Internode Elongation Research Articles

Transcriptome dynamic landscape underlying the improvement of maize lodging resistance under coronatine treatment

BackgroundLodging is one of the important factors causing maize yield. Plant height is an important factor in determining plant architecture in maize (Zea mays L.), which is closely related to lodging resistance under high planting density. Coronatine (COR), which is a phytotoxin and produced by the pathogen Pseudomonas syringae, is a functional and structural analogue of jasmonic acid (JA).ResultsIn this study, we found COR, as a new plant growth regulator, could effectively reduce plant height and ear height of both hybrids (ZD958 and XY335) and inbred (B73) maize by inhibiting internode growth during elongation, thus improve maize lodging resistance. To study gene expression changes in internode after COR treatment, we collected spatio-temporal transcriptome of inbred B73 internode under normal condition and COR treatment, including the three different regions of internode (fixed, meristem and elongation regions) at three different developmental stages. The gene expression levels of the three regions at normal condition were described and then compared with that upon COR treatment. In total, 8605 COR-responsive genes (COR-RGs) were found, consist of 802 genes specifically expressed in internode. For these COR-RGs, 614, 870, 2123 of which showed expression changes in only fixed, meristem and elongation region, respectively. Both the number and function were significantly changed for COR-RGs identified in different regions, indicating genes with different functions were regulated at the three regions. Besides, we found more than 80% genes of gibberellin and jasmonic acid were changed under COR treatment.ConclusionsThese data provide a gene expression profiling in different regions of internode development and molecular mechanism of COR affecting internode elongation. A putative schematic of the internode response to COR treatment is proposed which shows the basic process of COR affecting internode elongation. This research provides a useful resource for studying maize internode development and improves our understanding of the COR regulation mechanism based on plant height.

ARABIDOPSIS THALIANA HOMEOBOX GENE 1 controls plant architecture by locally restricting environmental responses

The diversity and environmental plasticity of plant growth results from variations of repetitive modules, such as the basic shoot units made of a leaf, axillary bud, and internode. Internode elongation is regulated both developmentally and in response to environmental conditions, such as light quality, but the integration of internal and environmental signals is poorly understood. Here, we show that the compressed rosette growth habit of Arabidopsis is maintained by the convergent activities of the organ boundary gene ARABIDOPSIS THALIANA HOMEOBOX GENE 1 (ATH1) and of the gibberellin-signaling DELLA genes. Combined loss of ATH1 and DELLA function activated stem development during the vegetative phase and changed the growth habit from rosette to caulescent. Chromatin immunoprecipitation high-throughput sequencing and genetic analysis indicated that ATH1 and the DELLA gene REPRESSOR OF GA1-3 (RGA) converge on the regulation of light responses, including the PHYTOCHROME INTERACTING FACTORS (PIF) pathway, and showed that the ATH1 input is mediated in part by direct activation of BLADE ON PETIOLE (BOP1 and BOP2) genes, whose products destabilize PIF proteins. We conclude that an organ-patterning gene converges with hormone signaling to spatially restrict environmental responses and establish a widespread type of plant architecture.

Identification of Interspecific and Intraspecific Single Nucleotide Polymorphisms in Papaver spp.

The plants of the Papaveraceae family are used for ornamental purposes because of their varicolored flowers, and are known as medicinal crops. Some species of poppy are used in foods such as salads or sorbets, utilizing the seeds, leaves, pedicels, and petals. There are several morphological similarities among the species of this family, which make it difficult to distinguish the seeds of different species or identify opium poppies. The family is known to contain about 100 species. The leaves of Iceland poppy (Papaver nudicaule) cultivars with five different flower colors (white, yellow, pink, orange, and scarlet) were sequenced to obtain transcriptome data. Sequencing was done on plants in three different developmental growth stages (leaf rosette, branching and elongation of internodes, and blossom and seed formation). Systematic bioinformatics analysis was conducted to identify single nucleotide polymorphisms (SNPs) unique to the five Papaver nudicaule cultivars and two other Papaver species (Papaver rhoeas and Papaver somniferum). A 739-Mb reference transcriptome (94.6% BUSCO completeness score) from a 566-Gb RNA-sequencing (RNA-Seq) dataset was obtained. Likewise, 18 significant SNPs were identified to authenticate the three species and five cultivars of Papaver. This study will facilitate future Papaver research, including evaluation of the results for more detailed characterization.

