A rapid and sensitive method to assess seed longevity through accelerated aging in an invasive plant species

Mechanistic insights into DNA damage recognition and checkpoint control in plants

The plant DNA damage response (DDR) pathway safeguards genomic integrity by rapid recognition and repair of DNA lesions that, if unrepaired, may cause genome instability. Most frequently, DNA repair goes hand in hand with a transient cell cycle arrest, which allows cells to repair the DNA lesions before engaging in a mitotic event, but consequently also affects plant growth and yield. Through the identification of DDR proteins and cell cycle regulators that react to DNA double-strand breaks or replication defects, it has become clear that these proteins and regulators form highly interconnected networks. These networks operate at both the transcriptional and post-transcriptional levels and include liquid-liquid phase separation and epigenetic mechanisms. Strikingly, whereas the upstream DDR sensors and signalling components are well conserved across eukaryotes, some of the more downstream effectors are diverged in plants, probably to suit unique lifestyle features. Additionally, DDR components display functional diversity across ancient plant species, dicots and monocots. The observed resistance of DDR mutants towards aluminium toxicity, phosphate limitation and seed ageing indicates that gaining knowledge about the plant DDR may offer solutions to combat the effects of climate change and the associated risk for food security.

Evaluation of diverse soybean genotypes for seed longevity and its association with seed coat colour

Sixty genotypes with different seed coat colour and seed sizes were evaluated for seed longevity under both natural and accelerated ageing over seasons. The genotypes were grown during rabi, 2018, and summer, 2021, and freshly harvested seeds were used. For natural ageing, seeds were stored in a cloth bag in ambient condition and were removed at bimonthly intervals till 20 months. Accelerated ageing was carried out as per International Seed Testing Association (ISTA) guidelines. The germination percentage after natural and accelerated ageing over two seasons was determined. The correlation between two seasons of accelerated ageing and month-wise natural ageing was highly significant. The principal component analysis (PCA) using seed longevity grouped the majority of black genotypes into a separate cluster. Higher seed longevity was associated with black seed coat colour and small seed size. Microsatellite marker-based clustering also produced a separate cluster for majority of black genotypes and grouped the genotypes into a large number of clusters suggesting high diversity in the plant material. Two black seed coat colour genotypes, ACC No.369 and ACC No.39 consistently showed higher longevity under natural and both the years of accelerated ageing and serve as a source of alleles for higher seed longevity in soybean.

Assessing Seed Longevity of the Invasive Weed Navua Sedge (Cyperus aromaticus), by Artificial Ageing

Navua sedge (Cyperus aromaticus (Ridley) Mattf. & Kukenth) is a significant agricultural and environmental weed found in tropical island countries including north Queensland, Australia. It is a prolific seed producer and consequently forms a high-density seedbank, and therefore understanding the longevity and persistence of the seeds can provide critical information required for the management of this species. A laboratory-controlled artificial ageing experiment was conducted where the seeds were exposed to a temperature of 45 °C and 60% relative humidity for 125 days. Seeds were removed at various times (1, 2, 5, 9, 20, 30, 50, 75, 100 and 125 days) and their viability determined through standard germination tests. It took 20 days in the artificial ageing environment for the seeds to decline to 50% viability which indicates that Navua sedge has relatively short-lived persistent seeds. These findings will assist in developing a better understanding of the seedbank dynamics of this invasive species, allowing managers to tactically implement control strategies and prepare budgets for ongoing treatments, and have implications for the duration and success of management programs.

Assessing Seedbank Longevity and Seed Persistence of the Invasive Tussock Grass Nassella trichotoma Using in-Field Burial and Laboratory-Controlled Ageing

The ability to produce highly dense and persistent seedbanks is a major contributor to the successful widespread establishment of invasive plants. This study seeks to identify seed persistence and seedbank longevity for the invasive tussock grass Nassella trichotoma (Nees.) Hack. ex Arechav in order to recommend management strategies for preventing re-emergence from the seedbank. To determine the seedbank longevity and persistence, two experiments were conducted: (i) seeds were buried at four depths (0, 1, 2, and 4 cm) and collected and assessed for viability, seed decay, and in-field germination after 6, 9, 12, 15, and 18 months of field burial; and (ii) seeds were exposed to artificial ageing conditions (60% RH and 45 °C) for 1, 2, 5, 9, 20, 30, 50, 75, 100, and 120 days, and viability was determined through germination tests and tetrazolium tests. Less than 10% of the seeds collected after 12 months of in-field burial were viable. The artificial ageing treatment found germination declined to 50% after 5.8 days, further suggesting that N. trichotoma seeds are short lived. The results from both experiments indicate that N. trichotoma has a transient seedbank, with less than 10% of the seeds demonstrating short-term persistence. It is likely the persistent seeds beyond 12 months were exhibiting secondary dormancy as viable seeds did not germinate under optimal germination conditions. The "Best Practice Guidelines" recommend monitoring for seedbank recruitment for at least three years after treating N. trichotoma infestations. The results of this study support this recommendation as a small proportion of the seeds demonstrated short-term persistence.

