Genome-wide analysis of Glutathione peroxidase (GPX) gene family in Chickpea (Cicer arietinum L.) under salinity stress

Chickpea is the second most widely grown legume in the world. Its cultivation is highly affected by saline soils. Salt stress damages its all growth stages from germination to maturity. It has a huge genetic diversity containing adaptation loci that can help produce salt-tolerant cultivars. The glutathione peroxidase (GPX) gene family plays an important role in regulating plant response to abiotic stimuli and protects cells from oxidative damage. In current research, the role of GPX genes is studied for inducing salt tolerance in chickpea. This study identifies the GPX gene family in Cicer arietinum. In response to the NaCl stress, the gene expression profiles of CaGPX3 were examined using real-time qRT-PCR. The results of phylogenetic analysis show that CaGPX genes have an evolutionary relationship with monocots, dicots, chlorophytes, and angiosperms. Gene structure analysis showed that CaGPX3, CaGPX4, and CaGPX5 have six, CaGPX2 has five, and CaGPX1 contains 9 exons. According to the Ka and Ks analysis chickpea has one pair of duplicated genes of GPX and the duplication was tandem with negative (purifying) selection Ka < Ks (<1). In-silico gene expression analysis revealed that CaGPX3 is a salt stress-responsive gene among all other five GPX members in chickpea. The qRT-PCR results showed that the CaGPX3 gene expression was co-ordinately regulated under salt stress conditions, confirming CaGPX3's key involvement in salt tolerance.

Mitigating life-cycle environmental impacts and increasing net ecosystem economic benefits via optimized fertilization combined with lime in pomelo production in Southeast China

Excessive fertilization is acknowledged as a significant driver of heightened environmental pollution and soil acidification in agricultural production. Combining fertilizer optimization with soil acidity amendment can effectively achieve sustainable crop production in China, especially in Southeast China. However, there is a lack of long-term studies assessing the environmental and economic sustainability of combining fertilizer optimization with soil acidity amendment strategies, especially in fruit production. A four-year field experiment was conducted to explore pomelo yield, fruit quality, and environmental and economic performance in three treatments, e.g., local farmer practices (FP), optimized NPK fertilizer application (OPT), and OPT with lime (OPT+L). The results showed that the OPT+L treatment exhibited the highest pomelo yield and fruit quality among the three treatments. The OPT treatment had the lowest net greenhouse gas (GHG) emissions among the three treatments, which were 90.1 % and 42.6 % lower than those in FP and OPT+L, respectively. It is essential to note that GHG emissions associated with lime production constitute 40.7 % of the total emissions from fertilizer production. The OPT+L treatment reduced reactive nitrogen (Nr) emissions and phosphorus (P) losses, compared to FP and OPT. Moreover, the OPT+L treatment increased the net ecosystem economic benefit by 220.3 % and 20.3 % compared with the FP and OPT treatments, respectively. Overall, the OPT and OPT+L treatments underscore the potential to achieve environmentally friendly and economically sustainable pomelo production. Our study provides science-based evidence to achieve better environmental and economic performance in pomelo production through optimized NPK fertilization and alleviating soil acidification by lime.

Unraveling two decades of phyllosphere endophytes: tracing research trends and insights through visualized knowledge maps, with emphasis on microbial interactions as emerging frontiers

Phyllosphere endophytes play a critical role in a myriad of biological functions, such as maintaining plant health and overall fitness. They play a determinative role in crop yield and quality by regulating vital processes, such as leaf functionality and longevity, seed mass, apical growth, flowering, and fruit development. This study conducted a comprehensive bibliometric analysis aiming to review the prevailing research trajectories in phyllosphere endophytes and harness both primary areas of interest and emerging challenges. A total of 156 research articles on phyllosphere endophytes, published between 2002 and 2022, were retrieved from the Web of Science Core Collection (WoSCC). A systematic analysis was conducted using CiteSpace to visualize the evolution of publication frequency, the collaboration network, the co-citation network, and keywords co-occurrence. The findings indicated that initially, there were few publications on the topic of phyllosphere endophytes. However, from 2011 onwards, there was a notable increase in the number of publications on phyllosphere endophytes, gaining worldwide attention. Among authors, Arnold, A Elizabeth is widely recognized as a leading author in this research area. In terms of countries, the USA and China hold the highest rankings. As for institutional ranking, the University of Arizona is the most prevalent and leading institute in this particular subject. Collaborative efforts among the authors and institutions tend to be confined to small groups, and a large-scale collaborative network needs to be established. This study identified the influential journals, literature, and hot research topics. These findings also highlight the interconnected nature of key themes, e.g., phyllosphere endophyte research revolves around the four pillars: diversity, fungal endophytes, growth, and endophytic fungi. This study provides an in-depth perspective on phyllosphere endophytes studies, revealing the identification of biodiversity and microbial interaction of phyllosphere endophytes as the principal research frontiers. These analytical findings not only elucidate the recent trajectory of phyllosphere endophyte research but also provide invaluable insights for similar studies and their potential applications on a global scale.

Fertilization as the most critical factor affecting yield response and agronomic efficiency of phosphorus in Chinese rice production: evidence from multi-location field trials

BACKGROUND

Efficient utilization of phosphorus (P) has been a major challenge for sustainable agriculture. However, the responses of fertilizer rate, region, soil properties, cropping systems and genotypes to P have not been investigated comprehensively and systematically.

