Stress-Induced Accumulation of DcAOX1 and DcAOX2a Transcripts Coincides with Critical Time Point for Structural Biomass Prediction in Carrot Primary Cultures (Daucus carota L.)

Stress-adaptive cell plasticity in target tissues and cells for plant biomass growth is important for yield stability. In vitro systems with reproducible cell plasticity can help to identify relevant metabolic and molecular events during early cell reprogramming. In carrot, regulation of the central root meristem is a critical target for yield-determining secondary growth. Calorespirometry, a tool previously identified as promising for predictive growth phenotyping has been applied to measure the respiration rate in carrot meristem. In a carrot primary culture system (PCS), this tool allowed identifying an early peak related with structural biomass formation during lag phase of growth, around the 4th day of culture. In the present study, we report a dynamic and correlated expression of carrot AOX genes (DcAOX1 and DcAOX2a) during PCS lag phase and during exponential growth. Both genes showed an increase in transcript levels until 36 h after explant inoculation, and a subsequent down-regulation, before the initiation of exponential growth. In PCS growing at two different temperatures (21°C and 28°C), DcAOX1 was also found to be more expressed in the highest temperature. DcAOX genes' were further explored in a plant pot experiment in response to chilling, which confirmed the early AOX transcript increase prior to the induction of a specific anti-freezing gene. Our findings point to DcAOX1 and DcAOX2a as being reasonable candidates for functional marker development related to early cell reprogramming. While the genomic sequence of DcAOX2a was previously described, we characterize here the complete genomic sequence of DcAOX1.

Genome flux in tomato auto- and auxo-trophic cell clones cultured in different auxin/cytokinin equilibria. I. DNA multiplicity and methylation levels

An analysis of the effect of changing physiological conditions on genetic stability, in terms of epigenetic changes, such as DNA, methylation patterns, and multiplicity of repetitive DNA, was carried out on tomato cell clones grown on media supplemented with different auxin/cytokinin ratios. The effect of endogenous variation in phytohormone equilibria was also indirectly analysed through a comparison of auxotrophic or habituated (autotrophic) cell clones and the differentiated leaf tissue. The data obtained showed significant variation in methylation and multiplicity levels both between clones and between treatments, clearly suggesting a contemporary influence of exogenous hormonal treatments and of the initial/endogenous physiological state of the treated tissue on both phenomena studied.

Developmental and environmental variation in genomes

The genetic make-up of an organism, established at fertilization, is not conventionally expected to change during development unless mutation occurs. However, there is actually evidence that considerable variation can arise. Some of these changes may occur in response to the environment. This article reviews such variations in genome size or DNA content (excluding ploidy-level changes). The variation can be generated by processes, including high-frequency chromosomal recombination, transposition, cis-element-enhanced gene amplification and repetitive-sequence-based changes in nuclear DNA content. Environmentally induced and developmentally regulated genomic variation (ED-genomic variation or ED-genetic variation) can be found in both coding and non-coding sequences, and is often non-Mendelian in its inheritance pattern. Changes can depend on development (for example, propagation method, seed/fruit position on plants, embryo stage, etc.) and occur in response to the environment (for example, light, temperature, herbicide, salinity, fertilizer, land slope direction, pathogen infection, etc.). Some plants have meiotic (or rejuvenation) corrections, which restore their genome sizes to a certain degree. However, Mendelian inheritance and acquired inheritance of the variants occur, and both inheritance types may be different expressions evolved for the same adaptive responses. With this perspective, the terms 'pure-breeding line' or 'stable cultivar' may only be appropriate for a given mode of reproduction or propagation, and for a given environment. ED-genomic variation appears to be an essential component of differentiation, development and adaptation. Consequently, modern molecular biology tools, such as microarray hybridization and new sequencing technology, should be directed towards a more comprehensive evaluation of ED-genomic variation.

Some aspects of plant karyology and karyosystematics

The significance of the 4C value (where C is the amount of DNA in the unreplicated haploid genome) in angiosperm plants is discussed. The DNA amount is a stable feature used in biosystematics. Although this parameter varies even in closely related taxa, there is no correlation between the DNA amount and the structural and functional organization of plants. The role of DNA amount, including "excess" DNA, in plant evolution is considered. Some rules governing the distribution of DNA amount among different plant taxa are postulated, together with the possibility of using the data in systematics, phylogeny, and solutions of problems of genetic apparatus organization and evolution. The decrease in DNA value per genome during plant evolution and the high level of species formation in taxa with large DNA values have been shown. Plant taxa with a small DNA value per genome have a high percentage and higher degree of polyploidy. The nature of the differential staining of euchromatin and heterochromatin bands of prophase and metaphase chromosomes is also discussed. Data that could explain the mechanism of heterochromatin visualization under cold pretreatment of cells are reviewed. Phenomena involved in the arrangement of chromocenters in interphase nuclei and chromosomes in metaphase during consecutive cell generations are discussed.