Profiling of MicroRNAs Involved in Mepiquat Chloride-Mediated Inhibition of Internode Elongation in Cotton (Gossypium hirsutum L.) Seedlings.

Mepiquat chloride (MC) is the most important plant growth retardant that is widely used in cotton (Gossypium hirsutum L.) production to suppress excessive vegetative growth and improve plant architecture. MicroRNAs (miRNAs) are important gene expression regulators that control plant growth and development. However, miRNA-mediated post-transcriptional regulation in MC-induced growth inhibition remains unclear. In this study, the dynamic expression profiles of miRNAs responsive to MC in cotton internodes were investigated. A total of 508 known miRNAs belonging to 197 families and five novel miRNAs were identified. Among them, 104 miRNAs were differentially expressed at 48, 72, or 96 h post MC treatment compared with the control (0 h); majority of them were highly conserved miRNAs. The number of differentially expressed miRNAs increased with time after treatment. The expression of 14 known miRNAs was continuously suppressed, whereas 12 known miRNAs and one novel miRNA were continuously induced by MC. The expression patterns of the nine differentially expressed miRNAs were verified using qRT-PCR. The targets of the known and novel miRNAs were predicted. Four conserved and six novel targets were validated using the RLM-5′ RACE assay. This study revealed that miRNAs play crucial regulatory roles in the MC-induced inhibition of internode elongation. It can improve our understanding of post-transcriptional gene regulation in MC-mediated growth inhibition and could potentially facilitate the breeding of dwarf cotton.

Shortening Internodes Near Ear: An Alternative to Raise Maize Yield

Plant growth retardants (mainly with active ingredient of ethephon) prevent maize (Zea mays L.) lodging as plant density increases, but frequently reduce grain yield if lodging is not a problem, in relation to application time. To explore the effects of ethephon application time on maize yield, literature published in the past 35 years concerning ethephon or ethephon-related plant growth retardant in maize were collected for meta-analysis. In addition, field experiments, including ethephon application time from 8- to 15-leaf stages, were conducted in 2018 and 2019. Exogenous application of ethephon decreased lodging as a function of reduced plant and ear height and enhanced bending strength and rind penetration resistance of basal stem internodes. Lodging rate was at the lowest level at the 8–10 leaf application of ethephon and then significantly increased with the delayed application. The degree of reduction of internode length was related to application time; ethephon application at n-leaf stage started to work at the n-2 internode and reduced the n internode length the most. Grain yield increased with the delayed application time and reached the highest level with application at the 14-leaf stage in 2019 (32.6%) compared with control treatment, mainly owing to the increased kernel/ear and kernel/m2. The internode length from the plant bottom to the top was negatively correlated with kernel/ear and kernel/m2, and the correlations were significant nearby and below the ear. Applying ethephon after the 13-leaf stage can avoid damaging floret number (potential kernel number per ear), at which time floret initiation has terminated. Besides, delayed ethephon application enabled stem growth to compete less with floret growth by reducing stem internode elongation during the critical period, and accelerated photosynthate partitioning from leaves to the ear, providing enough assimilate for kernel formation and growth. Taken together, delayed ethephon application (i.e., after 60% leaf age index) in combination with lodging resistant hybrids can further raise maize yield in the context of continuously increased plant densities.