RESULTS

A comprehensive analysis of 9863 fertilizer-P experiments on rice cultivation in China showed that rice yield  increased first and then fell down with the addition of P fertilizer, and the highest yield of 7963 kg ha-1 was observed under 100% P treatment. Under 100% P treatment, the yield response of applied P (YRP ) and agronomic efficiency of applied P (AEP ) were 12.8% and 30.1 kg ha-1 , respectively. Lower soil pH (< 5.5) and organic matter (< 30.0 g kg-1 ) were associated with lower YRP and AEP . By contrast, soil available P < 25.0 mg kg-1 resulted in decreased YRP (15.3 to 11.4%) and AEP (32.3 kg kg-1 to 26.2 kg kg-1 ), whereas soil available P > 25.0 mg kg-1 maintained the relatively stable YRP and AEP . Also, the YRP and AEP were significantly higher for single-cropping rice compared to other cropping systems. Moreover, the rice genotypes such as 'Longdun', 'Kendao' and 'Jigeng' had higher YRP and AEP than the average value. Overall, the fertilizer-P rate was the primary factor affecting YRP and AEP , and the recommended P fertilizer rate can be reduced by 9-21 kg P ha-1 compared to existing expert recommendations.

CONCLUSION

The present study highlights the role of fertilizer-P rate in maximizing the YRP and AEP , thereby providing a strong basis for future fertilizer management in rice cultivation systems. © 2023 Society of Chemical Industry.

Effects of soil amendments on soil acidity and crop yields in acidic soils: A world-wide meta-analysis

Soil amendments, including lime, biochar, industrial by-products, manure, and straw are used to alleviate soil acidification and improve crop productivity. Quantitative insight in the effect of these amendments on soil pH is limited, hampering their appropriate use. Until now, there is no comprehensive evaluation of the effects of soil amendments on soil acidity and yield, accounting for differences in soil properties. We synthesized 832 observations from 142 papers to explore the impact of these amendments on crop yield, soil pH and soil properties, focusing on acidic soils with a pH value below 6.5. Application of lime, biochar, by-products, manure, straw and combinations of them significantly increased soil pH by 15%, 12%, 15%, 13%, 5% and 17%, and increased crop yield by 29%, 57%, 50%, 55%, 9%, and 52%, respectively. The increase of soil pH was positively correlated with the increase in crop yield, but the relationship varied among crop types. The most substantial increases in soil pH and yield in response to soil amendments were found under long-term applications (>6 year) in strongly acidic (pH < 5.0) sandy soils with a low cation exchange capacity (CEC, <100 mmolc kg-1) and low soil organic matter content (SOM, <12 g kg-1). Most amendments increased soil CEC, SOM and base saturation (BS) and decreased soil bulk density (BD), but lime application increased soil BD (1%) induced by soil compaction. Soil pH and yield were positively correlated with CEC, SOM and BS, while yield declined when soils became compacted. Considering the impact of the amendments on soil pH, soil properties and crop yield as well as their costs, the addition of lime, manure and straw seem most appropriate in acidic soils with an initial pH range from <5.0, 5.0-6.0 and 6.0-6.5, respectively.

Synergistic effect of β-sitosterol and biochar application for improving plant growth of Thymus vulgaris under heat stress

Climate change has become the global concern due to its drastic effects on the environment. Agriculture sector is the backbone of food security which remains at the disposal of climate change. Heat stress is the is the most concerning effect of climate change which negatively affect the plant growth and potential yields. The present experiment was conducted to assess the effects of exogenously applied β-sitosterol (Bs at 100 mg/L) and eucalyptus biochar (Eb at 5%) on the antioxidants and nutritional status in Thymus vulgaris under heat stressed conditions. The pot experiment was conducted in completely randomize design in which thymus plants were exposed to heat stress (33 °C) and as a result, plants showed a substantial decline in morpho-physiological and biochemical parameters e.g., a reduction of 59.46, 75.51, 100.00, 34.61, 22.65, and 38.65% was found in plant height, shoot fresh weight, root fresh weight, dry shoot weight, dry root weight and leaf area while in Bs + Eb + heat stress showed 21.16, 56.81, 67.63, 23.09, 12.84, and 35.89% respectively as compared to control. In the same way photosynthetic pigments, transpiration rate, plant nutritional values and water potential increased in plants when treated with Bs and Eb in synergy. Application of Bs and Eb significantly decreased the electrolytic leakage of cells in heat stressed thymus plants. The production of reactive oxygen species was significantly decreased while the synthesis of antioxidants increased with the application of Bs and Eb. Moreover, the application Bs and Eb increased the concentration of minerals nutrients in the plant body under heat stress. Our results suggested that application of Bs along with Eb decreased the effect of heat stress by maintaining nutrient supply and enhanced tolerance by increasing the production of photosynthetic pigments and antioxidant activity.

Potential mitigation of environmental impacts of intensive plum production in southeast China with maintenance of high yields: Evaluation using life cycle assessment

INTRODUCTION

Intensive plum production usually involves high yields but also high environmental costs due to excessive fertilizer inputs. Quantitative analysis of the environmental effects of plum production is thereby required in the development of optimum strategies to promote sustainable fruit production.

