Fungal communities in the continuous cropping of soybean rhizosphere soil during seedling period
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA489728 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR7817250.fastq.gz | Fastqsanger.gz | |||
| SRR7817251.fastq.gz | Fastqsanger.gz | |||
| SRR7817252.fastq.gz | Fastqsanger.gz | |||
| SRR7817243.fastq.gz | Fastqsanger.gz | |||
| SRR7817253.fastq.gz | Fastqsanger.gz |
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Project description:Long-term continuous soybean cropping can lead to the aggravation of soil fungal disease. However, the manner in which the fungal community and functional groups of fungi are affected by continuous soybean cropping remains unclear. We investigated the fungal abundance, composition and diversity during soybean rotation (RS), 2-year (SS) and long-term (CS) continuous soybean cropping systems using quantitative real-time PCR and high-throughput sequencing. The results showed that the fungal abundance was significantly higher in CS than in SS and RS. CS altered the fungal composition. Compared with RS, SS had an increase of 29 and a decrease of 12 genera in fungal relative abundance, and CS increased 38 and decreased 17 genera. The Shannon index was significantly higher in CS and SS than in RS. The result of principal coordinate analysis (PCoA) showed that CS and SS grouped together and were clearly separated from RS on the PCoA1. A total of 32 features accounted for the differences in fungal composition across RS, SS, and CS. The relative abundance of 10 potentially pathogenic and 10 potentially beneficial fungi changed, and most of their relative abundances dramatically increased in SS and CS compared with RS. Our study indicated that CS results in selective stress on pathogenic and beneficial fungi and causes the development of the fungal community structure that is antagonistic to plant health.
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Project description:Soybean (Glycine max) is susceptible to root rot when subjected to continuous cropping, and this disease can seriously diminish the crop yield. Herein, isobaric tag for relative and absolute quantitation (iTRAQ) labeling and liquid chromatography-tandem mass spectrometry (LC-MS/MS) were employed for proteomic analysis of continuously cropped soybean inoculated with the arbuscular mycorrhizal (AM) fungus Funneliformis mosseae. Differential expression of proteins in soybean roots was determined following 1 year of continuous cropping. A total of 131 differentially expressed proteins (DEPs) were identified in F. mosseae-treated samples, of which 49 and 82 were up- and down-regulated, respectively. The DEPs were annotated with 117 Gene Ontology (GO) terms, with 48 involved in biological processes, 31 linked to molecular functions, and 39 associated with cell components. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis mapped the DEPs to 113 mainly metabolic pathways including oxidative phosphorylation, glycolysis and amino acid metabolism. Expression of glucan 1,3-beta-glucosidase, chalcone isomerase, calcium-dependent phospholipid binding and other defense-related proteins was up-regulated by F. mosseae, suggesting inoculation promotes the growth and development of soybean and increases disease resistance. The findings provide an experimental basis for further research on the molecular mechanisms of AM fungi in resolving problems associated with continuous soybean cropping.
2019-11-12 | PXD009911 | Pride
Project description:Diversification and intensification of cropping systems can ensure farm profitability while reducing negative environmental impacts of agriculture. Wheat-soybean relay cropping (RC), which consists in planting soybean into standing wheat prior to its harvest, may have this potential although it is poorly adopted by French and European farmers. One of the reasons underlying this lack of adoption could be poor emergence rates and biomass production of soybean, due to a severe competition from the already established primary crop for water, light and nutrients during the co-growth or intercrop phase. All these constraints during the early plant growth could finally affect soybean grain yield and thus farm profitability. Here, we performed a laboratory experiment followed by a 2-year field trial (2021-2022) to investigate potential differences among seven soybean cultivars belonging to different maturity groups (from very early to late) in terms of early growth traits viz. seed germination, seedling emergence vigor and final rates, and early biomass production in wheat-soybean RC. A reference soybean variety belonging to late maturity group (cv. ES Pallador) was also sown under conventional cropping system as control treatment (hereafter referred to as CC). Under laboratory conditions, the base water potential for germination ranged from -0.65 to -0.45 MPa with significant differences (p<0.001) among the tested cultivars indicating their differential tolerance to water stress. Under field conditions, seedling emergence vigor, an index explaining the speed of emergence, ranged from 0.23 to 0.41 and from 0.24 to 0.33 while final emergence rates ranged from 69% to 93% and from 65 to 90% in 2021 and 2022, respectively. We found significant effect of cultivar, year and cultivar x year interaction on emergence vigor (p<0.001) and final emergence rates (p<0.01, p<0.05 and p<0.01, respectively) of soybean cultivars. Significantly higher emergence vigor of the referent cv. ES Pallador was observed in RC compared to CC cropping system in 2021 (0.40 and 0.34, respectively) but not in 2022 (0.29 and 0.31, respectively). Water stress in the seedbed was higher in RC compared to the CC and was the main cause affecting seed germination and seedling emergence vigor especially in 2022. We found a positive correlation between seedling emergence vigor and seedling final emergence rates indicating that a lower speed of seedling emergence, due to seedbed stress factors, affects final emergence rates of soybean. Post-emergence losses due to pigeons were significantly higher (p<0.001) in CC compared to RC (30% and 2% in 2021, and 29% and 2% in 2022 in CC and RC, respectively). Significantly higher biomass production was observed in CC compared to that in RC both in 2021 (162 vs 33 g/m2 of dry matter; p<0.001) and 2022 (252 vs 60 g/m2 of dry matter; p<0.001). Overall, pre-/post-emergence water stress in the seedbed and post-emergence damage due to pigeons are the most important factors affecting a uniform and robust soybean establishment under RC and CC, respectively under southern French conditions.
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Project description:continuous cropping of sugar beet and relevent soil bacterial community Raw sequence reads
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Project description:IntroductionSoybean continuous cropping will change soil microorganisms and cause continuous cropping obstacles, resulting in a significant yield decline. Different soybean cultivars have different tolerances to continuous cropping, but the relationship between continuous cropping tolerance and soil microorganisms is not clear.MethodsTwo soybean cultivars with different tolerances to continuous cropping were used to study the effects of continuous cropping on soil physical and chemical properties, nitrogen and phosphorus cyclic enzyme activities, rhizosphere soil microbial community and function.ResultsThe results showed that the yield reduction rate of a continuous-cropping-tolerant cultivar (L14) was lower than that of a continuous-cropping-sensitive cultivar (L10) under continuous cropping. At R1 and R6 growth stages, soil nutrient content (NH4 +-N, NO3 --N, AP, DOM, TK, and pH), nitrogen cycling enzyme (URE, NAG, LAP) activities, phosphorus cycling enzyme (ALP, NPA, ACP) activities, copy numbers of nitrogen functional genes (AOA, AOB, nirK, nirK) and phosphorus functional genes (phoA, phoB) in L14 were higher than those in L10. Soybean cultivar was an important factor affecting the structure and functional structure of bacterial community under continuous cropping. The relative abundances of Proteobacteria, Bacteroidota, Acidobacteriota and Verrucomicrobiota with L14 were significantly higher than those of L10. The complexity of the soil bacterial community co-occurrence network in L14 was higher than that in L10.DiscussionThe continuous-cropping-tolerant soybean cultivar recruited more beneficial bacteria, changed the structure and function of microbial community, improved soil nitrogen and phosphorus cycling, and reduced the impact of continuous cropping obstacles on grain yield.
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Project description:Structure and variation in microbiome from continuous and rotational Pinellia ternata cropping soils
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