BSA-seq-based identification of a major additive plant height QTL with an effect equivalent to that of Semi-dwarf 1 in a large rice F2 population

Bulked-segregant analysis is a time- and cost-saving strategy for identifying major quantitative trait loci (QTL) in a mapping population. Bulked-segregant analysis combined with whole-genome sequencing (BSA-seq) was performed to rapidly identify QTL for heading date, plant height, and panicle length in a large F2 population derived from two landraces: Chuan 7 (C7) and Haoboka (HBK). Twenty plants with extremely low or high phenotypic values for the target traits were selected from an F2 population of 940 plants to construct low- and high-value bulks. Three pairs of bulks for the three traits were constructed, resulting in six DNA pools. BSA-seq revealed nine QTL: four for heading date, three for plant height, and two for panicle length. These QTL were validated in a random F2 population or BC4F2 populations. The major novel plant height QTL, qPH8, acting additively with an effect equivalent to that of semi-dwarf 1 (sd1), is potentially valuable for hybrid rice breeding. qPH8 controls mainly the elongation of basal internodes. The C7 allele of qPH8 reduces plant height and increases lodging resistance without yield penalty, suggesting a potential role for qPH8 in improving rice plant architecture.

High planting density induces the expression of GA3-oxidase in leaves and GA mediated stem elongation in bioenergy sorghum

The stems of bioenergy sorghum hybrids at harvest are > 4 m long, contain > 40 internodes and account for ~ 80% of harvested biomass. In this study, bioenergy sorghum hybrids were grown at four planting densities (~ 20,000 to 132,000 plants/ha) under field conditions for 60 days to investigate the impact shading has on stem growth and biomass accumulation. Increased planting density induced a > 2-fold increase in sorghum internode length and a ~ 22% decrease in stem diameter, a typical shade avoidance response. Shade-induced internode elongation was due to an increase in cell length and number of cells spanning the length of internodes. SbGA3ox2 (Sobic.003G045900), a gene encoding the last step in GA biosynthesis, was expressed ~ 20-fold higher in leaf collar tissue of developing phytomers in plants grown at high vs. low density. Application of GA3 to bioenergy sorghum increased plant height, stem internode length, cell length and the number of cells spanning internodes. Prior research showed that sorghum plants lacking phytochrome B, a key photoreceptor involved in shade signaling, accumulated more GA1 and displayed shade avoidance phenotypes. These results are consistent with the hypothesis that increasing planting density induces expression of GA3-oxidase in leaf collar tissue, increasing synthesis of GA that stimulates internode elongation.

Seedling elongation responses to gibberellin seed treatments in wheat

AbstractThe wheat (Triticum aestivum L.) Reduced height (Rht) alleles are widely used to prevent lodging through semi‐dwarfism. Seedling elongation and coleoptile length can be significantly decreased by some of these alleles, leading to reduced soil emergence after deep sowing in certain semi‐arid environments. Application of the elongation‐promoting hormone gibberellin A3 (GA3) as a seed treatment has been used as an alternative to improve seedling emergence. Seedling responses to GA3 seed treatment were investigated under controlled conditions in a collection of varieties differing for Rht dwarfing alleles and the ability to emerge from deep planting. Data between treated and untreated seed were collected on overall coleoptile length and emergence from deep planting in simulated pot studies. Gibberellin‐sensitive varieties, carrying either no dwarfing gene or the Rht8 dwarfing gene, responded to the GA3 seed treatment with increased coleoptile and subcrown internode elongation. Comparison of near‐isogenic lines carrying no dwarfing allele or the GA‐insensitive Rht‐B1b and/or Rht‐D1b semi‐dwarfing alleles showed that GA insensitivity was associated with reduced seedling response to GA3 seed treatment. However, there was variation in seedling elongation and GA3 response in a collection of GA‐insensitive varieties. Thus, it cannot be assumed that all Rht‐B1b and Rht‐D1b varieties will fail to respond to GA3 seed treatment. Interestingly, some better emerging GA‐insensitive varieties had longer coleoptiles after treatment, suggesting that selection for better emergence in semi‐arid regions of the U.S. Pacific Northwest may have led to responses in GA3 application independent of the dwarfing gene used.