METHODS

We collected survey questionnaires from 254 plum production farms in Zhao'an county, Fujian province, southeast China to assess the environmental impacts by life cycle assessment (LCA) methodology. The farms were categorized into four groups based on yield and environmental impacts, i.e., LL (low yield and low environmental impact), LH (low yield but high environmental impact), HL (high yield but low environmental impact), and HH (high yield and high environmental impact).

RESULTS

The environmental impacts, i.e., average energy depletion, global warming, acidification, and eutrophication potential in plum production were 18.17 GJ ha^-1, 3.63 t CO₂ eq ha^-1, 42.18 kg SO₂ eq ha^-1, and 25.06 kg PO₄ eq ha^-1, respectively. Only 19.7% of farmers were in the HL group, with 13.3% in the HH group, 39.0% in LL, and 28.0% LH. Plum yields of the HL group were 109-114% higher than the mean value of all 254 farms. Additionally, the HL group had a lower environmental impact per unit area compared to the overall mean value, with a reduction ranging from 31.9% to 36.7%. Furthermore, on a per tonne of plum production basis, the energy depletion, global warming potential, acidification potential, and eutrophication potential of HL farms were lower by 75.4%, 75.0%, 75.6%, and 75.8%, respectively. Overall, the total environmental impact index of LL, LH, HL, and HH groups were 0.26, 0.42, 0.06, and 0.21, respectively.

DISCUSSION

Excessive fertilizer N application was the main source of the environmental impacts, the potential to reduce fertilizer N rate can be achieved without compromising plum yield by studying the HH group. The results provide an important foundation for enhancing the management of plum production, in order to promote 'green' agricultural development by reducing environmental impacts.

Corrigendum: Magnesium application improves the morphology, nutrients uptake, photosynthetic traits, and quality of tobacco (Nicotiana tabacum L.) under cold stress

[This corrects the article DOI: 10.3389/fpls.2023.1078128.].

Magnesium application improves the morphology, nutrients uptake, photosynthetic traits, and quality of tobacco (Nicotiana tabacum L.) under cold stress

Cold stress is one of the major constraints limiting the productivity of many important crops, including tobacco (Nicotiana tabacum L.) production and quality worldwide. However, the role of magnesium (Mg) nutrition in plants has been frequently overlooked, especially under cold stress, and Mg deficiency adversely affects plant growth and development. Here, we evaluated the influence of Mg under cold stress on tobacco morphology, nutrient uptake, photosynthetic and quality attributes. The tobacco plants were grown under different levels of cold stress, i.e., 8°C, 12°C, 16°C, including with a controlled temperature of 25°C, and evaluated their effects with Mg (+Mg) and without Mg (-Mg) application. Cold stress resulted in reduced plant growth. However, the +Mg alleviated the cold stress and significantly increased the plant biomass on an average of 17.8% for shoot fresh weight, 20.9% for root fresh weight, 15.7% for shoot dry weight, and 15.5% for root dry weight. Similarly, the nutrients uptake also increased on average for shoot-N (28.7%), root-N (22.4%), shoot-P (46.9%), root-P (7.2%), shoot-K (5.4%), root-K (28.9%), shoot-Mg (191.4%), root-Mg (187.2%) under cold stress with +Mg compared to -Mg. Mg application significantly boosted the photosynthetic activity (Pn 24.6%) and increased the chlorophyll contents (Chl-a (18.8%), Chl-b (25%), carotenoids (22.2%)) in the leaves under cold stress in comparison with -Mg treatment. Meanwhile, Mg application also improved the quality of tobacco, including starch and sucrose contents, on an average of 18.3% and 20.8%, respectively, compared to -Mg. The principal component analysis revealed that tobacco performance was optimum under +Mg treatment at 16°C. This study confirms that Mg application alleviates cold stress and substantially improves tobacco morphological indices, nutrient absorption, photosynthetic traits, and quality attributes. In short, the current findings suggest that Mg application may alleviate cold stress and improve tobacco growth and quality.

Soil moisture and pH differentially drive arbuscular mycorrhizal fungal composition in the riparian zone along an alpine river of Nam Co watershed

The riparian zone is an important ecological corridor connecting the upstream and downstream rivers. Its highly complex biological and physical environments significantly affect the biogeographical pattern of species and various ecosystem functions. However, in alpine riparian ecosystems, the distribution patterns and drivers of arbuscular mycorrhizal (AM) fungi, a group of functionally important root-associated microorganisms, remain poorly understood. In this study, we investigated the AM fungal diversity and community composition in near-bank (wetland) and far-bank (alpine meadows) soils along the Niaqu River in the Nam Co watershed, and assessed the relative importance of abiotic and biotic filtering in shaping these distributions. Overall, 184 OTUs were identified in the riparian ecosystem, predominantly belonging to the genus Glomus, especially in the downstream soils, and Claroideoglomus in near-bank soils. AM fungal colonization, spore density, and α diversity showed an overall increasing trend along the river, while the extraradical hyphae declined dramatically from the middle of the river. AM fungal communities significantly varied between the wetland and alpine meadows in the riparian zone, mainly driven by the geographic distance, soil water content, soil pH, and plant communities. Specifically, soil pH was the principal predictor of AM fungal community in near-bank wetland soils, while soil water content had a most substantial direct effect in alpine meadows. These findings indicate that abiotic factors are the most important divers in shaping AM fungal communities at the watershed scale, which could be helpful in alpine riparian biodiversity conservation and management.

