MBE Advance Access originally published online on April 14, 2004
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Mol. Biol. Evol. 21(7):1428-1437. 2004
DOI: 10.1093/molbev/msh144
© 2004 by the Society for Molecular Biology and Evolution. ISSN: 0737-4038
Research Article |
Paralogy and Orthology in the Malvaceae rpb2 Gene Family: Investigation of Gene Duplication in Hibiscus
,1
* CSIRO Plant Industry, Canberra, Australia
Australian National University, School of Botany and Zoology, Canberra, Australia
E-mail: bep27{at}cornell.edu.
Abstract
A sample of the second largest subunit of low-copy nuclear RNA polymerase II (rpb2) sequences from Malvaceae subfamily Malvoideae suggests that rpb2 has been duplicated early in the subfamily's history. Hibiscus and related taxa possess two rpb2 genes, both of which produce congruent phylogenetic patterns that are largely concordant with cpDNA topologies. No evidence of functional divergence or disruption was found among duplicated copies, suggesting that long-term maintenance of duplicated copies of rpb2 is usual in this lineage. Therefore, this gene may be suitable for the potential diagnosis of relatively old polyploid events. One probable pseudogene was found in Radyera farragei and a single chimeric sequence was recovered from Howittia trilocularis, suggesting that the rpb2 locus is not as prone to evolutionary processes that can confound phylogenetic inferences based on nDNA sequences. The pattern of relationships among rpb2 sequences, coupled with chromosome number information and Southern hybridization data, suggests that an early polyploid event was not the cause of the duplication, despite independent evidence of paleopolyploidy in some members of Malvoideae. Rpb2 exons and introns together are suitable for phylogenetic analysis, producing well-resolved and well-supported results that were robust to model permutation and congruent with previous studies of subfamily Malvoideae using cpDNA characters.
Key Words: gene duplication • RNA polymerase II • Hibiscus • phylogenetics • evolution • low-copy nuclear DNA
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