scholarly journals Root-Associated Endophytic Bacterial Community Composition of Pennisetum sinese from Four Representative Provinces in China

2019 ◽  
Vol 7 (2) ◽  
pp. 47 ◽  
Author(s):  
Zhen-Shan Deng ◽  
Bao-Cheng Zhang ◽  
Xiang-Ying Qi ◽  
Zhi-Hong Sun ◽  
Xiao-Long He ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Community Composition ◽  
Endophytic Bacteria ◽  
Growth Promotion ◽  
Bacterial Community Composition ◽  
Shannon Index ◽  
Plant Production ◽  
Total Carbon ◽  
Shaanxi Province ◽  
Endophytic Bacterial Community

Pennisetum sinese, a source of bio-energy with high biomass production, is a species that contains high crude protein and will be useful for solving the shortage of forage grass after the implementation of “Green for Grain” project in the Loess plateau of Northern Shaanxi in 1999. Plants may receive benefits from endophytic bacteria, such as the enhancement of plant growth or the reduction of plant stress. However, the composition of the endophytic bacterial community associated with the roots of P. sinese is poorly elucidated. In this study, P. sinese from five different samples (Shaanxi province, SX; Fujian province, FJ; the Xinjiang Uyghur autonomous prefecture, XJ and Inner Mongolia, including sand (NS) and saline-alkali land (NY), China) were investigated by high-throughput next-generation sequencing of the 16S rDNA V3-V4 hypervariable region of endophytic bacteria. A total of 313,044 effective sequences were obtained by sequencing five different samples, and 957 effective operational taxonomic units (OTUs) were yielded at 97% identity. The phylum Proteobacteria, the classes Gammaproteobacteria and Alphaproteobacteria, and the genera Pantoea, Pseudomonas, Burkholderia, Arthrobacter, Psychrobacter, and Neokomagataea were significantly dominant in the five samples. In addition, our results demonstrated that the Shaanxi province (SX) sample had the highest Shannon index values (3.795). We found that the SX (308.097) and NS (126.240) samples had the highest and lowest Chao1 richness estimator (Chao1) values, respectively. Venn graphs indicated that the five samples shared 39 common OTUs. Moreover, according to results of the canonical correlation analysis (CCA), soil total carbon, total nitrogen, effective phosphorus, and pH were the major contributing factors to the difference in the overall composition of the bacteria community in this study. Our data provide insights into the endophytic bacteria community composition and structure of roots associated with P. sinese. These results might be useful for growth promotion in different samples, and some of the strains may have the potential to improve plant production in future studies.

scholarly journals The Effects of Pavement Types on Soil Bacterial Communities across Different Depths

2019 ◽  
Vol 16 (10) ◽  
pp. 1805 ◽  
Author(s):  
Weiwei Yu ◽  
Yinhong Hu ◽  
Bowen Cui ◽  
Yuanyuan Chen ◽  
Xiaoke Wang
Keyword(s):  
Bacterial Community ◽  
Community Composition ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Shannon Index ◽  
Soil Bacterial Community ◽  
Total Carbon ◽  
Bacterial Composition ◽  
Soil Bacterial ◽  
Micro Organisms

Pavements have remarkable effects on topsoil micro-organisms, but it remains unclear how subsoil microbial communities respond to pavements. In this study, ash trees (Fraxinus Chinensis) were planted on pervious pavement (PP), impervious pavement (IPP), and non-pavement (NP) plots. After five years, we determined the soil bacterial community composition and diversity by high-throughput sequencing of the bacterial 16S rRNA gene. The results of our field experiment reveal that the presence of pavement changed soil bacterial community composition and decreased the Shannon index, but had no impact on the Chao 1 at the 0–20 cm layer. However, we achieved the opposite result at a depth of 20–80 cm. Furthermore, there was a significant difference in bacterial community composition using the Shannon index and the Chao 1 at the 80–100 cm layer. Soil total carbon (TC), total nitrogen (TN), available phosphorus (AP), NO3−-N, and available potassium (AK) were the main factors that influenced soil bacterial composition and diversity across different pavements. Soil bacterial composition and diversity had no notable difference between PP and IPPs at different soil layers. Our results strongly indicate that pavements have a greater impact on topsoil bacterial communities than do subsoils, and PPs did not provide a better habitat for micro-organisms when compared to IPPs in the short term.

