The use and limits of ITS data in the analysis of intraspecific variation in Passiflora L. (Passifloraceae)

Mäder, Geraldo; Zamberlan, Priscilla Mena; Fagundes, Nelson J. R.; Magnus, Tielli; Salzano, Francisco M.; Bonatto, Sandro L.; Freitas, Loreta B.

doi:10.1590/s1415-47572009005000101

Cited by 38 publications

(42 citation statements)

References 47 publications

(59 reference statements)

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“…The pattern of clustering based on the pollinic characteristics allowed to classify the species into two subgenera, Passiflora and Decaloba, congruent with the classification of Feuillet and MacDougal (2003) and supported by phylogenetic studies using molecular markers and sequencing technique (Yockteng and Nadot 2004, Hansen et al 2006, Mäder et al 2010, Porter-Utley 2014, Milwardde-Azevedo et al 2014b, Muschner et al 2012, Krosnick et al 2013, Ocampo and D'Eeckenbrugge 2017. These authors revealed that the Passiflora and Decaloba subgenera showed monophyletic clades.…”

Section: Discussionmentioning

confidence: 56%

Comparative pollen morphological analysis in the subgenera Passiflora and Decaloba

Soares

Jesus

Souza

et al. 2018

An. Acad. Bras. Ciênc.

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The genus Passiflora is the most diversified of the Passifloraceae, and its palynology presents wide morphological variability. The objective of the study was to evaluate the pollen morphology of 18 Passiflora species in order to identify informative pollinic characteristics to contribute to the taxonomic classification of the genus. The morphology of the pollen grains and the exine structure were investigated using light microscopy and scanning electron microscopy. Differences in the pollen morphology were found in the studied species, mainly in terms of shape, pollen aperture and ornamentation pattern of the exine. Most of the species belonging to the subgenus Passiflora presented ornamented 6-syncolpate pollen grains with an oblate-spheroidal shape and an exine with large lumens. In the subgenus Decaloba the pollen grains were 6-colporate, 12-colpate and 12-colporate, with subprolate to prolate-spheroidal shape, as well as an exine with smaller lumen size and few ornamented. The pollen morphology of the species of the subgenera Passiflora and Decaloba has shown palynological characteristics that have specific diagnostic value, thus allowing a better understanding of the taxonomy of the genus Passiflora.

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Section: Discussionmentioning

confidence: 56%

Comparative pollen morphological analysis in the subgenera Passiflora and Decaloba

Soares

Jesus

Souza

et al. 2018

An. Acad. Bras. Ciênc.

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“…We did not also include heterozygous ITS sites in our analysis as proposed by Mäder et al . () for Passiflora species. We used DnaSP 5.10.01 software (Librado & Rozas, ) to obtain the ITS sequence types and plastid haplotypes.…”

Section: Methodsmentioning

confidence: 99%

Effects of past climate onPassiflora actinia(Passifloraceae) populations and insights into future species management in the Brazilian Atlantic forest

et al. 2016

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The Brazilian Atlantic Rainforest is one of the most diverse and threatened ecoregions on the planet and displays high levels of endemism. Despite several population analyses and phylogeographical studies, the origins of its species richness and the evolutionary processes that gave rise to this diversification remain poorly understood, especially at the southern edge of the Atlantic Forest. Passiflora actinia is an indigenous species from the southern Atlantic Forest and, as such, was influenced by climatic changes during the Pleistocene. In this study, we investigated the effects of past climate changes on the genetic diversity of P. actinia, using nuclear and plastid markers. We subsequently suggest strategies for the preservation of this species in particular and the whole ecoregion in general. We employed phylogeographical methods and combined these results with past, present and future ensemble niche models. Genetic variability in P. actinia was similar to that of other species with similar geographical distributions, and geographical structuring was not observed based on either type of genetic marker. Diversification in P. actinia was dated to the Pleistocene, suggesting that climate changes could have influenced the distribution of genetic diversity in this species. Our results predicted that suitable P. actinia habitat will persist in the highlands but will be reduced in the lowlands, especially with higher greenhouse gas concentrations. Conservation efforts should focus on populations with unique genetic units and populations from areas with greater climatic instability. Habitat loss due to deforestation in the Atlantic Forest constitutes a major risk to this species, especially to small populations or those with low diversity indices.

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“…Each 25 µL of amplification reaction contained 16 mM (NH 4 ) 2 SO 4 , 67 mM Tris-HCl (pH 8.8), 0.01% Tween-20, 10% DMSO, 4 mM MgCl 2 , 0.4 mM of each dNTP, 0.5 unit Taq Polymerase (GoTaq®Flexi DNA Polymerase, Promega), 0.5 µM each ITS4 and ITS5 primer and 20 ng genomic DNA. Dimethyl sulfoxide (DMSO, 10%) was included in the reaction mix to exclude the amplification of low stability templates and to avoid preferential amplification of paralogous gene copies or nonfunctional pseudogenes [20][21][22]. Each PCR product was electrophoresed in a 1% agarose gel, stained with SYBR safe (Catalogue number S33102, Invitrogen, Thermo Fisher Scientific Australia, Scoresby, Vic, Australia), then excised and eluted using Wizard SV Gel and PCR Clean-Up System (Catalogue number A2361, Promega).…”

Section: Dna Extraction Amplification and Sequencingmentioning

confidence: 99%

The Phylogeny and Biogeography of Phyla nodiflora (Verbenaceae) Reveals Native and Invasive Lineages throughout the World

et al. 2017

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Phyla nodiflora is an herbaceous perennial and an enigmatic species. It is indigenous to the Americas but is considered a natural component of the flora in many areas and a weed in others. Our aim was to circumscribe the native range of P. nodiflora, to explore dispersal mechanisms and routes and to test the hypothesis that P. nodiflora is native outside of the Americas. Determining whether distributions are natural or human-induced has implications for decisions regarding weed control or conservation. We undertook phylogenetic analyses using sequence variation in nuclear DNA marker ITS (Internal Transcribed Spacer) for a global sample of 160 populations of P. nodiflora sourced from Asia, Australia, central America, the Mediterranean, southern North America, South America and Africa. Analyses included maximum likelihood, maximum parsimony, a Bayesian estimation of phylogeny and a parsimony network analysis which provided a genealogical reconstruction of ribotypes. We evaluated phylogenies against extensive historical and biogeographical data. Based on the sequences, 64 ribotypes were identified worldwide within P. nodiflora and considerable geographic structure was evident with five clades: one unsupported and the remaining weakly supported (bootstrap support ranging from 52% to 71%). Populations from central and southern North America formed the core area in the indigenous range and we have detected at least three native lineages outside of this range. Within Australia P. nodiflora is represented by at least one native lineage and several post-European introductions. Phyla nodiflora is one of the few species in the family Verbenaceae to have a pan-tropical native distribution, probably resulting from natural dispersal from America to Africa then to Australasia. However, it has also undergone human-mediated dispersal, which has obscured the native-origin of some ribotypes. These introductions present a risk of diluting the pan-tropical structure evident in this species and therefore they have important conservation implications.

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The use and limits of ITS data in the analysis of intraspecific variation in Passiflora L. (Passifloraceae)

Cited by 38 publications

References 47 publications

Comparative pollen morphological analysis in the subgenera Passiflora and Decaloba

Comparative pollen morphological analysis in the subgenera Passiflora and Decaloba

Effects of past climate onPassiflora actinia(Passifloraceae) populations and insights into future species management in the Brazilian Atlantic forest

The Phylogeny and Biogeography of Phyla nodiflora (Verbenaceae) Reveals Native and Invasive Lineages throughout the World

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