Harnessing microbial multitrophic interactions for rhizosphere microbiome engineering

The rhizosphere is a narrow and dynamic region of plant root-soil interfaces, and it's considered one of the most intricate and functionally active ecosystems on the Earth, which boosts plant health and alleviates the impact of biotic and abiotic stresses. Improving the key functions of the microbiome via engineering the rhizosphere microbiome is an emerging tool for improving plant growth, resilience, and soil-borne diseases. Recently, the advent of omics tools, gene-editing techniques, and sequencing technology has allowed us to unravel the entangled webs of plant-microbes interactions, enhancing plant fitness and tolerance to biotic and abiotic challenges. Plants secrete signaling compounds with low molecular weight into the rhizosphere, that engage various species to generate a massive deep complex array. The underlying principle governing the multitrophic interactions of the rhizosphere microbiome is yet unknown, however, some efforts have been made for disease management and agricultural sustainability. This review discussed the intra- and inter- microbe-microbe and microbe-animal interactions and their multifunctional roles in rhizosphere microbiome engineering for plant health and soil-borne disease management. Simultaneously, it investigates the significant impact of immunity utilizing PGPR and cover crop strategy in increasing rhizosphere microbiome functions for plant development and protection using omics techniques. The ecological engineering of rhizosphere plant interactions could be used as a potential alternative technology for plant growth improvement, sustainable disease control management, and increased production of economically significant crops.

Differential response of bacterial diversity and community composition to different tree ages of pomelo under red and paddy soils

Rhizosphere soil microbial communities substantially impact plant growth by regulating the nutrient cycle. However, dynamic changes in soil microbiota under different tree ages have received little attention. In this study, changes in soil physicochemical properties, as well as bacterial diversity and community structures (by high-throughput Illumina MiSeq sequencing), were explored in pomelo trees of different ages (i.e., 10, 20, and 30 years) under red and paddy soils cultivated by farmers with high fertilizer input. Moreover, soil factors that shape the bacterial community, such as soil pH, AP (available phosphorous), AK (available potassium), and AN (available nitrogen), were also investigated. Results showed that pH significantly decreased, while AP, AK, and AN increased with increasing tree age under red soil. For paddy soil, pH was not changed, while AP was significantly lower under 10-year-old pomelo trees, and AK and AN contents were minimum under 30-year-old pomelo trees. Both soil types were dominated by Proteobacteria, Acidobacteria, and Actinobacteria and showed contrasting patterns of relative abundance under different tree age groups. Bacterial richness and diversity decreased with increasing tree age in both soil types. Overall, bacterial community composition was different under different tree ages. RDA analysis showed that soil pH, AP, and AN in red soil, and pH and AP in paddy soil showed the most significant effects in changing the bacterial community structure. A random forest model showed Sinomonas and Streptacidiphilus in red soil, while Actinoallomurus and Microbacterium in paddy soil were the most important genera explaining the differences among different age groups. The ternary plot further revealed that genera enrichment for Age_30 was higher than that for Age_10 and Age_20 in red soil, whereas specific genera enrichment decreased with increasing tree age under paddy soil. Co-occurrence network revealed that bacterial species formed a complex network structure with increasing tree age, indicating a more stable microbial association under 20 and 30 years than 10-year-old pomelo trees. Hence, contrasting patterns of changes in soil physicochemical properties and soil microbial communities were recorded under different tree ages, and tree ages significantly affected the bacterial community structure and richness. These findings provide valuable information regarding the importance of microbes for the sustainable management of pomelo orchards by optimizing fertilizer input for different ages of trees.

Pomelo Green Production on Acidic Soil: Reduce Traditional Fertilizers, but Do Not Ignore Magnesium

Orchards in acid soils are at risk of magnesium (Mg) deficiency which negatively affects the plant growth, yield, and quality. However, the impacts of Mg supplementation on fruit yield, quality, and environmental and economic benefits have only been rarely addressed. We conducted 15 pomelo (Citrus grandis L.) orchard trials in South China to assess more efficient integrated nutrient management (INM) practices, including local farmer fertilization practices (FP; average application rate of nitrogen, phosphorus, and potassium were 1,075 kg N ha−1, 826 kg P2O5 ha−1, and 948 kg K2O ha−1, respectively), optimum fertilization practice (OPT; average application rate of nitrogen, phosphorus, and potassium were 550 kg N ha−1, 295 kg P2O5 ha−1, and 498 kg K2O ha−1, respectively) and optimum fertilization supplemented with Mg (OPT+Mg; average application rate of Mg was 196 kg MgO ha−1). The results showed that the yield, total soluble solid-to-titratable acidity ratio, and economic benefits under OPT practice were not significantly different from those of FP, while those of OPT+Mg were significantly higher than those of FP, by 8.76, 8.79, and 15.00%, respectively, while titratable acidity contents were significantly lower by 7.35%. In addition, compared with those from FP, the energy inputs and greenhouse gas (GHG) emissions from OPT were 31.00 and 26.48% lower, and those from OPT+Mg were 26.71 and 23.40% lower, respectively. Compared with those of OPT, the marginal efficiency of energy, GHG emissions, and capital of Mg under OPT+Mg were reduced by 62.30, 44.19, and 21.07%, respectively. Overall, adopting OPT+Mg for pomelo production could further enhance yield, fruit quality, and economic benefits while reducing the environmental burdens.