The relationship between internode elongation of soybean stems and spectral distribution of light in the canopy under different plant densities

ABSTRACT The present study carried out with a field plot experiment and light environment simulation experiment in 2017 to assess the effect of spectral distribution on internode elongation in soybean canopy. Henong 60 and Heinong 48 were used as the experimental materials. The spectral distribution in the soybean canopy was studied under four planting densities 200,000(D20), 300,000(D30), 400,000(D40) and 500,000(D50) plant ha−1. Meanwhile, a pot experiment of light environment simulation with light-emitting diode (LED) was carried out to further analyze the effects of light quantity and quality on the elongation of soybean seedlings. The results showed that the intensity of PAR, blue light, red light and far-red light in soybean canopy decreased by varying degrees with density and canopy depth increasing, and the decrease of PAR and R/FR led to significant elongation of internodes and plant height in high density. The spectral intensity in the middle and base of the canopy was strongly reduced, resulting in the strongest internode elongation in the middle of soybean stem. The increase in soybean plant height was also mainly due to the internode elongation in the middle at high density. In addition, the mono-light of far-red light could promote the internode elongation, while the red light and blue light acted as inhibitors and the inhibitory effect of blue light was even greater.

Melon short internode (CmSi) encodes an ERECTA-like receptor kinase regulating stem elongation through auxin signaling

SummaryPlant height is one of the most important agronomic traits that directly determines plant architecture, and compact or dwarf plants can allow for increased planting density and land utilization as well as increased lodging resistance and economic yield. At least four dwarf/semidwarf genes have been identified in different melon varieties, but none of them have been cloned, and little is known about the molecular mechanisms underlying internode elongation in melon. Here, we report map-based cloning and functional characterization of the first semidwarf gene short internode (Cmsi) in melon, which encodes an ERECTA-like receptor kinase regulating internode elongation. Spatial-temporal expression analyses revealed that CmSI exhibited high expression in the vascular bundle of the main stem during internode elongation. The expression level of CmSI was positively correlated with stem length in the different melon varieties examined. Ectopic expression of CmSI in Arabidopsis and cucumber suggested CmSI as a positive regulator of internode elongation in both species. Phytohormone quantitation and transcriptome analysis showed that the auxin content and the expression levels of a number of genes involved in the auxin signaling pathway were altered in the semidwarf mutant, including several well-known auxin transporters, such as members of the ABCB family and PIN-FORMED genes. A melon polar auxin transport protein CmPIN2 was identified by protein–protein interaction assay as physically interacting with CmSI to modulate auxin signaling. Thus, CmSI functions in an auxin-dependent regulatory pathway to control internode elongation in melon. Our findings revealed that the ERECTA family gene CmSI regulates stem elongation in melon through auxin signaling, which can directly affect polar auxin transport.

DO JASMONIC ACID AND ACTIVATED CHARCOAL INCREASE THE in vitro DEVELOPMENT OF ORANGE CARROT (Daucus carota L.) AND PURPLE CARROT (Daucus carota L. ssp. sativus var. atrorubens Alef.)?

Present study aimed to reveal the effects of jasmonic acid and activated charcoal on in vitro carrot plantlet regeneration by using Murashige and Skoog (MS) medium supplemented with BAP, NAA, activated charcoal and jasmonic acid at various concentrations. To serve the purpose, in vitro carrot seed germination, shoots, cotyledons, and first leaves formation of orange and purple carrot plantlets were investigated. During the experiments, root size, weight, and size of petiole diameter, hyperhydricity and callus formation rate were recorded. Experimental results revealed that combination of jasmonic acid and activated charcoal in medium had a positive effect especially on the first stage of developmental processes such as seed swelling and germination, cotyledon and first leaf formation as well as having positive effects on above-ground internode elongation, petiole and plantlet height.

Enhanced Activity of Genes Associated With Photosynthesis, Phytohormone Metabolism and Cell Wall Synthesis Is Involved in Gibberellin-Mediated Sugarcane Internode Growth.

