Amounts of nuclear DNA in marine halophytes

Koce, Jasna Dolenc; Škondrić, Siniša; Bačič, Tinka; Dermastia, Marina

doi:10.1016/j.aquabot.2008.04.009

Cited by 8 publications

(4 citation statements)

References 17 publications

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“…A total of 57,151 unigenes were identified after de novo assembly, in which 57% was successfully annotated. The C-value of S. europaea , which refers to the amount of DNA contained within a haploid nucleus [ 54 ], has been determined with the 2C value calculated as 2.75 ± 0.03 pg [ 55 ]. Using the formulas to convert the number of nucleotide base pairs to picograms of DNA [ 56 ], we predicted the genome size of S. europaea as1344.75 ± 14.67 Mb.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Analysis of Salicornia europaea under Saline Conditions Revealed the Adaptive Primary Metabolic Pathways as Early Events to Facilitate Salt Adaptation

et al. 2013

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BackgroundHalophytes such as Salicornia europaea have evolved to exhibit unique mechanisms controlled by complex networks and regulated by numerous genes and interactions to adapt to habitats with high salinity. However, these mechanisms remain unknown.MethodsTo investigate the mechanism by which halophytes tolerate salt based on changes in the whole transcriptome, we performed transcriptome sequencing and functional annotation by database search. Using the unigene database, we conducted digital gene expression analysis of S. europaea at various time points after these materials were treated with NaCl. We also quantified ion uptakes. Gene functional enrichment analysis was performed to determine the important pathways involved in this process.ResultsA total of 57,151 unigenes with lengths of >300 bp were assembled, in which 57.5% of these unigenes were functionally annotated. Differentially expressed genes indicated that cell wall metabolism and lignin biosynthetic pathways were significantly enriched in S. europaea to promote the development of the xylem under saline conditions. This result is consistent with the increase in sodium uptake as ions pass through the xylem. Given that PSII efficiency remained unaltered, salt treatment activated the expression of electron transfer-related genes encoded by the chloroplast chromosome. Chlorophyll biosynthesis was also inhibited, indicating the energy-efficient state of the electron transfer system of S. europaea.ConclusionsThe key function of adjusting important primary metabolic pathways in salt adaption was identified by analyzing the changes in the transcriptome of S. europaea. These pathways could involve unique salt tolerance mechanisms in halophytes. This study also provided information as the basis of future investigations on salt response genes in S. europaea. Ample gene resources were also provided to improve the genes responsible for the salt tolerance ability of crops.

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Section: Discussionmentioning

confidence: 99%

Transcriptome Analysis of Salicornia europaea under Saline Conditions Revealed the Adaptive Primary Metabolic Pathways as Early Events to Facilitate Salt Adaptation

et al. 2013

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“…Alkaligrass is a tufted perennial halophyte in the genus Puccinellia, which consists of species with diverse morphology features and genome sizes (Murray et al, 2005;Koce et al, 2008). The identity of alkaligrass was confirmed by checking its morphology and taxonomy characteristics under stereo microscope ( Figure S1 in Supporting Information).…”

Section: Genome Sequencing and De Novo Assemblymentioning

confidence: 99%

A high-quality genome sequence of alkaligrass provides insights into halophyte stress tolerance

Zhang

Liu

Zhang

et al. 2020

Sci. China Life Sci.

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Alkaligrass (Puccinellia tenuiflora) is a monocotyledonous halophytic forage grass widely distributed in Northern China. It belongs to the Gramineae family and shares a close phylogenetic relationship with the cereal crops, wheat and barley. Here, we present a high-quality chromosome-level genome sequence of alkaligrass assembled from Illumina, PacBio and 10× Genomics reads combined with genome-wide chromosome conformation capture (Hi-C) data. The~1.50 Gb assembled alkaligrass genome encodes 38,387 protein-coding genes, and 54.9% of the assembly are transposable elements, with long terminal repeats being the most abundant. Comparative genomic analysis coupled with stress-treated transcriptome profiling uncovers a set of unique saline-and alkaline-responsive genes in alkaligrass. The high-quality genome assembly and the identified stress related genes in alkaligrass provide an important resource for evolutionary genomic studies in Gramineae and facilitate further understanding of molecular mechanisms underlying stress tolerance in monocotyledonous halophytes. The alkaligrass genome data is freely available at http://xhhuanglab.cn/data/alkaligrass.html.

