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Propagule size and seed development duration: high photosynthate allocation and growth allometry
No full textMain conclusion The divergences in propagule mass have been more consistently associated with divergences in seed development duration or fruit pedicel cross-sectional area than with divergences in any other biotic factors. Allometry and Corner's rule became an important theme in evolutionary biology of plant trait structure and function. Being one of the most widely noticed plant traits, propagule (seed and fruit) mass variation mechanism across species is still controversial. Here we examined correlations between propagule mass and seed development duration as well as other traits, such as cross-sectional area of fruit pedicel, life form, fruit type and leaf area over four census years, to test an important life history strategy for propagule biomass allocation. We investigated 491 species, belonging to 91 families and 320 genera, representing 95% of native wild species in Beijing Botanical Garden. The scaling correlations between propagule mass and seed development duration and the other traits were determined using phylogenetic generalized linear models. Results show a significant positive relationship among propagule mass and seed development duration, leaf area and pedicel cross-sectional area for all species and for each life form (except vines) regardless of phylogeny. The variation in seed mass has been more consistently associated with variation in seed development duration than with divergences in any other variable, such as growth form, fruit type, pedicel cross-sectional area and leaf area, whereas variation in fruit weight was found to be more associated with variation in pedicel cross-sectional area than the other. Biotic factors, such as seed development duration, pedicel cross-sectional area, growth form and leaf area, mediate propagule size variation, of which seed development duration or pedicel cross-sectional area is the most important. The results further supported a hypothesis that large-seeded species evolved owing to high photosynthate availability and growth allometry in plant body. A mechanistic mathematical model involving seed development duration was provided to expound propagule mass variations across species
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022
No full textThe National Genomics Data Center (NGDC), part of the China National Center for Bioinformation (CNCB), provides a family of database resources to support global research in both academia and industry. With the explosively accumulated multi-omics data at ever-faster rates, CNCB-NGDC is constantly scaling up and updating its core database resources through big data archive, curation, integration and analysis. In the past year, efforts have been made to synthesize the growing data and knowledge, particularly in single-cell omics and precision medicine research, and a series of resources have been newly developed, updated and enhanced. Moreover, CNCB-NGDC has continued to daily update SARS-CoV-2 genome sequences, variants, haplotypes and literature. Particularly, OpenLB, an open library of bioscience, has been established by providing easy and open access to a substantial number of abstract texts from PubMed, bioRxiv and medRxiv. In addition, Database Commons is significantly updated by cataloguing a full list of global databases, and BLAST tools are newly deployed to provide online sequence search services
The chrysanthemum lavandulifolium genome and the molecular mechanism underlying diverse capitulum types
No full textCultivated chrysanthemum (Chrysanthemum x morifolium Ramat.) is a beloved ornamental crop due to the diverse capitula types among varieties, but the molecular mechanism of capitulum development remains unclear. Here, we report a 2.60 Gb chromosome-scale reference genome of C. lavandulifolium, a wild Chrysanthemum species found in China, Korea and Japan. The evolutionary analysis of the genome revealed that only recent tandem duplications occurred in the C. lavandulifolium genome after the shared whole genome triplication (WGT) in Asteraceae. Based on the transcriptomic profiling of six important developmental stages of the radiate capitulum in C. lavandulifolium, we found genes in the MADS-box, TCP, NAC and LOB gene families that were involved in disc and ray floret primordia differentiation. Notably, NAM and LOB30 homologs were specifically expressed in the radiate capitulum, suggesting their pivotal roles in the genetic network of disc and ray floret primordia differentiation in chrysanthemum. The present study not only provides a high-quality reference genome of chrysanthemum but also provides insight into the molecular mechanism underlying the diverse capitulum types in chrysanthemum
Transcriptome Remodeling in Response to Leaf Removal and Exogenous Abscisic Acid in Berries of Grapevine (Vitis vinifera L.) Fruit Cuttings