Internode elongation is an important trait in sugarcane as it affects the sugarcane yield. Gibberellin (GA) is a key modulator of internode elongation in sugarcane. Understanding the gene expression features of GA-mediated internode elongation has both scientific and practical significance. This study aimed to examine the transcriptomic changes in the internode elongation of sugarcane following GA treatment. Eighteen cDNA libraries from the internode tissues on days of 0, 3, and 6 in control and GA treatment groups were sequenced and their gene expression were studied. RNA-seq analysis revealed 1,338,723,248 reads and 70,821 unigenes from elongating internodes of sugarcane. Comparative studies discovered a large number of transcripts that were differentially expressed in GA-treated samples compared to the control. Further analysis revealed that the differentially expressed genes were enriched in the metabolic process, one-carbon compound transport, and single-organism process. Kyoto Encyclopedia of Genes and Genomes pathway annotation showed significant enrichment in photosynthesis and plant hormone signal transduction, indicating its involvement in internode elongation. The function analysis suggested that metabolic pathways and biosynthesis of secondary metabolites, plant hormones, and cell wall components were enriched in the internodes of the GA-treated plants. The hub genes were identified, with the function of cellulose synthesis. The results of this study provide a global view of mRNA changes during sugarcane internode elongation and extend our knowledge of the GA-mediated cellular processes involved in sugarcane stem growth.

Synergistic development of maize stalk as a strategy to reduce lodging risk

AbstractThe reason for different maize (Zea mays L.) hybrids exhibiting differences in stalk lodging risk between the 12‐leaf (V12) and flowering stages is unclear. This study tracked internode development included morphology, carbohydrate accumulation, and mechanical strength of basal internodes in four widely‐planted maize hybrids in China for two consecutive growing seasons. And then used logistic model to estimate the time of initiation and termination of rapid thickening, lengthening, accumulation of dry weight per unit length (DWUL), cellulose, lignin, and increase in rind penetration strength (RPS) of internodes. Planting density was 7.5 × 104 plants ha−1. The results shows that basal internodes development in maize begins with a period of rapid thickening and lengthening, followed by DWUL accumulation, and finally an increase in RPS. The period of DWUL accumulation was the longest of these developmental periods and occurred throughout internode development. For hybrid with a low risk of stalk lodging, RPS development began in later part of the rapid elongation period. In contrast, rapid RPS development in hybrid with a high risk of stalk lodging began after the rapid elongation period. Rapid DWUL accumulation and RPS development can reduce the adverse effects caused by rapid elongation of basal internodes. The shorter the interval between rapid elongation, DWUL accumulation, and RPS development of the basal internodes, the greater a plant's resistance to stalk lodging. Therefore, lodging risk can be reduced through selection and breeding strategies that achieve synergistic development of morphology, dry matter accumulation, and mechanical strength in maize stalks.

Probing the role of cell wall feruloylation during maize development by differential expression of an apoplast targeted fungal ferulic acid esterase.

While many aspects of the growth of maize are well understood, the role of cell wall feruloylation particularly during internode elongation has not been firmly established, but results so far indicate that it has significant implications for both biofuel feedstock conversion and for crop yield. The growth of the cell wall is achieved by synthesis, integration and cross-linking between wall polymers. As ferulate oxidative coupling of arabinoxylan side chains constitutes a significant type of cross-link in grass cell walls, it is expected to have a crucial role in plant growth. Making use of plants expressing an apoplast targeted Aspergillus niger FAEA under the control of either a constitutive or an inducible promoter, the role of cell wall feruloylation in maize internode expansion was investigated. Analysis of FAEA expressing plants showed that where FAEA was targeted to the apoplast under a constitutive promoter, plants varied in stature either from semi-dwarf plants with a 40–60% height reduction, to extreme dwarf mutants with over 90% reduction in plant heights compared to controls. Results indicate that disruption of cell wall feruloylation by FAEA occurs before the start of rapid internode expansion is initiated and affects the normal course of internode elongation, resulting in short internodes and dwarfed plants. In contrast, when under the inducible Lm See1 senescence promoter, FAEA activity was found to be low up to the VT stage of development but increased significantly at the VR stage as plants began to senesce, strongly suggesting that normal cell wall feruloylation is required for the process of internode expansion. In addition, with apoplast targeted expression of FAEA under control of the senescence enhanced promoter it was possible to demonstrate decreased cell wall feruloylation without affecting internode expansion or other aspects of plant development.

Physiological and transcriptomic analyses of brassinosteroid function in moso bamboo (Phyllostachys edulis) seedlings.