Gravity and developmental plasticity

Living organisms, especially plants, show some plasticity in their overall development, usually as a response to the external environment. Plasticity may apply not only to the external form of organisms but also to their physiology as well as to the detailed structure of their genome. A further example of plasticity may be developmental instability, where anomalous development seems to appear spontaneously, probably as a result of some transient environmental perturbation. Whether the absence of gravity would have sufficient impact on any living process to evoke a specific course of plastic development is unknown, though it is possible that in certain circumstances special forms, or 'agravimorphs', could be produced. Through such new forms, it should be possible to identify processes required for development in which 1 x g gravity is a necessary participant.

Changes in nuclear genome size and relative ribosomal RNA gene content in cambial region cells of Abies balsamea shoots during the development of dormancy

The relationship between nuclear genome size, measured cytophotometrically, and relative ribosomal RNA gene (rDNA) content, determined as the ratio of the hybridization signals from a 25S rRNA gene probe and a randomly labelled total genomic DNA probe, was investigated in cambial region cells of balsam fir (Abies balsamea (L.) Mill.) shoots during the onset of dormancy and the transition between the dormancy stages of rest and quiescence. The dormancy status was manipulated by exposing potted trees for 13 weeks, starting August 14 when the cambium was still active, to one of the following environments: (i) the declining temperature and photoperiod of the natural environment (denoted N-N), (ii) simulated natural temperature and 15-h photoperiod (sN-15), (iii) simulated natural temperature and 8-h photoperiod (sN-8), and (iv) warm temperature and 15-h photoperiod (sN-15). On November 12, the trees were transferred to a greenhouse having environmental conditions favorable for growth to assess their ability to reactivate. The entire activity –rest–quiescence transition occurred in the N-N environment and was associated with an increase in nuclear genome size and a decrease in the relative rDNA content. The sN-8 environment also induced the transition but not completely, and the associated increase and decrease in nuclear genome size and relative rDNA content, respectively, were smaller than in the N-N environment. The sN-15 environment delayed the onset of rest, inhibited the changeover to quiescence, increased then decreased the nuclear genome size, and did not affect the relative rDNA content. The W-15 environment, which induced budbreak and the formation of a false ring, also prevented the rest–quiescence transition and transiently increased the nuclear genome size without altering the relative rDNA content. The data suggest that the normal rest–quiescence progression in shoot cambial cells is associated with an increase in nuclear genome size, which is caued by amplification of a fraction that is not rDNA but is recognized by our genomic probe. Keywords: dormancy, genome size, ribosomal RNA genes, vascular cambium.

Physiological aspects of genome variability in tissue culture. I. Growth phase-dependent differential DNA methylation of the carrot genome (Daucus carota L.) during primary culture

Investigations were performed on growth phase-dependent EcoRII site-specific DNA methylation of the carrot genome during primary culture to elucidate physiological aspects of genome DNA variability in tissue culture. While DNA methylation of the root cambium and the secondary phloem and petioles of carrot leaves were strikingly different, the methylation level of the secondary phloem seemed to be independent of cultivar origin, the age of the plants and the extent of secondary root growth. As was shown earlier a change in the differentiated state of the secondary phloem by tissue culture leads to changes in genome modification. Whereas de novo methylation was observed during the first 2 weeks of growth initiation, the results presented demonstrate genome de-methylation during the transition to stationary growth indicating differential εnome methylation during different phases of culture. The presence of kinetin in the nutrient medium of the primary culture was found to be antagonistic to changes in genome modification in general. De novo methylation and subsequent de-methylation of the carrot genome are discussed as gross changes obviously essential to molecular genome differentiation during tissue culture.

Adaptive determinism during salt-adaptation in Sorghum bicolr

During adaptation to salinity, plants of Sorghum bicolor showed malformations affecting the leaves in development (DPL). At the end of the adaptation process, the plants were regrouped according to their pattern of DPL response. The distribution of the plant population in different patterns depended on environmental conditions. However, a positive relationship between the frequency of a pattern and its rate of development has been found. Similarly, a negative relation between the frequency of a pattern and the rate of senescence for the same pattern has been observed. The results reveal the existence of an orientation of the plant response towards the patterns with highest developmental rate and lowest rate of senescence. This property is defined as 'adaptive determinism'. Results indicate that the NaCl acts as a trigger for adaptation to a whole range of environmental perturbations. This suggests that adaptation to salinity is not a pre-programed response of the plants, and may be related to learning processes occurring in animals.