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Nuclear genome stability in long-term cultivated callus lines of Fagopyrum tataricum (L.) Gaertn

  • Alexander Betekhtin ,

    alexander.betekhtin@us.edu.pl

    Affiliation Department of Plant Anatomy and Cytology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

    ORCID http://orcid.org/0000-0001-6146-1669

  • Magdalena Rojek,

    Affiliation Department of Plant Anatomy and Cytology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

  • Joanna Jaskowiak,

    Affiliation Department of Plant Anatomy and Cytology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

  • Anna Milewska-Hendel,

    Affiliation Department of Cell Biology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

  • Jolanta Kwasniewska,

    Affiliation Department of Plant Anatomy and Cytology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

  • Yulia Kostyukova,

    Affiliation Kazan Institute of Biochemistry and Biophysics of Kazan Science Centre of the Russian Academy of Sciences, Laboratory of Physiology and Genetics of Plant Cell Cultures, Kazan, Russia

  • Ewa Kurczynska,

    Affiliation Department of Cell Biology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

  • Natalya Rumyantseva,

    Affiliations Kazan Institute of Biochemistry and Biophysics of Kazan Science Centre of the Russian Academy of Sciences, Laboratory of Physiology and Genetics of Plant Cell Cultures, Kazan, Russia, Kazan Federal University, Institute of Fundamental Medicine and Biology, Department of Botany and Plant Physiology, Kazan, Russia

  • Robert Hasterok

    Affiliation Department of Plant Anatomy and Cytology, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Katowice, Poland

Nuclear genome stability in long-term cultivated callus lines of Fagopyrum tataricum (L.) Gaertn

  • Alexander Betekhtin, 
  • Magdalena Rojek, 
  • Joanna Jaskowiak, 
  • Anna Milewska-Hendel, 
  • Jolanta Kwasniewska, 
  • Yulia Kostyukova, 
  • Ewa Kurczynska, 
  • Natalya Rumyantseva, 
  • Robert Hasterok
PLOS
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Abstract

Long-term cultivated Fagopyrum tataricum (L.) Gaertn. (Tartary buckwheat) morphogenic and non-morphogenic callus lines are interesting systems for gaining a better understanding of the mechanisms that are responsible for the genetic stability and instability of a plant tissue culture. In this work, we used histological sections and transmission electron microscopy to identify and describe the morphology of the nuclei of all of the analysed callus lines. We demonstrated that the embryogenic callus cells had prominent round nuclei that did not contain heterochromatin clumps in contrast to the non-morphogenic callus lines, in which we found nuclei that had multiple lobes. Flow cytometry analysis revealed significant differences in the relative DNA content between the analysed calli. All of the analysed morphogenic callus lines had peaks from 2C to 8C as compared to the non-morphogenic callus lines, whose peaks did not reflect any regular DNA content and exceeded 8C and 16C for the line 6p1 and 16C and 32C for the callus line 10p2A. The results showed that non-morphogenic calli are of an aneuploid nature. The TUNEL test enabled us to visualise the nuclei that had DNA fragmentation in both the morphogenic and non-morphogenic lines. We revealed significantly higher frequencies of positively labelled nuclei in the non-morphogenic lines than in the morphogenic lines. In the case of the morphogenic lines, the highest observed frequency of TUNEL-positive nuclei was 7.7% for lines 2–3. In the non-morphogenic calli, the highest level of DNA damage (68.5%) was revealed in line 6p1. These results clearly indicate greater genome stability in the morphogenic lines.

Introduction

In vitro propagated plant material can be genetically stable and the clones that are obtained are identical to the parental plant from which the culture was established. However, various, often phenotypic, changes can be observed in the regenerated in vitro plants compared to the parental organisms. This phenomenon is known as somaclonal variation. The culprit in such changes may be the rearrangements at the genetic and epigenetic levels that take place during the intermediate stages in a plant tissue culture such as callogenesis and plant regeneration [1, 2]. These include point mutations, structural and numerical chromosomal changes, changes in the gene copy number, alterations in the mobile element activity and changes in DNA methylation [36]. Genetic mutations can lead to considerable difficulties in maintaining a callus culture and in plant regeneration and consequently, can prevent or greatly reduce the effectiveness of treatments such as micropropagation or genetic transformation [7].

Somaclonal variation appears to be influenced by the genotype, the explant source, the age of the donor plant and the tissue culture protocol [5]. The precise mechanisms of somaclonal variation are still the subject of debate. A common characteristic of callus cells is their polyploidisation, which has resulted from various processes such as endoreduplication, endomitosis, the fusion of nuclei and chromosomal disorders during anaphase [5]. An increase in the chromosome number during an in vitro culture has not only been observed in various plant species, including representatives of the genus Allium, such as A. sativum [8], A. cepa [9], A. fistulosum [10], Solanum tuberosum [11], Cucumis sativus L. [12] and Agapanthus praecox [13] but also in the model dicotyledonous plant Arabidopsis thaliana [14]. Considerable changes in the global DNA methylation levels as well as methylation at specific sites have been demonstrated for tissue cultures of oil palm [15], grapevine [16] and apple [17]. Cryopreservation, which was applied to Ribes genotypes that were not resistant to this process, caused a significant decrease in DNA methylation and, therefore, the activation of previously silenced retrotransposons. A ten-fold increase in the copy number of the Tto1 retrotransposon has also been reported for tobacco plants that had been regenerated from a tissue culture as well as in transgenic plants of this species [18]. A lack of proper DNA methylation contributed to genomic instability, which further hindered the normal development of plants [19].

