Molecular characterization and phylogenetic utility of the rDNA external transcribed spacer region in Stylosanthes (Fabaceae)

Stappen, J. Vander; Marant, S.; Volckaert, Guido

doi:10.1007/s00122-003-1245-9

Cited by 19 publications

(13 citation statements)

References 49 publications

(61 reference statements)

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“…Sequence-tagged sites (STS) were used to identify progenitor species for S. scabra (Liu and Musial 1997). Investigation of ribosomal DNA internal transcribed spacers (rDNA ITS) has been used to detect variation in the S. guianensis species complex and in Stylosanthes species (Vander Stappen et al 2003). Simple sequence repeats (SSR) are available for three species of Stylosanthes: S. guianensis Santos et al 2009a;Santos-Garcia et al 2012), S. capitata (Santos et al 2009b), and S. macrocephala (Santos et al 2009c).…”

Section: Introductionmentioning

confidence: 99%

Polymorphism analysis in identification of genetic variation and relationships among Stylosanthes species

2017

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A total of 148 accessions representing six important species of the genus Stylosanthes, including S. guianensis, S. hamata, S. scabra, S. seabrana, S. macrocephala, and S. capitata, were used to evaluate genetic variation and relationships using sequence-related amplified polymorphism markers. The results showed that the 18 selected primer pairs generated 138 distinct fragments. The fragment sizes ranged from 150 to 2000 bp. Genetic similarity coefficients among the 148 accessions ranged from 0.51 to 0.99, with an average of 0.79. The effective allele number (ne) generated by the 18 primer pairs averaged 1.3552 and ranged from 1.2069 to 1.6080; Nei's gene diversity (He) ranged from 0.1304 to 0.3207, with an average of 0.2070; and Shannon's information index (I) averaged 0.3213 and ranged from 0.2233 to 0.4582. The unweighted pair-group method with arithmetic averages at the 0.69 similarity level separated the 148 accessions into two distinct groups. One group belonged to S. guianensis, and the other group belonged to the non-S. guianensis type. This study verified that Stylosanthes have rich genetic variation, which is an excellent basis for Stylosanthes breeding for new cultivars. This study demonstrates that the SRAP technique is a reliable tool for differentiating Stylosanthes accessions and for discerning genetic relationship among them.

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Section: Introductionmentioning

confidence: 99%

Polymorphism analysis in identification of genetic variation and relationships among Stylosanthes species

2017

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“…The lower CI and RI of the ETS data (0.810 and 0.742) compared with the trnK / matK data (0.825 and 0.824) indicated a higher level of homoplasy; this was consistent with the higher rate at which the variable sites in this region evolved compared with the trnK / matK sequences (1.4 steps per site vs. 1.2 steps per site, respectively; Table 2). This pattern has also been observed in other plant genera (Baldwin & Markos, 1998; Bena et al ., 1998; Vander Stappen, Marant & Volckaert, 2003).…”

Section: Discussionmentioning

confidence: 99%

Geographical diversification of the genus Cicer (Leguminosae: Papilionoideae) inferred from molecular phylogenetic analyses of chloroplast and nuclear DNA sequences

Javadi

Wojciechowski

Yamaguchi

2007

Botanical Journal of the Linnean Society

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Cicer L. (Leguminosae: Papilionoideae) consists of 42 species of herbaceous or semi-shrubby annuals and perennials distributed throughout the temperate zones of the Northern Hemisphere. The origin and geographical relationships of the genus are poorly understood. We studied the geographical diversification and phylogenetic relationships of Cicer using DNA sequence data sampled from two plastid regions, trnK / matK and trnS -trnG , and two nuclear regions, the internal transcribed spacer (ITS) and external transcribed spacer (ETS) regions of nuclear ribosomal DNA, from 30 species. The results from the phylogenetic analyses of combined nuclear and chloroplast sequence data revealed four well-supported geographical groups: a Middle Eastern group, a West-Central Asian group, an Aegean-Mediterranean group, and an African group. Age estimates for Cicer based on methods that do not assume a molecular clock (for example, penalized likelihood) demonstrate that the genus has a Mediterranean origin with considerable diversification in the Miocene/Pliocene epochs. Geological events, such as mountain orogenesis and environmental changes, are major factors for the dispersal of Cicer species. The early divergence of African species and their geographically distinct region in the genus suggest a broader distribution pattern of the genus in the past than at present.

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“…The psbA-trnH regions have been used at the interspecific level in the Lamiaceae (Albaladejo et al 2005;Gobert et al 2006). Similarly, the ETS region of nuclear ribosomal DNA has been found to evolve faster and consequently have greater variability than the internal transcribed spacer (ITS) region, which is more frequently used, making ETS particularly useful for studies below the generic level (Baldwin and Markos 1998;Linder et al 2000;Stappen et al 2003;Wilson et al 2012).…”

Section: Selection Of Molecular Markersmentioning

confidence: 99%

Circumscription and phylogenetic relationship of Prostanthera densa and P. marifolia (Lamiaceae)

Conn¹,

Wilson²,

Henwood³

et al. 2013

Telopea

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Prostanthera densa A.A.Ham. and P. marifolia R.Br. (Lamiaceae) are endemic species with restricted distributions within the near-coastal regions of New South Wales (Australia). Prostanthera marifolia was previously presumed extinct, but is now known from three small geographically close populations in the Manly-Warringah area of metropolitan Sydney. This species is morphologically very similar to P. densa, which is known from five disjunct populations, distributed south from Port Stephens to Jervis Bay. The nucleotide sequence variation of the psbA-trnH chloroplast spacer region, and the external transcribed spacer (ETS) region of nuclear ribosomal DNA were analysed to evaluate the phylogenetic relationships and taxonomic integrity of these species. Trees generated from psbA-trnH and ETS data provided support for recognising P. marifolia as separate from P. densa. A multivariate statistical evaluation of the morphological variation of each population of these taxa supported the distinction of these two morphologically similar and closely related species. Based on molecular and morphological data we recommend these two species continue to be recognised. The ETS data highlighted the genetic distinctiveness of four disjunct populations of P. densa. Since there is apparently no gene flow between populations of P. densa, it was concluded that the conservation of this species requires all populations to be protected.

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Molecular characterization and phylogenetic utility of the rDNA external transcribed spacer region in Stylosanthes (Fabaceae)

Cited by 19 publications

References 49 publications

Polymorphism analysis in identification of genetic variation and relationships among Stylosanthes species

Polymorphism analysis in identification of genetic variation and relationships among Stylosanthes species

Geographical diversification of the genus Cicer (Leguminosae: Papilionoideae) inferred from molecular phylogenetic analyses of chloroplast and nuclear DNA sequences

Circumscription and phylogenetic relationship of Prostanthera densa and P. marifolia (Lamiaceae)

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