scholarly journals Insights into the Endophytic Bacterial Community Comparison and their Potential Role in the Dimorphic Seeds of Halophyte Suaeda Glauca

2021 ◽  
Author(s):  
Hongfei Wang ◽  
Manik Prabhu Narsing Rao ◽  
Yanli Gao ◽  
Xinyang Li ◽  
Rui Gao ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Community Composition ◽  
Seed Coat ◽  
Bacterial Communities ◽  
Endophytic Bacteria ◽  
Ecological Adaptation ◽  
Endophytic Bacterial Community ◽  
Suaeda Glauca ◽  
Black Seeds ◽  
Disturbed Environment

Abstract Background: The seed dimorphism was thought to be a bet-hedging strategy, which assists plants to survive in the disturbed environment and has been widely studied for their ecological adaptation mechanism. Many studies showed that seed-associated microorganisms play an important role in enhancing plant fitness, but information regarding endophytic bacteria associated with dimorphic seeds is limited. This study explores the influence of seed coat structure and seed phytochemical properties on the community composition and diversity of endophytic bacteria of dimorphic seeds of Suaeda glauca. In the present study, we firstly used 16S rRNA high-throughput gene sequencing method to compare the bacterial diversity and community composition between brown and black seeds of Suaeda glauca. Results: A significant difference was observed in seed coat structure and phytochemical properties between brown and black seeds of S. glauca. Total 9 phyla, 13 classes, 31 orders, 53 families, 102 genera were identified in the dimorphic seeds. The dominant phyla were Proteobacteria, Firmicutes, and Actinobacteria. The results showed that seed dimorphism had little impact on the diversity and richness of endophytic bacterial communities but significantly differs in the relative abundance of the bacterial community between brown and black seeds. At the phylum level, Actinobacteria tend to be enriched significantly in brown seeds. At the genus level, Rhodococcus, Ralstonia, Pelomonas and Bradyrhizobium tend to be enriched significantly in brown seeds, while Marinilactibacillus was mainly found in black seeds. Besides, brown seeds harbored a large number of bacteria with plant-growth-promoting traits, whereas black seeds presented bacteria with enzyme activities (i.e. pectinase, cellulolytic and xylanolytic activities). Conclusion: The endophytic bacterial community compositions were significantly different between dimorphic seeds of Suaeda glauca, and play an important role in the ecological adaptation of dimorphic seeds by performing different bacterial function roles. The endophytic bacterial communities of the dimorphic seeds might be influenced mainly by the seed coat structure and partly by seed phytochemical characteristics. These findings provide valuable information for better understanding of the ecological adaptation strategy of dimorphic seeds in the disturbed environment.

scholarly journals Differential mechanisms underlying responses of soil bacterial and fungal communities to nitrogen and phosphorus inputs in a subtropical forest

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e7631 ◽  
Author(s):  
Yong Li ◽  
Dashuan Tian ◽  
Jinsong Wang ◽  
Shuli Niu ◽  
Jing Tian ◽  
...  
Keyword(s):  
Species Richness ◽  
Bacterial Community ◽  
Community Composition ◽  
Fungal Community ◽  
Bacterial Community Composition ◽  
Shannon Index ◽  
Subtropical Forest ◽  
Fungal Community Composition ◽  
Soil Bacterial ◽  
P Addition