One good example of the stability of the regeneration potential is the callus of Tartary buckwheat (Fagopyrum tataricum (L.) Gaertn.), which has been reported to maintain its ability to undergo somatic embryogenesis and its low chromosome variability through several years of culture [20, 21]. Tartary buckwheat (2n = 16) is a wild buckwheat species that is considered to be a weed in Europe. However, it is widely cultivated in East Asia where it is used for human consumption [22]. Tartary buckwheat is also a source of rutin and other bioflavonoids, which are powerful antioxidants that can be used to treat cardiovascular diseases, inflammation, hypertension, neurological disorders, diabetes and obesity [23]. Buckwheat is the only plant among cereals and pseudocereals whose seeds contain rutin [24]. It is worth mentioning that the rutin content in the groats of Tartary buckwheat is 300-fold more concentrated than that in common buckwheat [25].

The aim of this study was to investigate DNA changes in long-term cultivated calli of F. tataricum and to compare them to different lines of the morphogenic callus (MC) and the non-morphogenic callus (NC) that were obtained in different years. The extent of the nucleus morphology, relative DNA content and DNA damage were analysed in relation to the callus type and age.

Material and methods

The seeds of Tartary buckwheat, sample k-17 were obtained from the collection of the N.I. Vavilov Institute of Plant Genetic Resources, Saint Petersburg, Russia (the plants were grown in field conditions from May to September). The lines of calli were obtained from immature embryos of F. tataricum. Three lines of the morphogenic callus (1–10, K5 and 2–3) and two lines of the non-morphogenic callus (1-10p2A and 6p1) were used for the experiments. It should be noted that the non-morphogenic callus 1-10p2A was derived from the morphogenic one 1–10, while the non-morphogenic callus 6p1 was derived from the morphogenic line K5. The line 2–3 does not produce any non-morphogenic clone. The calli were cultivated in an incubator at 26°C ± 1 on an RX medium that contained the typical mineral salts of Gamborg’s medium [26], which was supplemented with 2.0 mg/L thiamine-HCl, 1.0 mg/L pyridoxine-HCl, 1.0 mg/L nicotinic acid, 2000 mg/L casein hydrolysate, 2.0 mg/L 2.4-D, 0.5 mg/L indolylacetic acid, 0.5 mg/L naphthylacetic acid, 0.2 mg/L kinetin, 2.5% sucrose and 0.8% agar [20]. The MC and NC callus lines were subcultured every four and three weeks, respectively. The general characteristics of the callus lines, including their origin, type and year of generation are shown in Table 1.

Flow cytometry

The relative DNA content of the control plants (Tartary buckwheat plants that had been grown in field conditions from May to September, GPS coordinates: N50.428054, E19.218033) and callus tissues 11 days after the passage onto the fresh medium were analysed using flow cytometry. For each preparation, approximately 0.1 g of young leaf material and each type of callus tissue were used. After mechanical tissue fragmentation, the suspension of nuclei was filtered through a 30-um nylon mesh to remove any large debris and then stained with a staining buffer (Sysmex) that had been supplemented with 1% ß-mercaptoethanol to prevent oxidation of the samples. Samples were incubated for 1–2 minutes and analysed using a CyFlow Space Sysmex flow cytometer with a 365 nm UV LED diode as the light source. Three samples were analysed for each callus type and the flow rate was adjusted to 20–40 nuclei per second. The results are shown on histograms using a logarithmic scale (Figs 1 and 2).

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Fig 1. Morphology, histology and TEM of the MC.

MC, black arrows—PECC, white arrow–‘soft’ callus (A); histological sections of PECCs (B)–(C); phenolic-containing surficial cells (PC cells) of the PECC, TEM (D)–(E). Arrows indicate heterochromatin clumps; meristematic cells of the PECC (F), TEM. Abbreviations: cell wall (CW), endoplasmic reticulum (ER), nucleus (N), nucleolus (Nu), lipid bodies (LB), mitochondria (Mi), phenolics (Ph), plastid (Pl).

https://doi.org/10.1371/journal.pone.0173537.g001

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Fig 2. Detection of phenolics in the PECCs.

Hand sections through a C. mollis leaf as a control plant (A) and PECCs in F. tataricum (B) visualised under UV light, showing the blue autofluorescence of phenolics. The presence of phenolics in a vacuole is marked by a yellow arrow. Sections through the PECCs after PAS reaction (C; orange to yellow colouration of phenolics, black arrows) and stained with TBO in an acetate buffer (D; greenish-blue colouration of phenolics, red arrows).

https://doi.org/10.1371/journal.pone.0173537.g002

TUNEL test

The TUNEL test was carried for each line of the calli, which were sampled 2, 11 and 21 days after the passage to the fresh medium. The entire callus tissue and proembryogenic cell complexes (PECCs) were used in the TUNEL reaction. Callus samples were fixed with freshly prepared 4% paraformaldehyde (Fluka) in a 1×PBS (phosphate-buffered saline) buffer for 1 hour at room temperature. Then material was washed 3×5 minutes in PBS. The nuclei preparations were obtained by squashing the callus tissue in PBS. After freezing at -70°C, the preparations were stored for several days at 4°C. Cell permeabilisation was done by incubating the preparations in 0.1% Triton X-100 (Sigma) in 0.1% sodium citrate for 2 minutes at 4°C, after which the preparations were rinsed with PBS. Nuclei that had DNA fragmentation were detected using a TUNEL reaction mixture (in situ Cell Death Detection Kit, Fluorescein, Roche). Fifty μl of the TUNEL reaction mixture (enzyme solution: label solution, 1: 9 v/v) was applied to each preparation and incubated for 1 hour at 37°C in the dark in a humid chamber. The positive control preparations consisted of leaf nuclei that had been treated with a DNase solution (1U) for 30 minutes at 37°C in a humid chamber before the TUNEL reaction mixture was applied. The negative control consisted of a mixture without the enzyme. Preparations were rinsed 3× with PBS and stained with DAPI (2 μg/mL), air dried and then mounted in Citifluor.

The preparations were examined with a wide-field AxioImager.Z.2 epifluorescence microscope (Zeiss) equipped with filters for FITC and DAPI. The frequency of the labelled cells was estimated based on 2000 cells that were analysed on three slides for each callus type. The significance of differences between different calli was assessed using the Student's t-test with P < 0.05 taken as indicating significance.

