Screening soybean for adaptation to relay intercropping systems: associations between reproductive organ abscission and yield

The flower and pod abscission is one of the characteristics of soybean that severely limits yield, especially when intercropped with maize. Therefore, suitable soybean cultivars for intercropping are urgently needed to improve farmland productivity. We conducted a two-year field experiment to evaluate the flower and pod abscission, dry matter production, and yield advantages of 15 soybean cultivars. The results of the principal component analysis (PCA) and cluster analysis (CA) showed that 15 soybean cultivars were classified into three groups, i.e., high-yielding group (HYG), mid-yielding cultivars (MYG), and low-yielding cultivars (LYG). In the HYG group, ND12 and GX3 had characteristics of more flowers and pods and less abscission of flowers and pods. Moreover, the net assimilation rate (NAR) and relative growth rate (RGR) of HYG were significantly higher than the other. The HYG obtained a considerably higher partition ratio of 53% from biomass to seed than the other. Therefore, selecting and breeding cultivars with the characteristics of more flowers and pods and less abscission of flowers and pods can help to increase soybean yield in intercropping.This research was funded by the Program on Industrial Technology System of National Soybean (CARS-04-PS18), and the National Key Research and Development Program of China (2021YFF1000500). Qing Du was a recipient of a joint PhD scholarship supported by the China Scholarship Council (CSC) (No. 202106910037)

Improving maize’s N uptake and N use efficiency by strengthening roots’ absorption capacity when intercropped with legumes

Maize’s nitrogen (N) uptake can be improved through maize-legume intercropping. N uptake mechanisms require further study to better understand how legumes affect root growth and to determine maize’s absorptive capacity in maize-legume intercropping. We conducted a two-year field experiment with two N treatments (zero N (N0) and conventional N (N1)) and three planting patterns (monoculture maize (Zea mays L.) (MM), maize-soybean (Glycine max L. Merr.) strip intercropping (IMS), and maize-peanut (Arachis hypogaea L.) strip intercropping (IMP)). We sought to understand maize’s N uptake mechanisms by investigating root growth and distribution, root uptake capacity, antioxidant enzyme activity, and the antioxidant content in different maize-legume strip intercropping systems. Our results showed that on average, the N uptake of maize was significantly greater by 52.5% in IMS and by 62.4% in IMP than that in MM. The average agronomic efficiency (AE) of maize was increased by 110.5 % in IMS and by 163.4 % in IMP, compared to MM. The apparent recovery efficiency (RE) of maize was increased by 22.3% in IMS. The roots of intercropped maize were extended into soybean and peanut stands underneath the space and even between the inter-rows of legume, resulting in significantly increased root surface area density (RSAD) and total root biomass. The root-bleeding sap intensity of maize was significantly increased by 22.7–49.3% in IMS and 37.9–66.7% in IMP, compared with the MM. The nitrate-N content of maize bleeding sap was significantly greater in IMS and IMP than in MM during the 2018 crop season. The glutathione (GSH) content, superoxide dismutase (SOD), and catalase (CAT) activities in the root significantly increased in IMS and IMP compared to MM. Strip intercropping using legumes increases maize’s aboveground N uptake by promoting root growth and spatial distribution, delaying root senescence, and strengthening root uptake capacity

Rapid Identification of a Genomic Region Conferring Dwarfism in Rapeseed (Brassica napus L.) YA2016-12

Plant height is a vital agronomic trait for crops, including oilseed crops such as rapeseed (Brassica napus L.). It affects the crop yield, oil content, and lodging resistance in rapeseed. In this study, we investigated a dwarf trait controlled by a semi-dominant allele in rapeseed. A dwarf line, YA2016-12, was crossed with a tall line, G184-189, and an F2 population was established. Forty of the tallest plants and 40 of the shortest plants from the F2 population were selected and two DNA pools (tall and dwarf) were constructed by the bulked segregant analysis (BSA) method. The two DNA pools and two parental DNAs were then re-sequenced. A sliding window analysis was used to calculate the Δ(SNP-index) and discover an association region on chromosome A03 with a length of 12.4 Mb. Within this region, we found 1225 genes, including 811 genes with non-synonymous or frameshift mutations between YA2016-12 and G184-189. Alignment to known plant height-related orthologs in Arabidopsis thaliana, as well as KEGG pathway and gene ontology annotations, was used to identify nine candidate genes (BnaA03g31770D, BnaA03g37960D, BnaA03g24740D, BnaA03g40550D, BnaA03g26120D, BnaA03g35130D, BnaA03g42350D, BnaA03g25610D, and BnaA03g39850D) involved in gibberellin or cytokinin signaling. Identification of the causal gene for this trait, and of genetic markers linked to favorable alleles, has potential utility for marker-assisted selection to breed rapeseed varieties with improved height