No full textClimate change is known to simultaneously increase berry sugars but decrease anthocyanins, leading to an imbalance between sugars and anthocyanins in grape berries. To restore the balance of sugars and anthocyanins, carbon limitation by leaf removal and exogenous abscisic acid (ABA) were separately or simultaneously applied to Vitis vinifera cv. Cabernet Sauvignon fruit cuttings to decipher their effects on berry quality with metabolite and whole-genome transcriptome analyses. Carbon limitation decreased the hexose concentration and fully blocked the accumulation of anthocyanins. However, exogenous ABA increased the anthocyanin concentration under both carbon limitation and sufficient conditions. Carbon limitation and exogenous ABA induced the profound remodeling of the whole-genome transcriptome and altered the anthocyanin concentration by regulating the transcription levels of genes involved in the anthocyanin biosynthesis pathways as well as in the genes involved in various types of hormone signaling. Moreover, two pertinent candidate genes were identified based on the co-expression network analysis between the berry metabolite and transcriptome results, including a transcriptional factor, ERF2, and a calcineurin B-like protein-interacting protein kinase gene, CIPK25. In summary, simultaneously modifying the carbon supply by leaf removal and spraying exogenous ABA could re-establish the balance between sugars and anthocyanins to improve the qualities of grape berries via whole-genome transcriptome remodeling
The complexity of the bacterial community in response to fertilization determines forage production in a semiarid grassland
No full textThe role of soil microbial diversity and interactions in controlling plant productivity after fertilization remains unknown in grassland systems. This knowledge gap hampers our understanding of how shifts in soil microbial diversity and interactions can modify soil functioning and grassland production under changing environments. In this study, we evaluated the influence of short-term field fertilization on soil microbial diversity, particularly the complexity of microbial ecological networks in controlling aboveground plant productivity under five nitrogen addition rates (0, 6, 12, 20, 32 g N m(-2) year(-1)). The N fertilization resulted in higher forage production. The bacterial and fungal alpha diversity and taxonomic composition were relatively stable across the N addition rates. Network analysis showed that the complexity of the bacterial network increased gradually with increasing N addition rates, peaking at 20 g N m(-2) year(-1), while modularity and |negative|: positive cohesion had contrasting patterns across the N addition rates. Additionally, the changes of bacterial interactions were predominantly driven by the keystone taxa richness and abundance. Compared with the bacterial co-occurrence network, the fungal co-occurrence network remained relatively stable. Strong positive linkages between plant production and the complexity of the bacterial network were also observed. Furthermore, the increment of forage production was highly related to the keystone taxa abundance. Together, our results highlighted that the complexity of the soil bacterial network plays a vital role in enhancing the connection between soil microbial diversity and plant production. Our findings exemplify a significant progress in projecting the effects of soil microbial diversity on ecosystem functions in grassland ecosystems
Localization of stomatal lineage proteins reveals contrasting planar polarity patterns in Arabidopsis cotyledons
No full textMany plant cells exhibit polarity, revealed by asymmetric localization of specific proteins within each cell.1-6 Polarity is typically coordinated between cells across a tissue, raising the question of how coordination is achieved. One hypothesis is that mechanical stresses provide cues.7 This idea gains support from experiments in which cotyledons were mechanically stretched transversely to their midline.8 These previously published re-sults showed that without applied tension, the stomatal lineage cell polarity marker, BREVIS RADIX-LIKE 2 (BRXL2), exhibited no significant excess in the transverse orientation. By contrast, 7 h after stretching, BRXL2 polarity distribution exhibited transverse excess, aligned with the stretch direction. These stretching ex-periments involved statistical comparisons between snapshots of stretched and unstretched cotyledons, with different specimens being imaged in each case.8 Here, we image the same cotyledon before and after stretching and find no evidence for reorientation of polarity. Instead, statistical analysis shows that cotyledons contain a pre-existing transverse excess in BRXL2 polarity orientation that is not significantly modified by applied tension. The transverse excess reflects BRLX2 being preferentially localized toward the medial side of the cell, nearer to the cotyledon midline, creating a weak medial bias. A second polarity marker, BREAKING OF ASYMMETRY IN THE STOMATAL LINEAGE (BASL), also exhibits weak medial bias in stomatal lineages, whereas ectopic expres-sion of BASL in non-stomatal cells exhibits strong proximal bias, as previously observed in rosette leaves. This proximal bias is also unperturbed by applied tension. Our findings therefore show that cotyledons contain two near-orthogonal coordinated biases in planar polarity: mediolateral and proximodistal
The Molecular Phylogeny of Land Plants: Progress and Future Prospects
No full textPhylogenetics has become a powerful tool in many areas of biology. Land plants are the most important primary producers of terrestrial ecosystems and have colonized various habitats on Earth. In the past two decades, tremendous progress has been made in our understanding of phylogenetic relationships at all taxonomic levels across all land plant groups by employing DNA sequence data. Here, we review the progress made in large-scale phylogenetic reconstructions of land plants and assess the current situation of phylogenetic studies of land plants. We then emphasize directions for future study. At present, the phylogenetic framework of land plants at the order and familial levels has been well built. Problematic deep-level relationships within land plants have also been well resolved by phylogenomic analyses. We pointed out five major aspects of molecular phylogenetics of land plants, which are nowadays being studied and will continue to be goals moving forward. These five aspects include: (1) constructing the genus- and species-level phylogenies for land plant groups, (2) updating the classification systems by combining morphological and molecular data, (3) integrating fossil taxa into phylogenies derived from living taxa, (4) resolving deep-level and/or rapidly divergent phylogenetic relationships using phylogenomic data, and (5) building big trees using the supermatrix method. We hope that this review paper will promote the development of plant molecular phylogenetics and other related areas