This study demonstrates that brassinosteroid is essential for seedling and shoot growth in moso bamboo. The shoot of moso bamboo is known to grow extremely fast. The roles of phytohormones in such fast growth of bamboo shoot remain unclear. Here we reported that endogenous brassinosteroid (BR) is a major factor promoting bamboo shoot internode elongation. Reducing endogenous brassinosteroid level by its biosynthesis inhibitor propiconazole stunted shoot growth in seedling stage, whereas exogenous BR application promoted scale leaf elongation and the inclination of lamina joint of leaves and scale leaves. Genome-wide transcriptome analysis identified hundreds of genes whose expression levels are altered by BR and propiconazole in shoots and roots of bamboo seedling. The data show that BR regulates cell wall-related genes, hydrogen peroxide catabolic genes, and auxin-related genes. Our study demonstrates an essential role of BR in fast growth bamboo shoots and identifies a large number of BR-responsive genes in bamboo seedlings.

Ethylene functions as a suppressor of volatile production in rice.

We examined the role of ethylene in the production of rice (Oryza sativa) volatile organic compounds (VOCs), which act as indirect defense signals against herbivores in tritrophic interactions. Rice plants were exposed to exogenous ethylene (1 ppm) after simulated herbivory, which consisted of mechanical wounding supplemented with oral secretions (WOS) from the generalist herbivore larva Mythimna loreyi. Ethylene treatment highly suppressed VOCs in WOS-treated rice leaves, which was further corroborated by the reduced transcript levels of major VOC biosynthesis genes in ethylene-treated rice. In contrast, the accumulation of jasmonates (JA), known to control VOCs in higher plants, and transcript levels of primary JA response genes, including OsMYC2, were not largely affected by ethylene application. At the functional level, flooding is known to promote internode elongation in young rice via ethylene signaling. Consistent with the negative role of ethylene on VOC genes, the accumulation of VOCs in water-submerged rice leaves was suppressed. Furthermore, in mature rice plants, which naturally produce less volatiles, VOCs could be rescued by the application of the ethylene perception inhibitor 1-methylcyclopropene. Our data suggest that ethylene acts as an endogenous suppressor of VOCs in rice plants during development and under stress.

Antagonistic regulation of the gibberellic acid response during stem growth in rice

The size of plants is largely determined by growth of the stem. Stem elongation is stimulated by gibberellic acid1-3. Here we show that internode stem elongation in rice is regulated antagonistically by an 'accelerator' and a 'decelerator' in concert with gibberellic acid. Expression of a gene we name ACCELERATOR OF INTERNODE ELONGATION1 (ACE1), which encodes a protein of unknown function, confers cells of the intercalary meristematic region with the competence for cell division, leading to internode elongation in the presence of gibberellic acid. By contrast, upregulation of DECELERATOR OF INTERNODE ELONGATION1 (DEC1), which encodes a zinc-finger transcription factor, suppresses internode elongation, whereas downregulation of DEC1 allows internode elongation. We also show that the mechanism of internode elongation that is mediated by ACE1 and DEC1 is conserved in the Gramineae family. Furthermore, an analysis of genetic diversity suggests that mutations in ACE1 and DEC1 have historically contributed to the selection of shorter plants in domesticated populations of rice to increase their resistance to lodging, and of taller plants in wild species of rice for adaptation to growth in deep water. Our identification of these antagonistic regulatory factors enhances our understanding of the gibberellic acid response as an additional mechanism that regulates internode elongation and environmental fitness, beyond biosynthesis and gibberellic acid signal transduction.