Soil pH: a key edaphic factor regulating distribution and functions of bacterial community along vertical soil profiles in red soil of pomelo orchard

Background

Soil microbes exist throughout the soil profile and those inhabiting topsoil (0–20 cm) are believed to play a key role in nutrients cycling. However, the majority of the soil microbiology studies have exclusively focused on the distribution of soil microbial communities in the topsoil, and it remains poorly understood through the subsurface soil profile (i.e., 20–40 and 40–60 cm). Here, we examined how the bacterial community composition and functional diversity changes under intensive fertilization across vertical soil profiles [(0–20 cm (RS1), 20–40 cm (RS2), and 40–60 cm (RS3)] in the red soil of pomelo orchard, Pinghe County, Fujian, China.

Results

Bacterial community composition was determined by 16S rRNA gene sequencing and interlinked with edaphic factors, including soil pH, available phosphorous (AP), available nitrogen (AN), and available potassium (AK) to investigate the key edaphic factors that shape the soil bacterial community along with different soil profiles. The most dominant bacterial taxa were Proteobacteria, Acidobacteria, Actinobacteria, Chloroflexi, Crenarchaeota, and Bacteriodetes. Bacterial richness and diversity was highest in RS1 and declined with increasing soil depth. The distinct distribution patterns of the bacterial community were found across the different soil profiles. Besides, soil pH exhibited a strong influence (pH ˃AP ˃AN) on the bacterial communities under all soil depths. The relative abundance of Proteobacteria, Actinobacteria, Crenarchaeota, and Firmicutes was negatively correlated with soil pH, while Acidobacteria, Chloroflexi, Bacteriodetes, Planctomycetes, and Gemmatimonadetes were positively correlated with soil pH. Co-occurrence network analysis revealed that network topological features were weakened with increasing soil depth, indicating a more stable bacterial community in the RS1. Bacterial functions were estimated using FAPROTAX and the relative abundance of functional bacterial community related to metabolic processes, including C-cycle, N-cycle, and energy production was significantly higher in RS1 compared to RS2 and RS3, and soil pH had a significant effect on these functional microbes.

Conclusions

This study provided the valuable findings regarding the structure and functions of bacterial communities in red soil of pomelo orchards, and highlighted the importance of soil depth and pH in shaping the soil bacterial population, their spatial distribution and ecological functioning. These results suggest the alleviation of soil acidification by adopting integrated management practices to preserve the soil microbial communities for better ecological functioning.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12866-022-02452-x.

Phylogenetic Correlation and Symbiotic Network Explain the Interdependence Between Plants and Arbuscular Mycorrhizal Fungi in a Tibetan Alpine Meadow

Plants and arbuscular mycorrhizal fungi (AMF) can form complex symbiotic networks based on functional trait selection, contributing to the maintenance of ecosystem biodiversity and stability. However, the selectivity of host plants on AMF and the characteristics of plant-AMF networks remain unclear in Tibetan alpine meadows. In this study, we studied the AMF communities in 69 root samples from 23 plant species in a Tibetan alpine meadow using Illumina-MiSeq sequencing of the 18S rRNA gene. The results showed a significant positive correlation between the phylogenetic distances of plant species and the taxonomic dissimilarity of their AMF community. The plant-AMF network was characterized by high connectance, high nestedness, anti-modularity, and anti-specialization, and the phylogenetic signal from plants was stronger than that from AMF. The high connected and nested plant-AMF network potentially promoted the interdependence and stability of the plant-AMF symbioses in Tibetan alpine meadows. This study emphasizes that plant phylogeny and plant-AMF networks play an important role in the coevolution of host plants and their mycorrhizal partners and enhance our understanding of the interactions between aboveground and belowground communities.

Deciphering distinct biological control and growth promoting potential of multi-stress tolerant Bacillus subtilis PM32 for potato stem canker

Plant growth-promoting rhizobacteria (PGPR) represent a set of microorganisms that play significant role in improving plant growth and controlling the phytopathogens. Unpredictable performance after the application of PGPR has been observed when these were shifted from in-vitro to in-vivo conditions due to the prevalence of various abiotic stress conditions. During growing period, the potato crop is subjected to a combination of biotic and abiotic stresses. Rhizoctonia solani, a soil-borne plant pathogen, causes reduced vigor and yield of potato crop worldwide. In the current study, multi-stress-tolerant rhizobacterial strain, Bacillus subtilis PM32, was isolated from field-grown potato with various plant growth promoting (PGP) traits including zinc and potassium solubilization, biological nitrogen fixation, ammonia and siderophore, as well as extracellular enzyme productions (cellulase, catalase, amylase, protease, pectinase, and chitinase). The strain PM32 exhibited a distinct potential to support plant growth by demonstrating production of indole-3-acetic acid (102.6 μM/mL), ACC-deaminase activity (1.63 μM of α-ketobutyrate/h/mg protein), and exopolysaccharides (2.27 mg/mL). By retarding mycelial growth of R. solani the strain PM32 drastically reduced pathogenicity of R. solani. The strain PM32 also suppressed the pathogenic activity significantly by impeding mycelial expansion of R. solani with inhibition co-efficient of 49.87. The B. subtilis PM32 also depicted significant tolerance towards salt, heavy metal (Pb), heat and drought stress. PCR based amplification of ituC and acds genes coding for iturin and ACC-deaminase activity respectively indicated potential of strain PM32 for lipopeptides production and ACC deaminase enzyme activity. Results of both in-vitro and pot experiments under greenhouse conditions depicted the efficiency of B. subtilis PM32 as a promising bio-control agent for R. solani infection together with enhanced growth of potato plants as deciphered from biomass accumulation, chlorophyll a, b, and carotenoid contents. Therefore, it was envisioned that application of indigenous multi-stress tolerant PGPR may serve to induce biotic and abiotic stress tolerance in crops/plants for pathogen control and sustainable global food supply.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s12298-021-01067-2.

