scholarly journals Rhizosphere bacteria community and functions under typical natural halophyte communities in North China salinized areas

PLoS ONE ◽  
2021 ◽  
Vol 16 (11) ◽  
pp. e0259515
Author(s):  
Fating Yin ◽  
Fenghua Zhang ◽  
Haoran Wang
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Acid Metabolism ◽  
Rhizosphere Soil ◽  
Soil Bacterial Community ◽  
Rhizosphere Bacteria ◽  
Community Diversity ◽  
Rrna Gene ◽  
Soil Bacterial ◽  
Suaeda Glauca

Soil salinity is a serious environmental issue in arid China. Halophytes show extreme salt tolerance and are grow in saline-alkaline environments. There rhizosphere have complex bacterial communities, which mediate a variety of interactions between plants and soil. High-throughput sequencing was used to investigated rhizosphere bacterial community changes under the typical halophyte species in arid China. Three typical halophytes were Leymus chinensis (LC), Puccinellia tenuiflora (PT), Suaeda glauca (SG). The dominant phyla were Proteobacteria, Actinobacteria, Chloroflexi, Gemmatimonadetes, Acidobacteria and Bacteroidetes, Suaeda glauca rhizosphere has stronger enrichment of Nitrospirae and Cyanobacteria. The Ace, Chao and Shannon indices were significantly higher in soils under LC and SG (P<0.05). Functional predictions, based on 16S rRNA gene by PICRUSt, indicated that Energy metabolism, Amino acid metabolism, Carbohydrate metabolism and Fatty acid metabolism are dominant bacterial functions in three halophytes rhizosphere soil. Carbon metabolism, Oxidative phosphorylation, Methane metabolism, Sulfur metabolism and Nitrogen metabolism in SG were significantly higher than that in LC and PT. Regression analysis revealed that rhizosphere soil bacterial community structure is influenced by soil organic matter (SOM) and soil water content (SWC), while soil bacterial community diversity is affected by soil pH. This study contributes to our understanding of the distribution characteristics and metabolic functions under different halophyte rhizosphere bacterial communities, and will provide references for the use of rhizosphere bacteria to regulate the growth of halophytes and ecological restoration of saline soil.

scholarly journals Difference in Rhizosphere Soil Bacterial Community was among Six Cinnamomum camphora Chemotypes

2021 ◽  
Author(s):  
Zufei Xiao ◽  
Beihong Zhang ◽  
Yangbao Wang ◽  
Zhinong Jin ◽  
Feng Li ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Rhizosphere Soil ◽  
Soil Nutrient ◽  
Soil Bacterial Community ◽  
Cinnamomum Camphora ◽  
Close Relationship ◽  
Soil Bacterial

Abstract: Plant types and soil bacterial communities had a close relationship, understanding the profound association between them contributes to better learn bacterial ecological function for plant growth. In this study, rhizosphere soil of six different chemotype Cinnamomum camphora trees were collected, including C. bodinieri var. citralifera, [C. camphora (Linn.) Presl], camphora-type, cineole-type, linalool-type and isoborneol-type. Soil properties content and bacterial communities were analyzed. Two chemotype C. camphora, including [C. camphora (Linn.) Presl] and linalool-type, shaped similar bacterial community structure, decreased Firmcutes relative abundance. richness estimators (Chao1 index and Ace index) of [C. camphora (Linn.) Presl] were decreased compared with the others. Furthermore, soil bacterial community structure was also similar among bodinieri var. citralifera, camphora-type, cineole-type and isoborneol-type. Hence, different chemotype C. camphora altered soil nutrient and shaped rhizosphere bacterial communities.

scholarly journals Soil bacterial community diversity and composition vary more with elevation than seasons in alpine habitats of western Himalaya

2020 ◽  
Author(s):  
Pamela Bhattacharya ