Pollen morphology of Campanula (Campanulaceae) and allied genera in Iran with special focus on its systematic implication

Khansari, Elmira; Zarré, Shahin; Alizadeh, Kamaleddin; Attar, Farideh; Aghabeigi, Fatemeh; Salmaki, Yasaman

doi:10.1016/j.flora.2012.01.006

Cited by 46 publications

(30 citation statements)

References 10 publications

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“…Traditional techniques of pollen identification rely on a high level of expertise and timeconsuming examination of morphological characters on the pollen exine, typically with low taxonomic resolution (Rahl 2008). Although some of these issues could potentially be overcome with automated analysis of digital micrographs of pollen (Holt and Bennett 2014), the lack of morphological characters for species-level taxonomic resolution in many plant groups will remain a limitation (Rahl 2008;Salmaki et al 2008;Khansari et al 2012). These issues could be resolved using new DNA barcoding technologies, making palynological information available to a broader range of studies.…”

Section: Background and Potential Of Pollen Dna Barcodingmentioning

confidence: 99%

Pollen DNA barcoding: current applications and future prospects

Bell

Vere

Keller

et al. 2016

Genome

183

163

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Identification of the species origin of pollen has many applications, including assessment of plant-pollinator networks, reconstruction of ancient plant communities, product authentication, allergen monitoring, and forensics. Such applications, however, have previously been limited by microscopy-based identification of pollen, which is slow, has low taxonomic resolution, and has few expert practitioners. One alternative is pollen DNA barcoding, which could overcome these issues. Recent studies demonstrate that both chloroplast and nuclear barcoding markers can be amplified from pollen. These recent validations of pollen metabarcoding indicate that now is the time for researchers in various fields to consider applying these methods to their research programs. In this paper, we review the nascent field of pollen DNA barcoding and discuss potential new applications of this technology, highlighting existing limitations and future research developments that will improve its utility in a wide range of applications.Key words: DNA metabarcoding, metagenomics, pollen, palynology, high-throughput sequencing, next-generation sequencing.Résumé : L'identification de l'espèce à l'origine d'un pollen se prête à de nombreuses applications dont la description des réseaux plante-pollinisateur, la reconstruction de communautés de plantes anciennes, l'authentification de produits, la surveillance des allergènes et les enquêtes médicolégales. Cependant, ces applications ont précédemment été limitées à l'identification du pollen par examen microscopique, un processus lent, à faible résolution taxonomique et qui compte peu de praticiens experts. Une alternative est l'identification du pollen par le recours aux codes à barres de l'ADN, une avenue qui permettrait de surmonter plusieurs de ces limitations. De récentes études ont montré qu'il était possible d'amplifier les marqueurs de codage tant chloroplastiques que nucléaires à partir du pollen. Ces récentes validations du métacodage à barres chez le pollen indiquent qu'il est maintenant opportun pour les chercheurs dans divers domaines de considérer l'emploi de ces méthodes dans leurs programmes de recherche. Dans cet article, les auteurs passent en revue le domaine naissant du codage à barres du pollen et discutent des nouvelles applications potentielles de cette technologie en mettant en lumière les limitations existantes ainsi que de futurs développements qui pourraient accroître son utilité dans un grand nombre d'applications. [Traduit par la Rédaction] Mots-clés : métacodage à barres, métagénomique, pollen, palynologie, séquençage à haut débit, séquençage de nouvelle génération.

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Section: Background and Potential Of Pollen Dna Barcodingmentioning

confidence: 99%

Pollen DNA barcoding: current applications and future prospects

Bell

Vere

Keller

et al. 2016

Genome

183

163

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“…This method suffers from a lack of available experts, with even fewer being trained (Rahl, ), and may be subject to operator bias. Additionally, many species can only be identified to the family level or higher (Khansari et al., ; Salmaki, Jamzad, Zarre, & Bräuchler, ). Visual identification is also slow if there are a large number of samples to be examined.…”

Section: Introductionmentioning

confidence: 99%

Quantitative and qualitative assessment of pollen DNA metabarcoding using constructed species mixtures

et al. 2018

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Pollen DNA metabarcoding-marker-based genetic identification of potentially mixed-species pollen samples-has applications across a variety of fields. While basic species-level pollen identification using standard DNA barcode markers is established, the extent to which metabarcoding (a) correctly assigns species identities to mixes (qualitative matching) and (b) generates sequence reads proportionally to their relative abundance in a sample (quantitative matching) is unclear, as these have not been assessed relative to known standards. We tested the quantitative and qualitative robustness of metabarcoding in constructed pollen mixtures varying in species richness (1-9 species), taxonomic relatedness (within genera to across class) and rarity (5%-100% of grains), using Illumina MiSeq with the markers rbcL and ITS2. Qualitatively, species composition determinations were largely correct, but false positives and negatives occurred. False negatives were typically driven by lack of a barcode gap or rarity in a sample. Species richness and taxonomic relatedness, however, did not strongly impact correct determinations. False positives were likely driven by contamination, chimeric sequences and/or misidentification by the bioinformatics pipeline. Quantitatively, the proportion of reads for each species was only weakly correlated with its relative abundance, in contrast to suggestions from some other studies. Quantitative mismatches are not correctable by consistent scaling factors, but instead are context-dependent on the other species present in a sample. Together, our results show that metabarcoding is largely robust for determining pollen presence/absence but that sequence reads should not be used to infer relative abundance of pollen grains.

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“…It contains about 420 species and several subspecies, which are distributed throughout warm and subtropical regions (Lammers 2007). Endemic Campanula species are especially agglomerated in the eastern Mediterranean area, the Caucasus and Turkey (Borsch et al 2009, Khansari 2012. The most significant members of the endemic Campanula species are narrowly distributed and typically adapted to highly particular soil types and microclimatic conditions (Damboldt 1965, Kovanda 1970, Pignatti 1982, Park et al 2006.…”

Section: Introductionmentioning

confidence: 99%

Campanula baskilensis sp. nov. (Campanulaceae), a new chasmophyte from Turkey with unusual capsule dehiscence

Behçet

İlçım

2018

Nordic Journal of Botany

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A new species discovered in Turkey, Campanula baskilensis Behçet sp. nov. (Campanulaceae), is described as a species confined to B7 Elazığ, Baskil in east Anatolia. It grows as a chasmophyte on calcareous rocks. The diagnostic morphological characteristics of C. yildirimlii and C. oligosperma, including palynological and seed epidermal characters as observed by SEM, are discussed and notes on the ecology and conservation status of the new species are presented. A distribution map of the new and related species is also provided. The most unusual feature of C. baskilensis is the opening mechanism of its capsule which has 10 valves that split from the base to near the apex of the capsule.

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Pollen morphology of Campanula (Campanulaceae) and allied genera in Iran with special focus on its systematic implication

Cited by 46 publications

References 10 publications

Pollen DNA barcoding: current applications and future prospects

Pollen DNA barcoding: current applications and future prospects

Quantitative and qualitative assessment of pollen DNA metabarcoding using constructed species mixtures

Campanula baskilensis sp. nov. (Campanulaceae), a new chasmophyte from Turkey with unusual capsule dehiscence

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