Soil Organic Matter, Aggregates, and Microbial Characteristics of Intercropping Soybean under Straw Incorporation and N Input

Soil organic matter (SOM), soil aggregates, and soil microbes play key roles in agriculture soil fertility. In intercropping systems, the influences of straw incorporation and N input on the dynamics of soil physicochemical and microbial properties and their relationships are still unclear. We explore the changes in soil physicochemical and microbial properties with two straw managements, i.e., wheat straw incorporation (SI) and straw removal (SR), and four N supply rates for intercropped soybean, i.e., 60 (N60), 30 (N30), 15 (N15), and 0 (N0) kg N ha−1, in the wheat–maize–soybean relay strip intercropping systems. The results showed that SOM and SOM fractions contents, soil macroaggregate stability, and microbial and fungal α-diversity, e.g., Chao1 and Shannon indices, increased through straw incorporation and N input. The α-diversity was significantly positively correlated with soil physicochemical characteristics. Compared with SR, the relative abundance of ActinobacteriaandMortierellomycota in SI increased, but the relative abundance of Proteobacteria, Acidobacteria, and Ascomycota in SI decreased. In SI treatment, soil physicochemical characteristics and microbial diversity improved through N input, but that difference was not significant between N60 and N30. In conclusion, SI+N30 was the most effective way to maintain soil fertility and reduce the N fertilizer input in the wheat–maize–soybean relay strip intercropping

Genome-Wide Identification of Flowering-Time Genes in <i>Brassica</i> Species and Reveals a Correlation between Selective Pressure and Expression Patterns of Vernalization-Pathway Genes in <i>Brassica napus</i>

Flowering time is a key agronomic trait, directly influencing crop yield and quality. Many flowering-time genes have been identified and characterized in the model plant Arabidopsis thaliana; however, these genes remain uncharacterized in many agronomically important Brassica crops. In this study, we identified 1064, 510, and 524 putative orthologs of A. thaliana flowering-time genes from Brassica napus, Brassica rapa, and Brassica oleracea, respectively, and found that genes involved in the aging and ambient temperature pathways were fewer than those in other flowering pathways. Flowering-time genes were distributed mostly on chromosome C03 in B. napus and B. oleracea, and on chromosome A09 in B. rapa. Calculation of non-synonymous (Ka)/synonymous substitution (Ks) ratios suggested that flowering-time genes in vernalization pathways experienced higher selection pressure than those in other pathways. Expression analysis showed that most vernalization-pathway genes were expressed in flowering organs. Approximately 40% of these genes were highly expressed in the anther, whereas flowering-time integrator genes were expressed in a highly organ-specific manner. Evolutionary selection pressures were negatively correlated with the breadth and expression levels of vernalization-pathway genes. These findings provide an integrated framework of flowering-time genes in these three Brassica crops and provide a foundation for deciphering the relationship between gene expression patterns and their evolutionary selection pressures in Brassica napus

Identification of genomic regions associated with multi-silique trait in Brassica napus

Abstract Background Although rapeseed (Brassica napus L.) mutant forming multiple siliques was morphologically described and considered to increase the silique number per plant, an important agronomic trait in this crop, the molecular mechanism underlying this beneficial trait remains unclear. Here, we combined bulked-segregant analysis (BSA) and whole genome re-sequencing (WGR) to map the genomic regions responsible for the multi-silique trait using two pools of DNA from the near-isogenic lines (NILs) zws-ms (multi-silique) and zws-217 (single-silique). We used the Euclidean Distance (ED) to identify genomic regions associated with this trait based on both SNPs and InDels. We also conducted transcriptome sequencing to identify differentially expressed genes (DEGs) between zws-ms and zws-217. Results Genetic analysis using the ED algorithm identified three SNP- and two InDel-associated regions for the multi-silique trait. Two highly overlapped parts of the SNP- and InDel-associated regions were identified as important intersecting regions, which are located on chromosomes A09 and C08, respectively, including 2044 genes in 10.20-MB length totally. Transcriptome sequencing revealed 129 DEGs between zws-ms and zws-217 in buds, including 39 DEGs located in the two abovementioned associated regions. We identified candidate genes involved in multi-silique formation in rapeseed based on the results of functional annotation. Conclusions This study identified the genomic regions and candidate genes related to the multi-silique trait in rapeseed

Transcriptome Analysis of Interspecific Hybrid between Brassica napus and B. rapa Reveals Heterosis for Oil Rape Improvement