Light microscopy and transmission electron microscopy

For transmission electron microscopy (TEM), callus pieces (1–2 mm2) were fixed in 2.5% glutaraldehyde in a 0.1M phosphate buffer (pH 7.2), washed in the same buffer and then post-fixed in 1% OsO4 diluted with the same buffer solution to which sucrose was added (25 mg/ml) for 3 h at room temperature. Tissues were dehydrated through a graded ethanol series, 100% acetone and 100% propylene oxide and embedded in Epon-812 epoxy wax. Sections (70–100 nm thick) were cut on an LKB 8800 (“LKB”, Sweden) ultramicrotome, collected onto nickel grids and stained with 4% uranyl acetate for 20 min and Reynolds lead citrate for 10 min [27]. Observations were made using a Jeol 1200 SX transmission electron microscope (Jeol, Japan). For the histological analysis, semithin sections (3 μm thick) were cut on an Ultra Cut E (Reichert-Jung, Austria) ultramicrotome and stained with 0.05% toluidine blue [28, 29]. The stained sections were examined under a Jenamed microscope (Carl Zeiss, Germany) and recorded digitally using an AxioCam MRc5 camera with AxioVision Rel.4.6 software. In order to confirm that the substances that had been stained with TBO were indeed phenolics, additional reactions were performed. Fresh samples of the F. tataricum callus lines and Crepis mollis were cut with a razor blade, incubated in a drop of demineralised water on a microscopic slide under a coverslip and their autofluorescence was analysed under a wide-field Eclipse Ni-U epifluorescence microscope equipped with a DS-Fi1-U3 digital camera and dedicated software (Nikon, Tokyo, Japan). Sections were exposed to UV light (excitation 365 nm; [30]). C. mollis leaves were used as the reference sample because of the high content of phenolic compounds [31].

Samples were embedded in LR White resin and cut into 2.5 μm sections [32], then collected onto poly-L-lysine coated microscopic slides and stained using: (a) PAS reaction (periodic acid-Shiff stain; phenolic compounds were visualised with the colour orange; [33]); (b) Toluidine Blue O in 0.1 M acetate buffer at pH = 4.4 (phenolic substances were indicated by greenish-blue to green coloration; [34]).

Results and discussion

The MC consists of PECCs (or in other words pro-embryogenic masses (PEMs)) and a ‘soft’ callus (Figs 1A–1C, 2B–2D, 3A and 3B). During the cyclical callus development, the mature PECCs disintegrate, thereby giving rise to young PECCs and ‘soft’ callus cells (Fig 3A and 3B) [35, 36]. Non-morphogenic callus lines contain only parenchymatous cells (Fig 4A and 4B) [20, 35]. The PECCs of a Tartary buckwheat callus are structures that are formed by various types of cells (Fig 1B and 1C). The surface of PECCs is covered by cells that accumulate phenolics in their vacuoles, i.e. phenolic-containing cells (PC cells) (Fig 1B and 1C, red arrows), which were manifested by TBO staining (Fig 2D). Interestingly, PC cells separate from the PECCs during the culture (Fig 1B and 1C). When the vacuole of a PC cell is poorly filled by phenolics, the nucleus of such a cell is round with a prominent nucleolus but no heterochromatin clumps (Fig 1D). When a PC cell becomes senescent, its vacuole has significant phenolic depositions (Fig 1E). The nucleus in a senescent cell is flat; the nucleolus, as a rule, disappears and the nucleoplasm has many heterochromatin clumps (Fig 1E). The death of PC cells appears to be very quick—the disruption of the tonoplast releases phenolics from the vacuole and leads to the release of the phenolics. The dead cells are larger than live PC cells (Fig 1B and 1C, yellow arrow). Layers of poorly vacuolised meristematic-like cells that have a dense cytoplasm and round nuclei are located below the PC cells (Fig 1B and 1C, green arrows). Subsurficial meristematic cells are the source of embryogenically determined cells, from which embryoids or new PECCs arise (Fig 1F). Parenchymatous cells that have large starch grains in their plastids constitute the central and most prominent part of PECCs (Fig 1B and 1C, red asterisks).

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Fig 3. Cells of the ‘soft callus’ in the MC.

Histological sections (A)–(B); TEM (C)–(D), single arrows indicate heterochromatin clumps and arrowheads indicate the detachment of plasmalemma from a cell wall.

https://doi.org/10.1371/journal.pone.0173537.g003

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Fig 4. Non-morphogenic callus of Tartary buckwheat.

Morphology (A), histological section, arrow shows a cell with numerous nucleoli (B); TEM (C)–(F).

https://doi.org/10.1371/journal.pone.0173537.g004

The presence of phenolics in the surface cells of PECCs was also confirmed by other, more specific methods (Fig 2A–2D). Autofluorescence of the phenolic compounds in the calli cells was compared to C. mollis, which is known to be a species that contains significant amounts of phenolic compounds [31]. In the Tatary buckwheat callus, at least two layers of surface cells contain phenolics (Fig 1B). The presence of phenolics in the vacuole was also documented (Fig 2B, insertion, yellow arrow). It appeared that the chemical character of the PECC phenolics may be similar to that found in C. mollis based on their similar autofluorescence hue (Fig 2A and 2B). It was demonstrated earlier that a suspension culture of F. tataricum contained phenolics such as rutin, quercitrin, epicatechin, ferulic and p-coumaric acids [37]. Phenolics deposited in the vacuole may be indicators of stress conditions [38], which is a normal status of cells during an in vitro culture [39]. Detection of phenolics using the PAS reaction in peach palm (Bactris gasipaes) an in vitro culture was obtained [33]. It should be noted that these authors found the phenolics in both the cytoplasm and the adjacent cell wall during the process of their differentiating into somatic embryos. Staining with TBO at a low pH buffer gave the same results as in the case of an in vivo analysis of Eucalyptus festigata roots [34], which showed a greenish colouration that indicated the presence of phenolic compounds in the calli cell vacuoles.