Water management impact on denitrifier community and denitrification activity in a paddy soil at different growth stages of rice

Rice is one of the largest water-consuming crops. Alternate wetting and drying (AWD) is now an effective water-saving practice for rice cultivation that has been widely applied across the world. AWD may increase denitrification loss. However, the underlying mechanism remains unclear. This study investigated denitrifier activity, abundance and community structure in the rice rhizosphere and bulk soil in response to water management at the internode elongation (IE) and flowering (F) stages. The results revealed that at the IE stage, AWD significantly increased denitrification capacity (DC) in the rhizosphere compared with continuously flooded practice (CF). DC was significantly and positively related to electrical conductivity (EC) and the abundance of nirS-harboring denitrifiers. AWD led to higher EC in the 0–20 cm soil layer than CF. Although AWD lowered nirS abundance by 15 % compared with CF, the activity of nirS-harboring denitrifiers was enhanced by 1.89-folds of CF. At the F stage, AWD significantly decreased DC relative to CF. AWD had lower dissolved organic carbon (DOC) than CF, and DOC was significantly correlated with DC. Compared with CF, AWD also markedly changed the structure and network stability of nirS and nirK communities, resulting in sharp decreases in the total number of links in nirK and nirS networks of rhizosphere. The soil pH and EC were the key factors shaping the structure of nirS and nirK communities. Overall, the increase in denitrification losses due to AWD occurred primarily at the IE rather than F stage, and this increase was attributed to a rise in EC and changes in the activity and structure of nirS community. These findings provide a new insight into the mechanism of impact of the water-saving practice on denitrification loss for rice cultivation.

Plant architectural responses in simultaneous maize/soybean strip intercropping do not lead to a yield advantage

AbstractMaize/soybean strip intercropping is a commonly used system throughout China with high crop yields at reduced nutrient input compared to sole maize. Maize is the taller crop, and due to its dominance in light capture over soybean in the intercrop, maize is expected to outperform maize in sole cropping. Conversely, soybean is the subordinate crop and intercropped soybean plants are expected to perform worse than sole soybean. Crop plants show plastic responses in plant architecture to their growing conditions to forage for light and avoid shading. There is little knowledge on plant architectural responses to growing conditions in simultaneous (non‐relay) intercropping and their relationship to species yields. A two‐year field experiment with two simultaneous maize/soybean intercropping systems with narrow and wide strips was conducted to characterise architectural traits of maize and soybean plants grown as intercrop and sole crops. Intercropped maize plants, especially those in border rows, had substantially greater leaf area, biomass and yield than maize plants in sole crops. Intercropped soybean plants, especially those in border rows, had lower leaf area, biomass and yield than sole soybean plants. Overall intercrop performance was similar to that of sole crops, with the land equivalent ratio (LER) being only slightly greater than one (1.03–1.08). Soybean displayed typical shade avoidance responses in the intercrop, such as greater internode elongation and changes in specific leaf area, but these responses could not overcome the consequences of the competition with the taller maize plants. Therefore, in contrast to relay intercrop systems, in the studied simultaneous maize/soybean system, plastic responses did not contribute to practically relevant increases in resource capture and yield at whole system (i.e., intercrop) level.

Shade signals alter the expression of circadian clock genes in newly-formed bioenergy sorghum internodes.

Stem internodes of bioenergy sorghum inbred R.07020 are longer at high plant density (shade) than at low plant density (control). Initially, the youngest newly‐formed subapical stem internodes of shade‐treated and control plants are comparable in length. However, full‐length internodes of shade‐treated plants are three times longer than the internodes of the control plants. To identify the early molecular events associated with internode elongation in response to shade, we analyzed the transcriptome of the newly‐formed internodes of shade‐treated and control plants sampled between 4 and 6 hr after the start of the light period (14 hr light/10 hr dark). Sorghum genes homologous to the Arabidopsis shade marker genes ATHB2 and PIL1 were not differentially expressed. The results indicate that shade signals promote internode elongation indirectly because sorghum internodes are not illuminated and grow while enclosed with leaf sheaths. Sorghum genes homologous to the Arabidopsis morning‐phased circadian clock genes LHY, RVE, and LNK were downregulated and evening‐phased genes such as TOC1, PRR5, and GI were upregulated in young internodes in response to shade. We hypothesize that a change in the function or patterns of expression of the circadian clock genes is the earliest molecular event associated with internode elongation in response to shade in bioenergy sorghum. Increased expression of CycD1, which promotes cell division, and decreased expression of cell wall‐loosening and MBF1‐like genes, which promote cell expansion, suggest that shade signals promote internode elongation in bioenergy sorghum in part through increasing cell number by delaying transition from cell division to cell expansion.