The hybrid between Brassica napus and B. rapa displays obvious heterosis in both growth performance and stress tolerances. A comparative transcriptome analysis for B. napus (AnAnCC genome), B. rapa (ArAr genome), and its hybrid F1 (AnArC genome) was carried out to reveal the possible molecular mechanisms of heterosis at the gene expression level. A total of 40,320 nonredundant unigenes were identified using B. rapa (AA genome) and B. oleracea (CC genome) as reference genomes. A total of 6,816 differentially expressed genes (DEGs) were mapped in the A and C genomes with 4,946 DEGs displayed nonadditively by comparing the gene expression patterns among the three samples. The coexistence of nonadditive DEGs including high-parent dominance, low-parent dominance, overdominance, and underdominance was observed in the gene action modes of F1 hybrid, which were potentially related to the heterosis. The coexistence of multiple gene actions in the hybrid was observed and provided a list of candidate genes and pathways for heterosis. The expression bias of transposable element-associated genes was also observed in the hybrid compared to their parents. The present study could be helpful for the better understanding of the determination and regulation of mechanisms of heterosis to aid Brassica improvement

Biochar and biofertilizer reduced nitrogen input and increased soybean yield in the maize soybean relay strip intercropping system

Abstract Applying Biochar (BC) or biofertilizers (BF) are potential approaches to reduce the nitrogen input and mitigate soil degradation in the maize soybean relay strip intercropping system (IS). In 2019 and 2020, a two-factor experiment was carried out to examine the effects of BC and BF on soil productivity and yield production in IS. 4 N input levels (8.4, 22.5, 45 kg, and 67.5 kg ha − 1) referred to as N0, N1, N2, and N3 were paired with various organic treatments, including BC (150 kg ha − 1), BF (300 kg ha − 1), and without organic amendments (CK). The results demonstrated that, despite BF decreasing the biomass and N distribution into grains, BF performed better on improved soybean yield (5.2–8.5%) by increasing the accumulation of soybean biomass (7.2 ~ 11.6%) and N (7.7%). Even though BC and BF have a detrimental effect on soybean nitrogen fixation by reducing nodule number and weight, the values of soybean nitrogenase activity and nitrogen fixation potential in BF were higher than those in BC. Additionally, BF performs better at boosting the soil’s nitrogen content and nitrate reductase and urease activity. BF increased the concentration of total N, soil organic matter, Olsen-phosphorus, and alkaline hydrolyzable N in the soil by 13.0, 17.1, 22.0, and 7.4%, respectively, compared to CK. Above all, applying BF combination with N2 (45 kg ha − 1 N) is a feasible strategy to raise crop grain output and keep soil productivity over the long term in IS

DataSheet_1_Straw incorporation and nitrogen reduction effect on the uptake and use efficiency of nitrogen as well as soil CO2 emission of relay strip intercropped soybean.docx

Intercropping can increase crop N uptake and reduce carbon emissions. However, the effects of straw incorporation and N reduction on N use and carbon emissions in intercropping are still unclear. We explored the mechanism of N uptake, N use efficiency, and CO2 emissions in the wheat-maize-soybean relay strip intercropping system. A two-year field experiment was conducted with two straw managements, i.e., wheat straw incorporation (SI) and straw removal (SR), and four N application levels of soybean, i.e., 60 (N60), 30 (N30), 15 (N15), and 0 kg N ha-1 (N0). We assessed soil properties, CO2 emissions, and characteristics of roots, nodules, and aboveground N uptake of intercropped soybean. Results showed that geometry mean diameter of aggregate, soil porosity, soil total N, and soil urease activity were notably greater in SI than in SR. N input reduced from N60 to N30 did not significantly affect the soil total N content and urease activity in SI. The root length, root surface area, root volume, root biomass, root bleeding intensity, and inorganic N content of bleeding sap were greater in SI than in SR. In the SI, although the root length and surface area peaked at N60, the root biomass and inorganic N content of bleeding sap were insignificant between N60 and N30. The nodule number, nodule dry weight, nodule nitrogenase activity, and nodule nitrogen fixation potential in SI were notably increased compared with SR. The nodule nitrogen fixation potential in SI notably increased with the decrease of N input at the R3 stage, but it peaked in N30 at the R5 stage. On average, the aboveground N uptake and nitrogen recovery efficiency (RE) was notably higher by 43.7% and 76.8% in SI than in SR. SI+N30 achieved the greatest aboveground N uptake and RE. The CO2 emission and accumulated CO2 emission were notably greater in SI than in SR, and the accumulated CO2 emission of SI was the lowest with N30 input. In conclusion, SI+N30 promoted N uptake and utilization efficiency with reduced CO2 emissions during the soybean cropping season. It provides a potential strategy for sustainable agricultural development in intercropping systems.</p