The ‘soft’ callus is formed during the loosening of the PECCs and primarily consists of elongated cells that are highly vacuolised (Fig 3A and 3B). A drastic difference between the ‘soft’ callus and PECCs was observed. The ‘soft’ callus cells also differ from the NC, since signs of degradation appear in the majority of its cells judging by the detachment of the plasmalemma from the cell wall (Fig 3A). In contrast to the NC, the cells of the ‘soft’ callus probably do not divide. They have a senescent phenotype of nucleus with numerous heterochromatin clumps (Fig 3C and 3D). In the MCs, the ‘soft’ callus has the function of nurse tissue that supports the growth of the PECCs by providing sugars, proteins and other conditioning factors, which are secreted into the culture medium during the loosening and disintegration of the PECCs. The cells of the ‘soft’ callus are metabolically active, but do not divide, thus postponing death through senescence.

The NCs, which are formed exclusively from parenchymous type cells (Fig 4A and 4B), differed from the MCs because of their friable structure, high growth rate and complete loss of the capacity for morphogenesis [21]. In the NC cells, the central vacuole occupies most of the cell and the nucleus has a near-wall position (Fig 4B). There are multinucleated cells quite often; there may be a few nucleoli in one nucleus (Fig 4B). A characteristic feature of the nuclei in the NC is the presence of numerous deep lobes (Fig 4C–4F). In some cases, the lobes are separated so much that it is difficult to identify what is seen on the TEM electronograms—the lobes of one nucleus or two separate nuclei in one cell (Fig 4F). The rough endoplasmic reticulum (ER) has short cisterns and the mitochondria are small and round. The plastids are mostly cup-shaped and have starch grains. In plants that are not exposed to stress in vivo, lobed nuclei have been described in the nectary cells of Padus racemose [40], in the cells of storage tissues of Ricinus communis [40], in the stinging cells of Urtica dioica [40], in the root hairs of Raphanus sativus [41] and in the tomato pericarp [42]. In vitro, lobed or irregular-shaped nuclei have been observed in the non-morphogenic calli of Beta vulgaris [43], Plantago asiatica [44] and Allium fistulosum [10]. The lobed shape of the nucleus appears to be due to the increased amount of nuclear DNA in the differentiated, non-dividing cells (as a result of endopolyploidy) and also in the polyploid dividing callus cells. A correlation between an increased DNA content in the differentiated cells of the tomato pericarp and a change in their shape from round to lobed was found [42]. An increase in cell ploidy has been shown to be accompanied by an increased depth of the nuclear lobes as well as the nucleus area. The prevalence of high-level polyploid cells apparently explains the presence of lobed nuclei in the NC cells of Tartary buckwheat as well as in the NCs of the other above-mentioned species. Nuclear and cytoplasmic volumes are somehow related to each other; this phenomenon is referred to as the karyoplasmic ratio [45] or nuclear/cytoplasmic ratio [46]. It can be assumed that an increase in the surface area of the nuclei in polyploid cells activates the exchange of proteins and ribonucleoproteins between the nucleus and the cytoplasm. An interesting observation was the accumulation of mitochondria in the invaginations of the nuclei (Fig 4C and 4F), apparently in those cell sites where there was the greatest need for ATP; a similar mitochondrial localisation was observed in the cells of the tomato pericarp, which had nuclei with large lobes [42].

The cytogenetic and genetic stability of the callus is one of the key prerequisites for the efficient clonal propagation in an in vitro plant tissue culture. Long-term callus cultures often result in an accumulation of genetic changes, including polyploidisation. Such changes can lead to the regeneration of polyploids, chimeric plants or even to the loss of morphogenic potential [2, 47, 48]. The calli of Tartary buckwheat that were obtained from immature embryos differed significantly from the non-morphogenic clones in terms of their morphogenetic potential, the types and structure of the cells and biochemical properties [21]. Our flow cytometry analyses revealed significant differences in the relative DNA content patterns between the distinct callus lines of F. tataricum. The MC lines were primarily characterised by the presence of nuclei that had a relative DNA content at 2C and 4C as well as small peaks at 8C (Fig 5A–5C). In the case of lines 1–10, a small peak that indicated the presence of nuclei with 16C was also detected (Fig 5 –black arrow). The presence of a large population of nuclei with a 4C DNA content and a small population with an 8C and 16C DNA content in the MC may indicate intensive DNA replication before cell division or may be attributed to the occurrence of the polyploidisation cycles that are connected to the endoreduplication processes. The flow cytometry analysis of the PECCs in the morphogenic calli revealed that they had a similar ploidy pattern to the whole callus (PECCs plus the ‘soft’ callus), thus indicating that the MC has a very stable nature in a prolonged culture with most of its cells being diploid (Fig 5E–5G). In contrast, in the NC lines 6p1 and 10p2A, the DNA content was significantly different (Fig 6). In these lines, two clearly visible peaks were observed. In the case of the 6p1 callus line, the peaks were gated between a gain for 8C and 16C and a gain for 16C and 32C (Fig 6B). On the other hand, the peaks in the callus line 10p2A exceeded 16C and 32C of the DNA content (Fig 6C). These abnormal localisations of the peaks may indicate some changes in chromosome numbers, for example, aneuploidy that was caused by a not purely geometrical progression in the multiplication of the nuclear DNA content that was caused by the fact that subsequent polyploidisation cycles can occur along with the loss of some chromosomes.

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Fig 5.

Flow cytometer histograms showing the relative DNA content in the leaves of the control plants (A) and in the MC. ‘soft callus’ + PECC for the line K5 (B), 1–10 (C), 2–3 (D) and PECCs without the ‘soft’ callus isolated from the line K5 (E), 1–10 (F) and 2–3 (G).

https://doi.org/10.1371/journal.pone.0173537.g005

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Fig 6. Flow cytometer histograms showing the relative DNA content.