A Reliable Method to Recognize Soybean Seed Maturation Stages Based on Autofluorescence-Spectral Imaging Combined With Machine Learning Algorithms

In recent years, technological innovations have allowed significant advances in the diagnosis of seed quality. Seeds with superior physiological quality are those with the highest level of physiological maturity and the integration of rapid and precise methods to separate them contributes to better performance in the field. Autofluorescence-spectral imaging is an innovative technique based on fluorescence signals from fluorophores present in seed tissues, which have biological implications for seed quality. Thus, through this technique, it would be possible to classify seeds in different maturation stages. To test this, we produced plants of a commercial cultivar (MG/BR 46 "Conquista") and collected the seeds at five reproductive (R) stages: R7.1 (beginning of maturity), R7.2 (mass maturity), R7.3 (seed disconnected from the mother plant), R8 (harvest point), and R9 (final maturity). Autofluorescence signals were extracted from images captured at different excitation/emission combinations. In parallel, we investigated physical parameters, germination, vigor and the dynamics of pigments in seeds from different maturation stages. To verify the accuracy in predicting the seed maturation stages based on autofluorescence-spectral imaging, we created machine learning models based on three algorithms: (i) random forest, (ii) neural network, and (iii) support vector machine. Here, we reported the unprecedented use of the autofluorescence-spectral technique to classify the maturation stages of soybean seeds, especially using the excitation/emission combination of chlorophyll a (660/700 nm) and b (405/600 nm). Taken together, the machine learning algorithms showed high performance segmenting the different stages of seed maturation. In summary, our results demonstrated that the maturation stages of soybean seeds have their autofluorescence-spectral identity in the wavelengths of chlorophylls, which allows the use of this technique as a marker of seed maturity and superior physiological quality.

Transcriptome-Wide Characterization of Seed Aging in Rice: Identification of Specific Long-Lived mRNAs for Seed Longevity

Various long-lived mRNAs are stored in seeds, some of which are required for the initial phase of germination and are critical to seed longevity. However, the seed-specific long-lived mRNAs involved in seed longevity remain poorly understood in rice. To identify these mRNAs in seeds, we first performed aging experiment with 14 rice varieties, and categorized them as higher longevity (HL) and lower longevity (LL) rice varieties in conventional rice and hybrid rice, respectively. Second, RNA-seq analysis showed that most genes showed similar tendency of expression changes during natural and artificial aging, suggesting that the effects of these two aging methods on transcription are comparable. In addition, some differentially expressed genes (DEGs) in the HL and LL varieties differed after natural aging. Furthermore, several specific long-lived mRNAs were identified through a comparative analysis of HL and LL varieties after natural aging, and similar sequence features were also identified in the promoter of some specific long-lived mRNAs. Overall, we identified several specific long-lived mRNAs in rice, including gibberellin receptor gene GID1, which may be associated with seed longevity.

Geographic patterns of seed trait variation in an invasive species: how much can close populations differ?

Seeds play a major role in plant species persistence and expansion, and therefore they are essential when modeling species dynamics. However, homogeneity in seed traits is generally assumed, underestimating intraspecific trait variability across the geographic space, which might bias species success models. The aim of this study was to evaluate the existence and consequences of interpopulation variability in seed traits of the invasive species Carpobrotus edulis at different geographical scales. We measured seed production, morphology, vigour and longevity of nine populations of C. edulis along the Catalan coast (NE Spain) from three differentiated zones with a human presence gradient. Geographic distances between populations were contrasted against individual and multivariate trait distances to explore trait variation along the territory, evaluating the role of bioclimatic variables and human density of the different zones. The analysis revealed high interpopulation variability that was not explained by geographic distance, as regardless of the little distance between some populations (< 0.5 km), significant differences were found in several seed traits. Seed production, germination, and persistence traits showed the strongest spatial variability up to 6000% of percent trait variability between populations, leading to differentiated C. edulis soil seed bank dynamics at small distances, which may demand differentiated strategies for a cost-effective species management. Seed trait variability was influenced by human density but also bioclimatic conditions, suggesting a potential impact of increased anthropogenic pressure and climate shifts. Geographic interpopulation trait variation should be included in ecological models and will be important for assessing species responses to environmental heterogeneity and change.