Response of Fungal Diversity, Community Composition, and Functions to Nutrients Management in Red Soil

Soil fungi play a critical role in plant performance and soil nutrient cycling. However, the understanding of soil fungal community composition and functions in response to different nutrients management practices in red soils remains largely unknown. Here, we investigated the responses of soil fungal communities and functions under conventional farmer fertilization practice (FFP) and different nutrient management practices, i.e., optimization of NPK fertilizer (O) with soil conditioner (O + C), with lime and mushroom residue (O + L + M), and with lime and magnesium fertilizer (O + L + Mg). Illumina high-throughput sequencing was used for fungal identification, while the functional groups were inferred with FUNGuild. Nutrient management practices significantly raised the soil pH to 4.79–5.31 compared with FFP (3.69), and soil pH had the most significant effect (0.989 ***) on fungal communities. Predominant phyla, including Ascomycota, Basidiomycota, and Mortierellomycota were identified in all treatments and accounted for 94% of all fungal communities. The alpha diversity indices significantly increased under nutrients management practices compared with FFP. Co-occurrence network analysis revealed the keystone fungal species in the red soil, i.e., Ascomycota (54.04%), Basidiomycota (7.58%), Rozellomycota (4.55%), and Chytridiomycota (4.04%). FUNGuild showed that the relative abundance of arbuscular mycorrhizal fungi and ectomycorrhizal fungi was higher, while pathogenic fungi were lower under nutrient management practices compared with FFP. Our findings have important implications for the understanding of improvement of acidic soils that could significantly improve the soil fungal diversity and functioning in acidic soils.

Response of Soil Fungal Diversity and Community Composition to Varying Levels of Bamboo Biochar in Red Soils

Soil fungi play a vital role in soil nutrient dynamics, but knowledge of their diversity and community composition in response to biochar addition into red soil is either limited or inconsistent. Therefore, we determined the impact of bamboo biochar (BB) with increasing concentrations (0, 5, 20, and 80 g kg⁻¹ of soil, referred to as B0, BB5, BB20, and BB80, respectively) on soil physicochemical properties and fungal communities (Illumina high-throughput sequencing) in red soil under Fokenia hodginsii (Fujian cypress). We found that increasing BB levels effectively raised the soil pH and soil nutrients, particularly under BB80. BB addition significantly increased the relative abundance of important genera, i.e., Basidiomycota, Mucoromycota, and Chytridiomycota that could play a key role in ecological functioning, e.g., wood degradation and litter decomposition, improvement in plant nutrients uptake, and resistance to several abiotic stress factors. Soil amended with BB exhibited a substantial ability to increase the fungal richness and diversity; BB80 > BB20 > BB5 > B0. Basidiomycota, Mucoromycota, Glomeromycota, Rozellomycota, Aphelidiomycota, Kickxellomycota, and Planctomycetes were positively associated with soil pH, total nitrogen, phosphorous, and carbon, and available potassium and phosphorous. Besides, the correlation analysis between the soil fungal communities and soil properties also showed that soil pH was the most influential factor in shaping the soil fungal communities in the red soil. These findings have significant implications for a comprehensive understanding of how to ameliorate acidic soils with BB addition, as well as for future research on sustainable forest management, which might increase soil fungi richness, diversity, and functionality in acidic soils.

Formation of Common Mycorrhizal Networks Significantly Affect Plant Biomass and Soil Properties of the Neighboring Plants under Various Nitrogen Levels