Leaves of the control plants (A), NC line 6p1 (B) and NC line 10p2A (C).

https://doi.org/10.1371/journal.pone.0173537.g006

The occurrence of populations of nuclei at such diverse DNA ploidy levels indicates the highly unstable genetic nature of the NC lines. These changes can lead to the loss of the regenerative capacity of the callus. In an embryogenic cell suspension of different cultivars of Musa, changes in the ploidy level clearly affected the morphogenetic potential. Non-regenerable Grande Naine and Williams suspension cultures were characterised by the presence of highly polyploid cells. In contrast, the regeneration of young plants was observed in the Three Hand Planty cultivar cell culture, which had a ploidy similar to the triploid parental plants [48]. The gradual loss of the ability to regenerate was also a consequence of polyploidisation in cucumber callus cultures, where the plants that regenerated from the callus were mostly diploids (57%) while tetraploids, octoploids and mixoploids contributed only 18%, 4% and 21%, respectively [49]. Changes in the ploidy level during callus cultures have also been reported for A. thaliana [50], Oryza sativa [51], Hyoscyamus muticus [52] and A. fistulosum [10]. The reason for the polyploidisation in the MC callus lines of F. tataricum could be due to the polysomatic nature of this plant. The degree of polysomaty can be different in juvenile and adult tissues. However, in Cucumis sativus, polysomaty was already present in the radicle and hypocotyl of the ungerminated seeds [53]. This indicates that endopolyploidisation had taken place in a number of the cells of these organs at the early stages of tissue differentiation during embryo development. It should be noted that A. thaliana is also a polysomatic plant that has mixoploid (2C-32C) somatic tissues and meristematic tissues that consist only of diploid cells [54]. An increase in the ploidy level might lead to a decrease in or even total loss of the regeneration potential [55] or to the regeneration of polyploid plants as, for example, in A. thaliana [14] and Vitis vinifera [56]. In contrast to the NC lines, all of the MC lines retained their cytogenetic stability even after several years of cultivation and most of their nuclei had a 2C DNA content. Earlier, such a high cytogenetic stability in a callus culture and regenerants was also reported for Crepis tectorum [57], Pinus taeda [58], Ruscus hypophyllum [59] and Larix × eurolepis [60].

The application consisting of the TUNEL test permitted us to visualise the nuclei with DNA fragmentation in both the MC and NC lines of F. tataricum. Simultaneously with the detection of nuclei with DNA fragmentation (green fluorescence; Fig 7A–7E), DAPI staining was applied in order to show both TUNEL-positive and TUNEL-negative nuclei (blue fluorescence; Fig 7A–7E). When a whole callus tissue was sampled, TUNEL-positive nuclei were detected in both the MC (K5 and 2–3) and NC (10p2A and 6p1) callus lines (Fig 7). Interestingly, no DNA damage was revealed in the TUNEL test in lines 1–10 of the morphogenic callus. Almost all of the nuclei showed a green fluorescence of the FITC in the positive control in which a DNase solution was used to induce DNA strand breaks and no positively labelled nuclei were observed in the negative control of the TUNEL reaction (S1A, S1A`, S1B and S1B` Fig).

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Fig 7. Examples of the in situ detection of DNA fragmentation using the TUNEL test in the MC and NC lines: 1–10 (A—A`), K5 (B—B`), 2–3 (C—C`), 10p2A (D—D`) and 6p1 (E—E`).

Blue fluorescence: DAPI—all nuclei stained (A-D); green fluorescence: fluorescein-positive results of TUNEL test (A`-D`). Scale bars: 10 μm.

https://doi.org/10.1371/journal.pone.0173537.g007

The results of the TUNEL test confirmed that the frequencies of the labelled nuclei were different for the different callus lines used in this study (Fig 8A–8C). We revealed significantly higher frequencies of positively labelled nuclei in the NC lines than in the MC lines. In the case of the morphogenic callus, the highest observed frequency of TUNEL-positive was 7.7% for lines 2–3. The lowest frequency of DNA-damaged nuclei in the NC was 31.5% in line 10p2A, whereas the highest level of DNA damage (68.5%) was observed in line 6p1. These results clearly indicate greater genome stability in the MC lines. A correlation between the frequency of TUNEL-positive nuclei and the length of time after the passage onto a fresh medium of the analysis was recorded for all of the callus lines with DNA damage. The highest frequencies of damaged nuclei were observed for the NC callus lines on the 2nd day after the passage. Then, a decrease in the frequency of TUNEL-specific nuclei was observed on the 11th day after the passage, while the observations that were carried out on the 21st day after the passage showed a subsequent re-increase of the frequency of DNA-damaged nuclei, although not to the levels observed after the 2nd day after the passage. The frequency of DNA-damaged nuclei in the MC callus, except for lines 1–10, gradually increased from the 2nd to the 21st day of the culture. Simultaneous with the TUNEL test that was applied to the whole callus samples, the PECCs from the MC lines were isolated and used for a TUNEL reaction. The frequencies of DNA-damaged nuclei in these cells were lower than in the whole callus sample of the corresponding lines (Fig 9). The highest frequency of DNA-damaged nuclei in the PECC cells (3.4%) was recorded for lines 2–3, whereas the corresponding value for the whole callus sample was 7.7%. This finding clearly demonstrates the greater stability of the PECC cells compared with the MC as a whole. The accumulation of DNA damage appears to be connected with senescence. An increase in single-strand-preferring nuclease activity was observed during dark-induced senescence in barley as well as during the natural senescence of wheat and rye leaves [61]. The main contribution to the appearance of DNA-damaged nuclei in the MC was apparently made by the senescent cells of the ‘soft’ callus and the senescent phenolic-containing surficial cells of the PECCs. These cells have the senescent-like features of the nuclei, which were flat and had chromatin condensation. The part of the ‘soft’ callus dominated the PECC part in the senescing cultures. Changes in the frequency of damaged nuclei during a subculture were previously demonstrated for the Crepis capillaris callus [62], where those authors revealed that the level of DNA damage decreased after the tissue was transferred onto a new medium but increased up to the 12th day of culture. A similar response, which was observed for the PECC cells of Tartary buckwheat, can be explained by the exhaustion of nutrients, as well as the accumulation of metabolic products in the medium. The different response appears to be connected with another physiological and genetic status of the NC. One of the most important reasons for the nucleus damage appears to be connected with the high level of oxidative stress, which is a normal physiological state for the NC and its cells appear to be adapted to it. As was demonstrated earlier [21], the NC cells of F. tataricum are in a state of continuous oxidative stress, which is reflected by their higher content of hydrogen peroxide and malonic dialdehyde, low catalase activity and high activity of superoxide dismutase compared to the MC cells. It should be noted that high levels of lipid peroxidation and the malondialdehyde accumulation are typical for a fully habituated non-organogenic sugar beet callus [63]. Although the TUNEL test has previously been applied in some analyses of DNA damage in callus cells [6, 62, 64], our study is still quite a rare example of this type of application.

