Phylogeny of Taxaceae and Cephalotaxaceae Genera Inferred from Chloroplast matK Gene and Nuclear rDNA ITS Region

Cheng, Yuchang; Nicolson, Robert G; Tripp, Kim E.; Chaw, Shu‐Miaw

doi:10.1006/mpev.1999.0710

Cited by 88 publications

(72 citation statements)

References 42 publications

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“…S1), which are monophyletic and sister to the Taxaceae sensu lato (i.e., Taxaceae sensu stricto plus Cephalotaxaceae and Amentotaxaceae) (31), as found previously (50,51). The divergence of Cupressaceae from their sister lineage occurred >200 Ma (node 1 in Fig.…”

Section: Discussionsupporting

confidence: 63%

Distribution of living Cupressaceae reflects the breakup of Pangea

Mao

Milne

Zhang

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

244

255

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Most extant genus-level radiations in gymnosperms are of Oligocene age or younger, reflecting widespread extinction during climate cooling at the Oligocene/Miocene boundary [∼23 million years ago (Ma)]. Recent biogeographic studies have revealed many instances of long-distance dispersal in gymnosperms as well as in angiosperms. Acting together, extinction and long-distance dispersal are likely to erase historical biogeographic signals. Notwithstanding this problem, we show that phylogenetic relationships in the gymnosperm family Cupressaceae (162 species, 32 genera) exhibit patterns expected from the Jurassic/Cretaceous breakup of Pangea. A phylogeny was generated for 122 representatives covering all genera, using up to 10,000 nucleotides of plastid, mitochondrial, and nuclear sequence per species. Relying on 16 fossil calibration points and three molecular dating methods, we show that Cupressaceae originated during the Triassic, when Pangea was intact. Vicariance between the two subfamilies, the Laurasian Cupressoideae and the Gondwanan Callitroideae, occurred around 153 Ma (124-183 Ma), when Gondwana and Laurasia were separating. Three further intercontinental disjunctions involving the Northern and Southern Hemisphere are coincidental with or immediately followed the breakup of Pangea.ancestral areas reconstruction | molecular clock

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Section: Discussionsupporting

confidence: 63%

Distribution of living Cupressaceae reflects the breakup of Pangea

Mao

Milne

Zhang

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

244

255

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“…Pseudotaxus, however, is a monotypic genus. According to the results of molecular phylogeny, Pseudotaxus and Taxus are sister groups or the basic group of the modern Taxus (Wang and Shu, 2000;Cheng et al, 2000). Similarly, Amentotaxus and Torreya are sister groups as well.…”

mentioning

confidence: 95%

“…Based on the molecular evidences, Austrotaxus distributed in Northern Caledonia should be placed in Taxaceae. Furthermore, it was the basic group of Pseudotaxus and Taxus (Cheng et al, 2000) as well. However, based on the morphological and anatomic characteristics of the seeds of Austrotaxus, Bobrov et al (2004) stated that the relationships among Austrotaxus, Pseudotaxus and Taxus were distant.…”

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confidence: 99%

Origin and differentiation of endemism in the flora of China

Sun

Zhou

et al. 2007

Front. Biol. China

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“…Presently available genetic resources for Taxus only include a few expressed sequence tag sequences, phylogenetic markers, and gene sequences (Hao et al 2008a(Hao et al , b, 2009Cheng et al 2000). There are no fosmid library and bacterial artificial chromosome (BAC) library derived from Taxus.…”

Section: Introductionmentioning

confidence: 99%

The first insight into the Taxus genome via fosmid library construction and end sequencing

2011

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Taxus mairei is a critically endangered and commercially important cultured medicinal gymnosperm in China and forms an important medicinal resource, but the research of its genome is absent. In this study, we constructed a T. mairei fosmid library and analyzed the fosmid end sequences to provide a preliminary assessment of the genome. The library consists of one million clones with an average insert size of about 39 kb, amounting to 3.9 genome equivalents. Fosmid stability assays indicate that T. mairei DNA was stable during propagation in the fosmid system. End sequencing of both 5 0 and 3 0 ends of 968 individual clones generated 1,923 sequences after trimming, with an average sequence length of 839 bp. BLASTN searches of the nr and EST databases of GenBank and BLASTX searches of the nr database resulted in 560 (29.1%) significant hits (E \ e -5 ). Repetitive sequences analysis revealed that 20.8% of end sequences are repetitive elements, which were composed of retroelements, DNA transposons, satellites, simple repeats, and low complexity sequences. The distribution pattern of various repeat types was found to be more similar to the gymnosperm Pinus and Picea than to the monocot and dicot. The satellites of T. mairei were significantly longer than those of P. taeda and P. glauca. The tetra-nucleotide repeats of T. mairei were much longer than those of P. glauca and P. taeda. The fosmid library and the fosmid end sequences, for the first time, will serve as a useful resource for large-scale genome sequencing, physical mapping, SSR marker development and positional cloning, and provide a better understanding of the Taxus genome.

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Phylogeny of Taxaceae and Cephalotaxaceae Genera Inferred from Chloroplast matK Gene and Nuclear rDNA ITS Region

Cited by 88 publications

References 42 publications

Distribution of living Cupressaceae reflects the breakup of Pangea

Distribution of living Cupressaceae reflects the breakup of Pangea

Origin and differentiation of endemism in the flora of China

The first insight into the Taxus genome via fosmid library construction and end sequencing

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