Speciation process of Salvia isensis (Lamiaceae), a species endemic to serpentine areas in the Ise-Tokai district, Japan, from the viewpoint of the contradictory phylogenetic trees generated from chloroplast and nuclear DNA

Abstract

To understand the speciation process of Salvia isensis (Lamiaceae), a species endemic to a special environment (serpentine areas in the Ise-Tokai district, central Honshu, Japan), chloroplast DNA (cpDNA) and nuclear ribosomal DNA (nrDNA) were employed to analyze the phylogenetic relationships of S. isensis with related species in Japan. Allozymic polymorphisms were also used to analyze genetic relationships among Salvia species. A contradiction in the phylogenetic positions of species studied was detected when phylogenetic trees were constructed using cpDNA or nrDNA, i.e., S. isensis was a sister to the other species in phylogenetic trees generated from cpDNA, while S. japonica was a sister to the other species in the case of nrDNA. Genetic relationships between Salvia species estimated from allozymic polymorphisms did not contradict to the topology for nrDNA. Using the present results, the speciation process of S. isensis is discussed with regard to introgressive gene exchanges between related species.

Do extreme environments provide a refuge from pathogens? A phylogenetic test using serpentine flax

“…In others, mapping of serpentine tolerance onto plant phylogenies has indicated multiple origins of serpentine-tolerant forms within fl oristic groups ( Setoguchi et al, 1998 ;Pepper and Norwood, 2001 ;Patterson and Givnish, 2004 ;Kawase et al, 2007 ). This result is consistent with the frequent observation of serpentine and nonserpentine sister taxa ( Brooks, 1987 ;Chan et al, 2002 ;Sudarmono and Okada, 2007) and suggests that serpentine tolerance has evolved rapidly and repeatedly within a number of plant lineages. While these studies have provided important insights into the evolution of serpentine endemism, they each focus almost exclusively on a single, qualitative aspect of the process: the origin of serpentine-tolerant taxa within clades that are comprised predominantly of nonserpentine species.…”

Tracking temporal shifts in area, biomes, and pollinators in the radiation ofSalvia(sages) across continents: leveraging anchored hybrid enrichment and targeted sequence data

“…Our aim was to construct an overall nuclear genome phylogeny using both anchored hybrid enrichment (AHE) and nuclear ribosomal DNA (nrDNA) of Salvia where tip relationships are less affected by possible reticulation events involving chloroplast DNA (cpDNA). Although low‐copy nuclear genes, nrDNA and cpDNA generally provide congruent relationships among the major lineages in the genus (e.g., Walker and Sytsma, ; Drew and Sytsma, ; Drew et al., ; Hu et al., ), hybridization and/or chloroplast capture can occur within these well‐supported Salvia clades (e.g., Sudarmono, ; Walker et al., ). We largely followed the taxon sampling in the largest phylogenetic analysis of Salvia to date (Drew et al., ) and enlarged the sampling with additional species from the Old World (Will and Claßen‐Bockhoff, ; Hu et al., ) and subgenus Calosphace (Fragoso‐Martínez et al., ).…”

Phylogenetic relationships among subgenera, species, and varieties of Japanese Salvia L. (Lamiaceae)

“…The protocol and conditions of the polymerase chain reaction (PCR), purification, and cycle sequencing followed Sudarmono and Okada (2007). To sequence these three regions amplified by PCR, we used an additional pair of internal primers, i.e., 724F, 744R for rbcL (Sudarmono 2007), 3RF and 3FR for trnL-F (Sudarmono and Okada 2007), and ITS2 and ITS3 (White et al 1990) for the nrDNA region, including the ITS1-5.8S rDNA-ITS2 region (hereafter, ITS).…”