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Fig 8. The frequencies of TUNEL-positive nuclei in all of the studied callus lines 2 (A), 11 (B) and 21 (C) days after the passage.

Values with different letters differ significantly for the Student's t-test at P < 0.05.

https://doi.org/10.1371/journal.pone.0173537.g008

thumbnail
Fig 9. The frequencies of TUNEL-positive nuclei in the PECCs that originated from the callus lines 1–10, K5 and 2–3 2, 11 and 21 days after the passage.

Values with different letters within the same callus line differ significantly for the Student's t-test at P < 0.05.

https://doi.org/10.1371/journal.pone.0173537.g009

To conclude, in the subsequent research, we found that the callus lines of buckwheat are a remarkable example of strikingly different levels of genetic stability and either the analysis of chromosome number or preferably a detailed analysis of their rearrangements using fluorescence in situ hybridisation may enable a more complete characterisation of those callus lines. The constant monitoring of the morphology and regeneration capabilities of lines K5, 1–10 and 2–3 during a prolonged in vitro culture seems to be equally important.

Supporting information

S1 Fig. In situ detection of DNA fragmentation in the callus line K5 using the TUNEL test.

(A—A`) positive control, (B—B`) negative control. Blue fluorescence: DAPI—all nuclei stained (A-B); green fluorescence: fluorescein-positive results of TUNEL test (A`–B`). Scale bars: 10 μm.

https://doi.org/10.1371/journal.pone.0173537.s001

(TIF)

Acknowledgments

We wish to express our appreciation to Marta Sowa for her excellent technical assistance during plant cultivation.

Author Contributions

  1. Conceptualization: AB JK EK NR RH.
  2. Data curation: AB JK EK NR RH.
  3. Formal analysis: AB MR JJ AMH JK YK EK NR RH.
  4. Funding acquisition: EK NR RH.
  5. Investigation: AB MR AMH JK YK.
  6. Methodology: AB JK EK NR RH.
  7. Project administration: AB JK EK NR RH.
  8. Resources: EK NR RH.
  9. Supervision: AB JK EK NR RH.
  10. Visualization: AB MR AMH JK YK EK NR RH.
  11. Writing – original draft: AB MR AMH JK YK EK NR RH.
  12. Writing – review & editing: AB JK EK NR RH.