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“…We have followed the protocol proposed by Day & al. (2012), though with certain modifications due to the small genome of the genus Sarcocornia (Koce & al., 2008). Chromosomes were observed using a microscope Axioplan 2 (Carl Zeiss, Göttingen, Germany).…”

Section: Chromosome Numbermentioning

confidence: 99%

Taxonomical identity of <em>Sarcocornia fruticosa</em> and <em>S. hispanica</em> in the Iberian Peninsula

Guilló¹,

Alonso²,

Lendínez³

et al. 2014

Anal. Jard. Bot. Madr.

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The recent description of Sarcocornia hispanica, from SE Iberian Peninsula evidences the notable morphological complexity of this genus. This species is quite close to S. fruticosa, as they both show an erect habit and lack of rooting stems. Besides, S. fruticosa has been traditionally recorded for the same geographical area of S. hispanica. However, the original description of S. hispanica did not include any mention about these two taxa would live together and which ones are the differential morphological characters. Our study aims to clarify their main morphological differences and to address two questions. Firstly, if two close species would be coexisting or secondly, if both species would not live together and then only one erect shrubby species should be recognised for the southeastern peninsular. Therefore, a detailed morphological study of these two species was carried out using vegetative and reproductive characters together with SEM features. Based on the original description, the main morphological features of S. hispanica were compared, plus other features which would support their identification. Our data pointed out the existence of a marked overlapping for most of the studied characters independently of the geographical procedence of the samples. As a result, no significant morphological differences have been found between both taxa, and S. hispanica is proposed as a mere synonym of S. fruticosa. La reciente descripción de Sarcocornia hispanica, para el sureste de la península ibérica, evidencia la notable complejidad morfológica de este género. Esta especie es muy próxima a S. fruticosa, ya que ambas tienen el hábito erecto y carecen de ramas enraizantes. Además, S. fruticosa ha sido tradicionalmente citada para la misma área geográfica de S. hispanica. Sin embargo, en la descripción original de S. hispanica no se indica si ambos taxones conviven y tampoco se aportan los caracteres morfológicos que los diferencian. El presente trabajo se centra en clarificar sus principales diferencias morfológicas, y dar respuesta a dos posibles hipótesis. En primer lugar, si estas dos especies coexisten, o en segundo lugar, ambas especies no convivirían y solo una especie arbustivas de hábito erecto, se reconocerían para el sureste peninsular. Para ello, se ha realizado un estudio morfológico detallado de ambas especies basado en diferentes caracteres vegetativos y reproductivos, junto con características obtenidas con MEB. Se han comparado los principales caracteres morfológicos indicados en la descripción original de S. hispanica, así como otros caracteres que apoyen la identificación de ambos taxones. Los datos obtenidos indican que la mayor parte de las características analizadas están solapadas entre ambas especies con independencia de su procedencia geográfica. Por tanto, no se han encontrado diferencias morfológicas entre ambos taxones, y se propone a S. hispanica como un sinónimo de S. fruticosa.

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Amounts of nuclear DNA in marine halophytes

Cited by 8 publications

References 17 publications

Transcriptome Analysis of Salicornia europaea under Saline Conditions Revealed the Adaptive Primary Metabolic Pathways as Early Events to Facilitate Salt Adaptation

Transcriptome Analysis of Salicornia europaea under Saline Conditions Revealed the Adaptive Primary Metabolic Pathways as Early Events to Facilitate Salt Adaptation

A high-quality genome sequence of alkaligrass provides insights into halophyte stress tolerance

Taxonomical identity of <em>Sarcocornia fruticosa</em> and <em>S. hispanica</em> in the Iberian Peninsula

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