria odorifera 2705 2679 |
|
9372946
|
2868788 |
Zieria odorifera 2706 2678 |
|
9372946
|
2868848 |
Zieria oreocena DJO222 |
|
|
2868800 |
Zieria oreocena MJB1982 |
|
|
2868768 |
Zieria oreocena RAB580a |
|
|
2868767 |
Zieria oreocena RAB581 |
|
|
2868782 |
Zieria parrisiae RJ1899 |
|
|
2868793 |
Zieria pilosa MD2008 |
|
3473158
|
2868825 |
Zieria pilosa RAB502 |
|
3473158
|
2868790 |
Zieria prostrata 2701 2667 |
|
10788184
|
2868809 |
Zieria prostrata 2714 2668 |
|
10788184
|
2868829 |
Zieria prostrata 758677 |
|
10788184
|
2868811 |
Zieria rimulosa JRC8002 |
|
10788186
|
2868839 |
Zieria robertsiorum AF5349 |
|
10788187
|
2868858 |
Zieria robusta DEA s.n. |
|
9372962
|
2868836 |
Zieria robusta MFD2049 |
|
9372962
|
2868861 |
Zieria scopulus SPP1980 |
|
|
2868852 |
Zieria smithii AF5659 |
|
5859959
|
2868759 |
Zieria smithii DJO327 |
|
5859959
|
2868823 |
Zieria smithii KRM8282 |
|
5859959
|
2868834 |
Zieria smithii MJB2023 |
|
5859959
|
2868849 |
Zieria smithii MJB2029 |
|
5859959
|
2868805 |
Zieria smithii MJB2184 |
|
5859959
|
2868822 |
Zieria smithii MTM1127 |
|
5859959
|
2868787 |
Zieria smithii MTM275 |
|
5859959
|
2868799 |
Zieria smithii MTM303 |
|
5859959
|
2868769 |
Zieria smithii MTM926 |
|
5859959
|
2868830 |
Zieria smithii MTM929 |
|
5859959
|
2868817 |
Zieria smithii PIF33151 |
|
5859959
|
2868794 |
Zieria smithii PIF34139 |
|
5859959
|
2868820 |
Zieria smithii PIF36221 |
|
5859959
|
2868786 |
Zieria smithii PIF38231 |
|
5859959
|
2868815 |
Zieria smithii PIF38266 |
|
5859959
|
2868850 |
Zieria smithii PIF38276 |
|
5859959
|
2868777 |
Zieria smithii PIF38466 |
|
5859959
|
2868766 |
Zieria smithii RAB511 |
|
5859959
|
2868813 |
Zieria smithii RAB548 |
|
5859959
|
2868814 |
Zieria smithii SPP2032 |
|
5859959
|
2868798 |
Zieria southwellii MTM251 |
|
9372990
|
2868779 |
Zieria tenuis Bean4609 |
|
|
2868816 |
Zieria tuberculata RAB505 |
|
10788189
|
2868764 |
Zieria vagans PIF34832 |
|
|
2868854 |
Zieria veronicea insularis WN14AE |
|
10844622
|
2868826 |
Zieria veronicea veronicea MJB1980 |
|
9373026
|
2868868 |
Zieria verrucosa PIF34734 |
|
8535254
|
2868757 |
Zieria whitei AF5486 |
|
|