References

  1. 1. Karp A. Origins, causes and uses of variation in plant tissue cultures. In: Vasil IK, Thorpe TA, editors. Plant cell and tissue culture: Springer Netherlands; 1994. p. 139–51.
  2. 2. Karp A. Tissue culture-derived variation in crop improvement. Euphytica. 1995;85:295–302.
  3. 3. Phillips RL, Kaeppler SM, Olhoft P. Genetic instability of plant tissue cultures: breakdown of normal controls. Proc Natl Acad Sci U S A. 1994;91(12):5222–6. pmid:8202472
  4. 4. Brar DS, Jain SM. Somaclonal variation: mechanism and application in crop improvement. In: Jain SM, Brar DS, Ahloowalia BS, editors. Somaclonal Variation and Induced Mutation in Crop Improvement. Current Plant Science and Biotechnology in Agriculture Springer Netherlands; 1998. p. 15–37.
  5. 5. Jain SM. Tissue culture-derived variation in crop improvement. Euphytica. 2001;118:153–66.
  6. 6. Fras A, Juchimiuk J, Siwinska D, Maluszynska J. Cytological events in explants of Arabidopsis thaliana during early callogenesis. Plant Cell Rep. 2007;26(11):1933–9. pmid:17653722
  7. 7. Bairu MW, Aremu AO, Van Staden J. Somaclonal variation in plants: causes and detection methods. Plant Growth Regul. 2011;63:147–73.
  8. 8. Novak FJ. Phenotype and cytological status of plant regenerated from callus cultures of Allium sativum. Zeitschrift fur Pflanzenphysiologi. 1980;84:250–60.
  9. 9. Roy SC. Chromosome variations in the callus tissue of Allium tuberosum and A. cepa. Protoplasma. 1980;102:171–6.
  10. 10. Joachimiak A, Ilnicki T. Nuclear morphology, polyploidy and chromatin elimination in tissue culture of Allium fistulosum Acta Soc Bot Pol. 2003;72:11–7.
  11. 11. Pijnacker LP, Ferwerda MA. Effect of sucrose on polyploidization in early callus cultures of Solanum tuberosum. Plant Cell Tiss Organ Cult. 1990;21:153–7.
  12. 12. Filipecki M, Yin Z, Wisniewska A, Smiech M, Malinowski R, Malepszy S. Tissue-culture-responsive and autotetraploidy-responsive changes in metabolic profiles of cucumber (Cucumis sativus L.). J Appl Genet. 2006;47(1):17–21. pmid:16424604
  13. 13. Nakano M, Tanaka S, Oota M, Kokawa E, Suzuki S, Saito H. Regeneration of diploid and tetraploid plants from callus-derived protoplasts of Agapanthus praecox ssp. orientalis (Leighton) Leighton. Plant Cell Tiss Organ Cult. 2003;72:63–9.
  14. 14. Fras A, Maluszynska J. Regeneration of diploid and tetraploid plants of Arabidopsis thaliana via callus. Acta Biol Cracov Ser Bot. 2003;45/2:145–52.
  15. 15. Jaligot E, Beule T, Baurens FC, Billotte N, Rival A. Search for methylation-sensitive amplification polymorphisms associated with the mantled variant phenotype in oil palm (Elaeis guineensis Jacq). Genome. 2004;47(1):224–8. pmid:15060619
  16. 16. Baránek M, Křižan B, Ondružıková E, Pidra M. DNA methylation changes in grapevine somaclones following in vitro culture and thermotherapy. Plant Cell Tiss Organ Cult 2010;101:11–22.
  17. 17. Li X, Xu M, Korban SS. DNA methylation profiles differ between field- and in vitro grown leaves of apple. J Plant Physiol. 2002;159:1129–34.
  18. 18. Hirochika H. Activation of tobacco transposons during tissue culture. EMBO J. 1993;12:2521–8. pmid:8389699
  19. 19. Johnston JW, Benson EE, Harding K. Cryopreservation induces temporal DNA methylation epigenetic changes and differential transcriptional activity in Ribes germplasm. Plant Physiol Biochem. 2009;47(2):123–31. pmid:19056287
  20. 20. Rumyantseva NI, Sergejewa NB, Khakimova LE, Salnikov BB, Gumerova EA, Lozowaja BB. Organogenesis and somatic embryogenesis in tissue culture of two buckwheat species. Russ J Plant Physl. 1989;36:187–94.
  21. 21. Kamalova GV, Akulov AN, Rumyantseva NI. Comparison of redox state of cells of tatar buckwheat morphogenic calluses and non-morphogenic calluses obtained from them. Biochemistry (Mosc). 2009;74(6):686–94.
  22. 22. Brian J, Shan F, Tian Z, Xu G, Lin R, Chunsheng X, et al., editors. Study on new health foods of Tartary buckwheat Advances in Buckwheat Research Proceed of the 9 th Intern Symp On Buckwheat; 2004; Prague, Czech Republic.
  23. 23. Kreft M. Buckwheat phenolic metabolites in health and disease. Nutr Res Rev. 2016;29(1):30–9. pmid:27046048
  24. 24. Fabjan N, Janko R, Kosir IJ, Wang Z, Zhang Z, Kreft I. Tartary buckwheat (Fagopyrum tataricum L. Gaertn.) as a source of dietary rutin and quercitrin. J Agric Food Chem. 2003;51:6452–5. pmid:14558761
  25. 25. Steadman KJ, Burgoon MS, Lewis BA, Edwardson SE, Obendorf RL. Minerals, phytic acid, tannin and rutin in buckwheat seed milling fractions. JSFA. 2001;81:1094–100.
  26. 26. Gamborg OL, Miller RA, Ojima K. Nutrient requirements of suspension cultures of soybean root cells. Exp Cell Res. 1968;50(1):151–8. pmid:5650857
  27. 27. Reynolds ES. The use of lead citrate at high pH as an electron-opaque stain in electron microscopy. J Cell Biol. 1963;17:208–12. pmid:13986422
  28. 28. Fisher DB. Protein staining of ribboned epon sections for light microscopy. Histochemie. 1968;16(1):92–6. pmid:4180491
  29. 29. Trump BF, Smuckler EA, Benditt EP. A method for staining epoxy sections for light microscopy. J Ultra Mol Struct R. 1961;5:343–8.
  30. 30. Combrinck S, Du Plooy GW, McCrindle RI, Botha BM. Morphology and histochemistry of the glandular trichomes of Lippia scaberrima (Verbenaceae). Ann Bot. 2007;99(6):1111–9. pmid:17468110
  31. 31. Zidorn C, Schubert B, Stuppner H. Phenolics as Chemosystematic Markers in and for the Genus Crepis (Asteraceae, Cichorieae) Sci Pharm. 2008;76:743–50.
  32. 32. Potocka I, Baldwin TC, Kurczynska EU. Distribution of lipid transfer protein 1 (LTP1) epitopes associated with morphogenic events during somatic embryogenesis of Arabidopsis thaliana. Plant Cell Rep. 2012;31(11):2031–45. pmid:22821363
  33. 33. de Almeida M, de Almeida CV, Mendes Graner E, Ebling Brondani G, Fiori de Abreu-Tarazi M. Pre-procambial cells are niches for pluripotent and totipotent stem-like cells for organogenesis and somatic embryogenesis in the peach palm: a histological study. Plant Cell Rep. 2012;31(8):1495–515. pmid:22534682
