<scp>DNA</scp> barcoding the genus <i>Chara</i>: molecular evidence recovers fewer taxa than the classical morphological approach

Schneider, Susanne C.; Rodrigues, Anuar; Moe, Therese Fosholt; Ballot, Andreas

doi:10.1111/jpy.12282

Cited by 32 publications

(40 citation statements)

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“…For the genus Chara, molecular phylogenetic analyses, based on chloroplast and nuclear DNA gene sequences, together with analyses of morphological characteristics, have also been carried out to resolve the relationships at species or genic level (mccoUrt et al 1996;meierS et al 1999;SanderS et al 2003;Sakayama et al 2009;Schneider et al 2015;noWak et al 2016). By contrast, in the same way using combined morphological characteristics of the species and analysis of about 6214 bp, noWak et al (2016) coudl not separate Chara individuals and all of the studied species.…”

Section: Introductionmentioning

confidence: 99%

Taxonomical analysis of closely related species of Chara L. section Hartmania (Streptophyta: Charales) based on morphological and molecular data

Urbaniak¹,

Sakayama²

2017

Fottea

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Abstract:In this study, five charophyte species belonging to the genus Chara L. section Hartmania, collected in Poland, were examined to determine their taxonomic status. Oospore dimensions of all investigated species differed significantly in their length, width and number of striae. However, no clear differences were found in the case of the oospore wall ornamentation that could be used for clear differentiation of the studied species. Detailed SEM images showed that the ornamentation on the oospore wall is not species specific, and also does not allow for differentiation of the species. Moreover, molecular phylogenetic analyses based on the matK and atpB DNA sequences reveal that the five studied species of section Hartmania are closely related and exhibit low genetic variation. Both types of analyses, based on oospore morphology and DNA barcoding, suggest a close phylogenetic relationship among the investigated species. The low levels of variability between species suggest that they had a relatively recent common ancestor, and probably exhibit a still incomplete, speciation process.

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Section: Introductionmentioning

confidence: 99%

Taxonomical analysis of closely related species of Chara L. section Hartmania (Streptophyta: Charales) based on morphological and molecular data

Urbaniak¹,

Sakayama²

2017

Fottea

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“…Las Charophyceae se caracterizan por la complejidad de su morfología vegetativa y reproductiva, lo cual hace que su taxonomía sea compleja y difícil de discernir (van den Hoek, Mann, & Jahns, 1995;Graham, Wilcox, & Graham, 2009;Bueno, Bicudo, Biolo, & Meurer, 2009;Urbaniak, 2011;Sato, Sakayama, Sato, Ito, & Sekimoto, 2014;Schneider, Rodrigues, Moe, & Ballot, 2015). Tradicionalmente se han utilizado caracteres morfológicos vegetativos y reproductivos macro y micro-estructurales en su taxonomía (Wood & Imahori, 1965;Proctor, 1971;Bueno et al, 2009;Bueno, Prado, Meurer, & Bicudo, 2011;Graham et al, 2009;Lee, 2008;Sakayama, 2008;Sato et al, 2014).…”

unclassified

“…En este sentido, los patrones ultraestructurales presentes en la pared de la oospora, son considerandos cruciales para la circunscripción de las especies (John, Moore, & Green, 1990;Leitch, John, & Moore, 1990;Casanova, 1991Casanova, , 1997Ray, Pekkari, & Snoeijs, 2001;Sakayama et al, 2005;Urbaniak, 2011). Lo anterior se relaciona con la naturaleza conservada de estos caracteres, que al parecer están principalmente influenciados por la genética y no por factores externos o de desarrollo, siendo así, excelentes marcadores taxonómicos (Ray et al, 2001;Urbaniak, 2011;Schneider et al, 2015). Así mismo, algunos autores consideran que en Charophyceae, los caracteres vegetativos son fenotípicamente muy plásticos, y se debe tener cuidado al utilizarlos como referente taxonó-mico, ya que, hasta el momento, son pocos los trabajos que muestran el intervalo de variación de los mismos ante factores externos (Schneider et al, 2015).…”

unclassified

“…Lo anterior se relaciona con la naturaleza conservada de estos caracteres, que al parecer están principalmente influenciados por la genética y no por factores externos o de desarrollo, siendo así, excelentes marcadores taxonómicos (Ray et al, 2001;Urbaniak, 2011;Schneider et al, 2015). Así mismo, algunos autores consideran que en Charophyceae, los caracteres vegetativos son fenotípicamente muy plásticos, y se debe tener cuidado al utilizarlos como referente taxonó-mico, ya que, hasta el momento, son pocos los trabajos que muestran el intervalo de variación de los mismos ante factores externos (Schneider et al, 2015). Estos mismos autores, indican que incluso se puede presentar variaciones en las estructuras vegetativas en organismos con estrecha relación filogenética y que podría corresponder más a variedades que a especies propiamente dichas.…”

unclassified

“…Ambos gametangios poseen células estériles conocidas como células escuderas que los rodean y protegen (Pickett-Heaps, 1968;John et al, 1990;Leitch et al, 1990;Graham et al, 2009;Lee, 2008;Sakayama, 2008;Sato et al, 2014). A pesar de que la microarquitectura de la pared externa de la oosfera reviste gran importancia taxonó-mica, sistemática y evolutiva, son escasos los trabajos encontrados en la literatura científica encaminados a describir la variabilidad de estos patrones Leitch et al, 1990;Casanova, 1991Casanova, , 1997Ray et al, 2001;Blume, Blindow, Dahlke, & Vedder, 2009;Urbaniak, 2011, Schneider et al, 2015. Algunos autores también han indicado que la microestructura interna de la pared oosporangial compuesta (POC) podría aportar datos importantes para el entendimiento de la biología reproductiva y sistemática de las Charophyceae en general (Leitch, 1986(Leitch, ,1989John & Moore, 1987;Leitch, 1989;Leitch et al, 1990;Sakayama et al, 2005).…”

unclassified

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Caracteres estructurales y ultraestructurales de la gametogénesis de Chara hydropitys (Charophyceae)