Common mycorrhizal networks (CMNs) allow the transfer of nutrients between plants, influencing the growth of the neighboring plants and soil properties. Cleistogene squarrosa (C. squarrosa) is one of the most common grass species in the steppe ecosystem of Inner Mongolia, where nitrogen (N) is often a key limiting nutrient for plant growth, but little is known about whether CMNs exist between neighboring individuals of C. squarrosa or play any roles in the N acquisition of the C. squarrosa population. In this study, two C. squarrosa individuals, one as a donor plant and the other as a recipient plant, were planted in separate compartments in a partitioned root-box. Adjacent compartments were separated by 37 µm nylon mesh, in which mycorrhizal hyphae can go through but not roots. The donor plant was inoculated with arbuscular mycorrhizal (AM) fungi, and their hyphae potentially passed through nylon mesh to colonize the roots of the recipient plant, resulting in the establishment of CMNs. The formation of CMNs was verified by microscopic examination and 15N tracer techniques. Moreover, different levels of N fertilization (N0 = 0, N1 = 7.06, N2 = 14.15, N3 = 21.19 mg/kg) were applied to evaluate the CMNs' functioning under different soil nutrient conditions. Our results showed that when C. squarrosa-C. squarrosa was the association, the extraradical mycelium transferred the 15N in the range of 45-55% at different N levels. Moreover, AM fungal colonization of the recipient plant by the extraradical hyphae from the donor plant significantly increased the plant biomass and the chlorophyll content in the recipient plant. The extraradical hyphae released the highest content of glomalin-related soil protein into the rhizosphere upon N2 treatment, and a significant positive correlation was found between hyphal length and glomalin-related soil proteins (GRSPs). GRSPs and soil organic carbon (SOC) were significantly correlated with mean weight diameter (MWD) and helped in the aggregation of soil particles, resulting in improved soil structure. In short, the formation of CMNs in this root-box experiment supposes the existence of CMNs in the typical steppe plants, and CMNs-mediated N transfer and root colonization increased the plant growth and soil properties of the recipient plant.

Effects of polyether ionophores on the protective immune responses of broiler chickens against Angara disease and Newcastle disease viruses

Immunization against Angara disease virus (ADV), a serotype 4 avian adenovirus, and Newcastle disease virus (NDV), an avian paramyxovirus serotype 1, is the mainstay of a broiler vaccination programme, while polyether ionophores usually form an essential component of a broiler medication programme in most parts of India and Pakistan. The role of polyether ionophores in the protective immune responses of broiler chickens vaccinated and challenged with ADV and NDV was investigated. A total of 1600 birds were divided into eight groups of 200 birds each. First four groups were vaccinated against NDV and ADV, while the remaining four served as unvaccinated controls. The first 3 groups of birds were administered salinomycin, monensin and cyclophosphamide (CYP), respectively. The last group served as an untreated control. The same treatment schedule was also followed for the next four unvaccinated groups. The post-vaccination and post-challenge serological responses to NDV and ADV, body and lymphoid organ weight gains, post-challenge survival rate and detection of NDV and ADV in the tissues of infected birds were evaluated. Birds administered salinomycin showed a significant stimulation of protective immune responses against both NDV and ADV as compared to the untreated and CYP-treated birds. Monensin also enhanced the protective immune responses against both viruses but the effect was not statistically significant. Thus, it is concluded that monensin and salinomycin augment the anti-NDV and anti-ADV immune responses in broiler chickens, which supports their use in poultry flocks.

Identification of the antigenic components of the virulent Mycoplasma gallisepticum (R) in chickens: their role in differentiation from the vaccine strain (F)

The antibody response to different proteins of Mycoplasma gallisepticum (MG) was studied in chickens experimentally infected with virulent MG R strain. The chickens were challenged at 8 weeks of age by the intranasal route. Each cockerel received 1.3 X 10(6) colony-forming units (CFU). MG strains (R and F) were banded by Sodium Dodecyl Sulfate-Polyacrylamide Gel Electrophoresis (SDS-PAGE). The banding pattern was distinctively different between the two strains in the range of 92.5 to 200 kilodaltons (kD). Chicken sera collected at different times following challenge were analyzed by Western blot to determine the patterns of antibodies raised to specific MG proteins (R versus F strains). Early in infection (2 weeks postchallenge), antibodies to 60-kD and 75-kD polypeptides of MG R strain were produced. Subsequently (greater than or equal to 4 weeks postchallenge), antibodies recognized a larger number of MG antigens in both strains. The immunoblot patterns remained the same in the period 8-11 weeks postinfection in each of the two strains; however, the patterns were different when the two strains were compared. The early response recognized the 75-kD protein in the R strain while it recognized the 80-kD protein in the F strain. The late response recognized the 130-kD protein and the protein slightly heavier than 200 kD in the R strain. These two bands did not appear in the immunoblot performed against the F strain of MG. Electroeluted protein of MG R strain, namely adhesin (75 kD), showed a hemagglutination activity (HA) on chicken red blood cells. With the appearance of antibodies specific to the 60-kD and 75-kD polypeptides, there was a significant rise in hemagglutination-inhibition geometric mean titer of chicken sera.

Efficacy of infectious bronchitis virus vaccines against heterologous challenge

Twenty-four-week-old white Leghorn layers were inoculated subcutaneously with a killed Newcastle disease-infectious bronchitis (Massachusetts type) virus (MIBV) vaccine. Twenty-eight weeks after vaccination, the birds were challenged intraocularly with the Arkansas strain of infectious bronchitis virus (AIBV) to determine the effects of heterologous virus exposure on egg production, egg quality and serum antibody response of the birds. The challenged hens laid significantly (P less than 0.005) fewer eggs than the unchallenged layers. Eggs laid by the unchallenged groups weighed significantly more (P less than 0.005) than those laid by the challenged groups. Further, the internal quality (Haugh units) and shell quality of eggs laid by the AIBV-challenged hens was significantly (P less than 0.005) inferior to those from the unchallenged hens. In addition, the AIBV-challenged hens laid more soft-shell, misshapen and small eggs than the unchallenged hens. The Arkansas serum haemagglutination inhibition (AIBV-HI) titres of AIBV challenged birds increased up to four weeks after challenge. The corresponding MIBV haemagglutination-inhibition (MIBV-HI) titres decreased during the same period. The study indicates that killed MIBV vaccine offered no protection to birds exposed to heterologous AIBV.