Atmospheric nitrogen (N) deposition and phosphorus (P) addition both can change soil bacterial and fungal community structure with a consequent impact on ecosystem functions. However, which factor plays an important role in regulating responses of bacterial and fungal community to N and P enrichments remains unclear. We conducted a manipulative experiment to simulate N and P inputs (10 g N · m−2 · yr−1 NH4NO3 or 10 g P · m−2 · yr−1 NaH2PO4) and compared their effects on soil bacterial and fungal species richness and community composition. The results showed that the addition of N significantly increased NH4+ and Al3+ by 99.6% and 57.4%, respectively, and consequently led to a decline in soil pH from 4.18 to 3.75 after a 5-year treatment. P addition increased Al3+ and available P by 27.0% and 10-fold, respectively, but had no effect on soil pH. N addition significantly decreased bacterial species richness and Shannon index and resulted in a substantial shift of bacterial community composition, whereas P addition did not. Neither N nor P addition changed fungal species richness, Shannon index, and fungal community composition. A structural equation model showed that the shift in bacterial community composition was related to an increase in soil acid cations. The principal component scores of soil nutrients showed a significantly positive relationship with fungal community composition. Our results suggest that N and P additions affect soil bacterial and fungal communities in different ways in subtropical forest. These findings highlight how the diversity of microbial communities of subtropical forest soil will depend on future scenarios of anthropogenic N deposition and P enrichment, with a particular sensitivity of bacterial community to N addition.

scholarly journals Root-associated endophytic bacterial community composition and structure of three medicinal licorices and their changes with the growing year

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Hanli Dang ◽  
Tao Zhang ◽  
Guifang Li ◽  
Yudi Mu ◽  
Xinhua Lv ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Bioactive Compounds ◽  
Endophytic Bacteria ◽  
Abiotic Factors ◽  
Bacterial Community Composition ◽  
Licorice Root ◽  
Leaf Water Content ◽  
Total Flavonoids ◽  
Composition And Structure ◽  
Endophytic Bacterial Community

Abstract Background The dried roots and rhizomes of medicinal licorices are widely used worldwide as a traditional medicinal herb, which are mainly attributed to a variety of bioactive compounds that can be extracted from licorice root. Endophytes and plants form a symbiotic relationship, which is an important source of host secondary metabolites. Results In this study, we used high-throughput sequencing technology and high-performance liquid chromatography to explore the composition and structure of the endophytic bacterial community and the content of bioactive compounds (glycyrrhizic acid, liquiritin and total flavonoids) in different species of medicinal licorices (Glycyrrhiza uralensis, Glycyrrhiza glabra, and Glycyrrhiza inflata) and in different planting years (1–3 years). Our results showed that the contents of the bioactive compounds in the roots of medicinal licorices were not affected by the species, but were significantly affected by the main effect growing year (1–3) (P < 0.05), and with a trend of stable increase in the contents observed with each growing year. In 27 samples, a total of 1,979,531 effective sequences were obtained after quality control, and 2432 effective operational taxonomic units (OTUs) were obtained at 97% identity. The phylum Proteobacteria, Actinobacteria, Bacteroidetes and Firmicutes, and the genera unified-Rhizobiaceae, Pseudomonas, Novosphingobium, and Pantoea were significantly dominant in the 27 samples. Distance-based redundancy analysis (db-RDA) showed that the content of total flavonoids explained the differences in composition and distribution of endophytic bacterial communities in roots of cultivated medicinal liquorices to the greatest extent. Total soil salt was the most important factor that significantly affected the endophytic bacterial community in soil factors, followed by ammonium nitrogen and nitrate nitrogen. Among the leaf nutrition factors, leaf water content had the most significant effect on the endophytic bacterial community, followed by total phosphorus and total potassium. Conclusions This study not only provides information on the composition and distribution of endophytic bacteria in the roots of medicinal licorices, but also reveals the influence of abiotic factors on the community of endophytic bacteria and bioactive compounds, which provides a reference for improving the quality of licorice.

scholarly journals Changes in Soil Properties and Bacterial Community Composition with Biochar Amendment after Six Years

Agronomy ◽  
2020 ◽  
Vol 10 (5) ◽  
pp. 746
Author(s):  
Shuxiu Fan ◽  
Jiacheng Zuo ◽  
Hangyu Dong
Keyword(s):  
Bacterial Community ◽  
Soil Properties ◽  
Community Composition ◽  
Soil Ph ◽  
Relative Abundance ◽  
Bacterial Community Composition ◽  
Soil Characteristics ◽  
Total Carbon ◽  
Available Phosphorus ◽  
Biochar Amendment