Root Production and Microbe-Derived Carbon Inputs Jointly Drive Rapid Soil Carbon Accumulation at the Early Stages of Forest Succession
No full textPlants and microbes are the primary drivers in affecting the formation and accrual of soil organic carbon (SOC) for natural ecosystems. However, experimental evidence elucidating their underlying mechanisms for SOC accumulation remains elusive. Here, we quantified plant and microbial contributions to SOC accrual in successional subtropical forests by measuring leaf-, root-, and microbial biomarkers, root and leaf litter inputs, and microbial C decomposition. The long-term monitoring results showed that SOC accumulated rapidly at the early-successional stage, but changed little at the mid- and late-successional stages. SOC accrual rate was positively correlated with fine-root production and microbial C turnover, but negatively with annual litterfall. Biomarker data exhibited that the rapid SOC accumulation was jointly driven by root- and microbe-derived C inputs from the early- to mid-successional stages. In contrast, aboveground litterfall considerably contributed to soil C accrual from the mid- to late-successional stages compared to belowground processes, although SOC accumulation is low. Our study revealed the importance of root production and microbial anabolism in SOC accrual at the early stages of forest succession. Incorporating these effects of belowground C inputs on SOC formation and accumulation into earth system models might improve model performance and projection of long-term soil C dynamics
Nutrient reallocation between stem and leaf drives grazed grassland degradation in inner Mongolia, China
No full textBackground Decline in height and aboveground biomass of the plant community are critical indicators of grassland ecosystem degradation. Nutrient reallocation induced by grazing occurs among different organs, which balances the trade-off between growth and defense. However, it is not yet clear how nutrient reallocation strategies affect plant community structure and functions in grazed grasslands. A grazing experiment was conducted in a typical steppe in Inner Mongolia, China. We investigated plant community characteristics and measured plant functional traits of dominant species (Leymus chinensis and Cleistogenes squarrosa) at individual and population levels. Carbon (C), nitrogen (N), phosphorus (P), copper (Cu), iron (Fe), manganese (Mn), and zinc (Zn) concentrations of stem and leaf in the two species were also determined. Results N, P, Cu, Fe, Mn, and Zn concentrations in leaves and stems of L. chinensis and C. squarrosa significantly increased with grazing intensity, and microelements (Cu, Fe, Mn, and Zn) were more sensitive to grazing. The nutrient slopes of macro- and microelements in leaves were significantly higher than those in stems under grazing, indicating that nutrient resources were preferentially allocated to leaves and enhanced the compensatory growth of leaves in the grazed grassland. With increasing grazing intensity, the aboveground biomass of stems and leaves in the two species significantly decreased, but leaf to stem ratio increased at the individual level, indicating that plants preferentially allocated biomass to leaves under grazing. The increase in leaf to stem ratio due to nutrient reallocation between the two organs significantly reduced height and aboveground biomass at population and community levels, driving grassland ecosystem degradation. Conclusion Our study revealed the driving forces of community structure and function degradation in grazed grasslands from the perspective of nutrient resource allocation, and provided insights into plant adaptation strategies to grazing
The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence
No full textTo date, little is known about the evolution of fern genomes, with only two small genomes published from the heterosporous Salviniales. Here we assembled the genome of Alsophila spinulosa, known as the flying spider-monkey tree fern, onto 69 pseudochromosomes. The remarkable preservation of synteny, despite resulting from an ancient whole-genome duplication over 100 million years ago, is unprecedented in plants and probably speaks to the uniqueness of tree ferns. Our detailed investigations into stem anatomy and lignin biosynthesis shed new light on the evolution of stem formation in tree ferns. We identified a phenolic compound, alsophilin, that is abundant in xylem, and we provided the molecular basis for its biosynthesis. Finally, analysis of demographic history revealed two genetic bottlenecks, resulting in rapid demographic declines of A. spinulosa. The A. spinulosa genome fills a crucial gap in the plant genomic landscape and helps elucidate many unique aspects of tree fern biology. The genome of the flying spider-monkey tree fern and investigations on stem formation and secondary metabolite biosynthesis promote our understanding of fern evolution and arborescence, facilitating the protection and utilization of this endangered species