Efficacy of infectious bronchitis virus vaccines against heterologous challenge

Twenty-four-week-old white Leghorn layers were inoculated subcutaneously with a killed Newcastle disease-infectious bronchitis (Massachusetts type) virus (mibv) vaccine. Twenty-eight weeks after vaccination, the birds were challenged intraocularly with the Arkansas strain of infectious bronchitis virus (aibv) to determine the effects of heterologous virus exposure on egg production, egg quality and serum antibody response of the birds. The challenged hens laid significantly (P<0·005) fewer eggs than the unchallenged layers. Eggs laid by the unchallenged groups weighed significantly more (P<0·005) than those laid by the challenged groups. Further, the internal quality (Haugh units) and shell quality of eggs laid by the aibv-challenged hens was significantly (P<0·005) inferior to those from the unchallenged hens. In addition, the aibv-challenged hens laid more soft-shell, misshapen and small eggs than the unchallenged hens. The Arkansas serum haemagglutination inhibition (aibv-hi) titres of aibv challenged birds increased up to four weeks after challenge. The corresponding mibv haemagglutination-inhibition (mibv-hi) titres decreased during the same period. The study indicates that killed mibv vaccine offered no protection to birds exposed to heterologous aibv.

Detection of parvoviruses in wolf feces by electron microscopy

One hundred fifteen wolf (Canis lupus) feces were collected between 1980 and 1984 from northeastern Minnesota and were examined for canine parvovirus by negative contrast electron microscopy. Of these, seven (6%) samples revealed the presence of parvovirus. Some of these viruses were able to grow in cell cultures forming intranuclear inclusion bodies and giant cells.

A dot-immunobinding assay for infectious bronchitis virus

Common Whatman filter paper grade 1 and nitrocellulose membrane were compared for their sensitivity in a dot-immunobinding assay for detection of serum antibody titers to Arkansas avian infectious bronchitis virus (AIBV). For a blue to purple color detection, serum antibodies were bound to AIBV antigen adsorbed on the filter-paper discs or nitrocellulose membrane. Rabbit anti-chicken IgG horseradish-peroxidase (HRP) conjugate and hydrogen peroxide with 4-chloro-1-naphthol (HRP-color development reagent) were applied. The study indicates that very small amounts of antigen/antisera are needed for the dot-immunobinding assay. The test is sensitive, economical, and easy to run and can be completed within 6-8 hours.

Effects of avian infectious bronchitis virus (Arkansas strain) on vaccinated laying chickens

Twenty-four-week-old white leghorn layers were inoculated subcutaneously with a killed Newcastle-infectious bronchitis (Massachusetts type) virus (MIBV) vaccine. The birds were challenged 194 days later intraocularly with Arkansas strain of infectious bronchitis virus (AIBV). The challenged hens laid significantly (P less than 0.005) fewer eggs than the unchallenged layers, and the eggs laid by the challenged groups weighed significantly less (P less than 0.001) than those laid by the unchallenged groups. Further, the internal quality (Haugh units) and shell quality of eggs laid by the challenged hens were significantly (P less than 0.005) inferior to the quality of eggs from unchallenged hens, and the challenged hens laid more soft-shelled, misshapen, and small-sized eggs than the unchallenged hens. The Arkansas serum hemagglutination-inhibition (AIBV-HI) titers of challenged birds increased continuously through 29 days post-challenge. The MIBV hemagglutination-inhibition (MIBV-HI) titers of killed-MIBV-vaccinated birds decreased during the same period. The study indicates that killed MIBV vaccine offered no protection to birds exposed to AIBV. The same vaccine was quite effective against a homologous (MIBV) virus challenge.

Antibodies to avian infectious bronchitis virus in Pakistani chickens

Using the hemagglutination inhibition test, sera from 20 diseased and 3 apparently healthy chicken flocks in Pakistan were examined for antibodies to four types of avian infectious bronchitis virus (AIBV). These flocks were not vaccinated against AIBV. Of the 900 serum samples from diseased flocks, 78 (8.7%) had antibodies to the Massachusetts (M41) type, 23 (2.6%) to the Arkansas type and 20 (2.2%) to the Connecticut type of AIBV. None had antibodies to the JMK type. None of the sera (n = 100) from apparently healthy layers was positive to any of the four AIBV types tested. Some of the birds with antibody titers exhibited no signs of illness except that they laid pale colored eggs or had a history of poor hatchability. These results indicate that at least three AIBV types are circulating in chicken flocks in Pakistan.

Effects of infectious bronchitis virus (Arkansas strain) on laying chickens

Seventy-seven-week-old white leghorn layers were inoculated intraocularly with the Arkansas strain of infectious bronchitis virus (AIBV) to study the effects of the virus on egg production and on antibody response of the birds. Infected hens laid fewer eggs than the controls, and those eggs weighed less than eggs laid by controls. Further, the shell quality and internal quality of eggs laid by infected birds were inferior. The serum hemagglutination-inhibition (HI) titers of infected birds increased continuously through 4 weeks postinfection; serum HI titers of the controls were negligible.