Changes in soil physicochemical properties and bacterial community composition were investigated six years after biochar amendment at 0%, 4%, 8% and 12% (w/w), which were coded as C0, C1, C2 and C3, respectively. Results showed that some soil characteristics were sustainable, as they were still affected by biochar addition after six years. Compared to the control, biochar-treated soils had higher pH, total carbon (TC), C/N, total nitrogen (TN), available phosphorus (AP) and available potassium (AK). Soil pH, C/N and the content of TC, TN and AK all increased along with the increase of biochar dosage. The results of Illumina MiSeq sequencing demonstrated that biochar enhanced soil bacteria diversity and modified the community composition over time. The relative abundance of Nitrospirae and Verrucomicrobia phylum increased but that of Acidobacteria phylum decreased significantly in biochar amended soils. The addition of biochar also enriched some bacterial genera, such as uncultured Nitrosomonadace, uncultured Gemmatimonadac, uncultured Nitrospiraceae and Magnetovibrio. In particular, the relative abundance of uncultured Nitrospiraceae was enhanced by 16.9%, 42.8% and 73.6% in C1, C2 and C3, respectively, compared to C0. Biochar has a potential role in enhancing the abundance of bacteria involved in N cycling. Soil pH, TC, TN, TK and AK, were closely related to alterations in the composition of the soil bacterial community. Meanwhile, these soil properties were significantly influenced by biochar amendment, which indicates that biochar affected the soil microbial community indirectly by altering the soil characteristics in the long term.

scholarly journals Insights into the endophytic bacterial community comparison and their potential role in the dimorphic seeds of halophyte Suaeda glauca

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Hongfei Wang ◽  
Manik Prabhu Narsing Rao ◽  
Yanli Gao ◽  
Xinyang Li ◽  
Rui Gao ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Community Composition ◽  
Seed Coat ◽  
Bacterial Communities ◽  
Endophytic Bacteria ◽  
Ecological Adaptation ◽  
Endophytic Bacterial Community ◽  
Suaeda Glauca ◽  
Black Seeds ◽  
Disturbed Environment

Abstract Background Seed dimorphism has been thought to be a bet-hedging strategy that helps plants survive in the disturbed environment and has been widely studied for its ecological adaptation mechanism. Many studies showed that seed-associated microorganisms play an important role in enhancing plant fitness, but information regarding endophytic bacteria associated with dimorphic seeds is limited. This study explores the influence of seed coat structure and seed phytochemical properties on the community composition and diversity of endophytic bacteria of dimorphic seeds of Suaeda glauca. In this study, we used 16S rRNA high-throughput gene sequencing method to compare the community composition and bacterial diversity between brown and black seeds of Suaeda glauca. Results A significant difference was observed in seed coat structure and phytochemical properties between brown and black seeds of S. glauca. Total 9 phyla, 13 classes, 31 orders, 53 families, 102 genera were identified in the dimorphic seeds. The dominant phyla were Proteobacteria, Firmicutes, and Actinobacteria. The results showed that seed dimorphism had little impact on the diversity and richness of endophytic bacterial communities but significantly differs in the relative abundance of the bacterial community between brown and black seeds. At the phylum level, Actinobacteria tend to be enriched significantly in brown seeds. At the genus level, Rhodococcus, Ralstonia, Pelomonas and Bradyrhizobium tend to be enriched significantly in brown seeds, while Marinilactibacillus was mainly found in black seeds. Besides, brown seeds harbored a large number of bacteria with plant-growth-promoting traits, whereas black seeds presented bacteria with enzyme activities (i.e., pectinase, cellulolytic and xylanolytic activities). Conclusion The endophytic bacterial community compositions were significantly different between dimorphic seeds of Suaeda glauca, and play an important role in the ecological adaptation of dimorphic seeds by performing different biological function roles. The endophytic bacterial communities of the dimorphic seeds may be influenced mainly by the seed coat structureand partly by the seed phytochemical characteristics. These findings provide valuable information for better understanding of the ecological adaptation strategy of dimorphic seeds in the disturbed environment.

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