Barón

Bolaños

Torres

et al. 2017

RBT

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Structural and ultrastructural characters of the gametogenesis of Chara hydropitys (Charophyceae). In Charophyceae, the oosporangia and antheridia are the respective female and male structures of sexual reproduction. These organs are characterized by their morphological complexity and usefulness in taxonomy and systematics. Here we described the structural and ultraestructural details of Chara hydropitys gametogenesis. The fertile material from the algae was collected in a tributary stream of the Río Meléndez in Cali, Colombia (3º21´23´´N -76º32´5.2´´W) in March 2011. The specimens were fixed and processed following the standard protocols for inclusion in resin. Thin sections (0.3-0.5 μm) were stained with toluidine O, and were observed by photonic microscopy, and additional ultrathin sections (60-90 nm) were observed by transmission electron microscopy (TEM); other samples were processed and observed by scanning electron microscopy (SEM). We found that the oosporangia are covered with spiral cells, forming 10-12 convolutions and ends in five coronula cells. The immature oosporangia wall is formed by two layers that correspond to the wall of the spiral cells and to the oosphere. In mature stages, the oosporangia wall is composed by six additional layers, three of them are provided by the oosphere and the other three are provided by the spiral cells. Oosphere size increases progressively while the spiral cells grow and divide. The cytoplasm of the immature oosphere does not exhibit conspicuous cytoplasmic inclusions, nevertheless, with the maturation, the number of starch granules increases, occupying most of the cell volume. In the spiral cells of the mature oosporangia we observed large number of chloroplast with starch accumulations, between thylakoid lamellae and a vacuole that occupies almost the entire cell. By using SEM it was possible to appreciate, that the external wall of the oospore, more accurately, on the fossa area, shows verrucose micro-ornamentations with verrucae elevations. In mature antheridia, shield cells are strongly pigmented orange due to the presence of a large number of plastoglobules between thylakoid lamellae. The spermatogenous filaments are developed from cells of the secondary capitulum; those, by unidirectional and sincronic mitotic divisions develop the spermatocytes. The biflagellate antherozoids are developed from the haploid cells by spermiogenesis. The subcellular events related with these division and differentiation processes, include first, chromatin condensation, loss of nucleoli and more activity in dictyosomes. Subsequently, retracts the cytoplasm and the organelles are aligned along the condensed nucleus and flagellar apparatus. Mature antherozoids emerge through a side wall pore of the spermatocytes. All the described events showed that the gametogenesis processes and the gametes structural details in general, are widely conserved in this algae group. Rev. Biol. Trop. 65 (4): 1507-1526. Epub 2017 December 01.

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Toward freshwater plant diversity surveys with eDNA barcoding and metabarcoding

et al. 2023

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Providing reliable, cost‐effective data on species distribution is critical to ensuring biodiversity conservation. However, many species may go unrecorded by conventional surveys, especially in aquatic environments. Environmental DNA (eDNA) barcoding and metabarcoding are alternative approaches that could complete biodiversity estimates based on species observations. While eDNA surveys are being standardized for some animal groups (e.g., fish and amphibians), research on eDNA approaches for freshwater plant communities is just starting to bear fruit. Here, we synthesized the 22 studies that used eDNA barcoding and metabarcoding to survey plant biodiversity in freshwater systems. We present evidence that contemporary aquatic plants (macrophytes) and terrestrial plants can be detected in water and surficial sediment eDNA from lakes and rivers. The phenology (e.g., senescence) of the target taxa strongly influences species detection. The main application of eDNA barcoding targets the monitoring of invasive macrophytes, and barcoding assays are available for 14 taxa. The metabarcoding approach shows a range of applications: the detection of rare macrophytes, catchment‐scale floristic inventories, and sediment fingerprinting. Barcodes on the plastid genome (cpDNA) are preferred for both approaches: matK and trnH‐psbA for barcoding, trnL, and rbcL for metabarcoding. The intergenic transcribed spacer 1 (ITS1) from the nuclear ribosomal DNA (nrDNA) was used for designing eDNA barcoding assays on five invasive macrophytes. In contrast, only three metabarcoding studies used the ITS1 or IST2 with newly designed primers. However, metabarcoding applications should routinely use a multi‐locus approach, combining cpDNA and nrDNA barcodes. Barcode combinations and existing primers need further testing on eDNA samples. We recommend using local barcode reference databases (BRDs), ideally self‐made, to circumvent taxonomic gaps and heterogeneous sequences in public BRDs. Finally, new technologies and developments like droplet digital PCR and hybridisation capture offer new perspectives for eDNA‐based biodiversity monitoring approaches.

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DNA barcoding the genus Chara: molecular evidence recovers fewer taxa than the classical morphological approach

Cited by 32 publications

References 48 publications

Taxonomical analysis of closely related species of Chara L. section Hartmania (Streptophyta: Charales) based on morphological and molecular data

Taxonomical analysis of closely related species of Chara L. section Hartmania (Streptophyta: Charales) based on morphological and molecular data

Caracteres estructurales y ultraestructurales de la gametogénesis de Chara hydropitys (Charophyceae)

Toward freshwater plant diversity surveys with eDNA barcoding and metabarcoding

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