  34. 34. Ling-Lee M, Chilvers GA, Ashford AE. A histochemical study of phenolic materials in mycorrhizal and uninfected roots of Eucalyptus fastigiata Deane and Maiden. New Phytologist. 1977;78:313–28.
  35. 35. Rumyantseva NI, Samaj J, Ensikat HJ, Sal'nikov VV, Kostyukova YA, Baluska F, et al. Changes in the extracellular matrix surface network during cyclic reproduction of proembryonic cell complexes in the Fagopyrum tataricum (L.) Gaertn callus. Dokl Biol Sci. 2003;391:375–8. pmid:14556537
  36. 36. Rumiantseva NI, Akulov AN, Mukhitov AR. Extracellular polymers in callus cultures of Fagopyrum tataricum (L.) Gaertn. with different morphogenic activities: time courses during the culture cycle. Prikl Biokhim Mikrobiol. 2004;40(5):571–8. pmid:15553790
  37. 37. Gumerova EA, Akulov AN, Rumyantseva NI. Effect of methyl jasmonate on growth characteristics and accumulation of phenolic compounds in suspension culture of tartary buckwheat. Russian Journal of Plant Physiology. 2015;62(2):195–203.
  38. 38. Soukupova J, Cvikrova M, Albrechtova J, Rock BN, Eder J. Histochemical and biochemical approaches to the study of phenolic compounds and peroxidases in needles of Norway spruce. New Phytologist. 2000;146:403–14.
  39. 39. Phillips GC, Collins GB. In Vitro Tissue Culture of Selected Legumes and Plant Regeneration from Callus Cultures of Red Clover. ACSESS. 1979;19(1):59–64.
  40. 40. Vasilyev AE. Secretory structures. Danilova MF, Kozubova GM, editors. Petrozavodsk: Karelia; 1980.
  41. 41. Danilova MF, Barmicheva EM. Rhizodermis. Danilova MF, Kozubova GM, editors. Petrozavodsk: Karelia; 1980.
  42. 42. Bourdon M, Pirrello J, Cheniclet C, Coriton O, Bourge M, Brown S, et al. Evidence for karyoplasmic homeostasis during endoreduplication and a ploidy-dependent increase in gene transcription during tomato fruit growth. Development. 2012;139(20):3817–26. pmid:22991446
  43. 43. Häsler J, Wüest J, Gaspar T, Crèvecoeur M. Long term in vitro-cultured plant cells show typical neoplastic features at the cytological level. Biol Cell. 2003;95:357–64. pmid:14519552
  44. 44. Makowczynska J, Andrzejewska-Golec E. Somatic embryogenesis in in vitro culture of Plantago asiatica L. Acta Soc Bot Pol. 2000;69:245–50.
  45. 45. Gregory T. Genome size evolution in animals. In The Evolution of the Genome. London: Elsevier Academic Press; 2005. p. 4–87.
  46. 46. Verdeil JL, Alemanno L, Niemenak N, Tranbarger TJ. Pluripotent versus totipotent plant stem cells: dependence versus autonomy? Trends Plant Sci. 2007;12(6):245–52. pmid:17499544
  47. 47. Tomiczak K, Sliwinska E, Rybczynski JJ. Comparison of the morphogenic potential of five Gentiana species in leaf mesophyll protoplast culture and ploidy stabilityof regenerated calli and plants. Plant Cell Tiss Organ Cult. 2016;126 (2).
  48. 48. Roux NS, Strosse H, Toloza A, Panis B, Dolezel J. Detecting ploidy level instability of banana embryogenic cell suspension cultures by flow cytometry. Jain SM, Swennen R, editors. Enfield (NH), USA, Plymouth, UK: Science Publishers, Inc.; 2004.
  49. 49. Kubaláková M, Dolezel J, Lebeda A. Ploidy instability of embryogenic cucumber (Cucumis sativus L.) callus culture. Biol Plant. 1996;38(2):475–80.
  50. 50. Fras A, Maluszynska J. The correlation between the chromosome variation in callus and genotype of explants of Arabidopsis thaliana. Genetica. 2004;121(2):145–54. pmid:15330114
  51. 51. Chen CC, Chen CM. Changes in chromosome number in microspore callus of rice during successive subcultures. Can J Genet Cytol. 1980;22(4):607–14.
  52. 52. Lavania UC, Srivastava S. Ploidy dependence of chromosomal variation in callus cultures of Hyoscyamus muticus L. Protoplasma. 1988;145(1):55–8.
  53. 53. Gilissen LGW, van Staveren MJ, Creemers-Molenaar J, Verhoeven H. Development of polysomaty in seedlings and plants of Cucumis sativus L. Plant Sci. 1993;91(2):171–9.
  54. 54. Galbraith DW, Harkins KR, Knapp S. Systemic endopolyploidy in Arabidopsis thaliana. Plant Physiol. 1991;96(3):985–9. pmid:16668285
  55. 55. Ochatt SJ, Mousset-Déclas C, Rancillac M. Fertile pea plants regenerate from protoplasts when calluses have not undergone endoreduplication. Plant Sci. 2000;156:177–18. pmid:10936524
  56. 56. Prado MJ, Rodriguez E, Rey L, González MV, Santos C, Rey M. Detection of somaclonal variants in somatic embryogenesis-regenerated plants of Vitis vinifera by flow cytometry and microsatellite markers. Plant Cell Tiss Organ Cult. 2010;103:49–59.
  57. 57. Sengupta J, Jha S, Sen S. Karyotype stability in long-term callus derived plants of Crepis tectorum L. Biol Plant 1988;30:247–51.
  58. 58. Franklin CI, Mott RL, Vuke TM. Stable ploidy levels in long-term callus cultures of loblolly pine. Plant Cell Rep. 1989;8(2):101–4. pmid:24232995
  59. 59. Jha S, Sen J, Sen S. Stable regenerants from long-term callus cultures of Ruscus hypophyllum L. Cytologia. 1989;54:687–91.
  60. 60. Wyman J, Brassard N, Flipo D, Laliberte'e S. Ploidy level stability of callus tissue, axillary and adventitious shoots of Larix × eurolepis Henry regenerated in vitro. Plant Sci. 1992;85(2):189–96.
  61. 61. Wood M, Power B, Davey MR, Mulligan BJ. Factors affecting single strand-preferring nuclease activity during leaf aging and dark-induced senescence in barley (Hordeum vulgare L.). Plant Sci. 1998;131:149–59.
  62. 62. Kwasniewska J, Nawrocki W, Siwinska D, Maluszynska J. DNA damage in Crepis capilaris cells in response to in vitro conditions. Acta Biol Cracov Bot. 2012;54/2:93–101.
  63. 63. Dily FL, Billard J-P, Huault C, K C., Gaspar T. Fully habituated sugarbeet callus: under permanent stress. In Vitro Cell Dev Biol—Plant. 1993;29(4):149–54.
  64. 64. LoSchiavo F, Baldan B, Compagnin D, Ganz R, Mariani P, Terzi M. Spontaneous and induced apoptosis in embryogenic cell cultures of carrot (Daucus carota L.) in different physiological states. Eur J Cell Biol. 2000;79(4):294–8. pmid:10826497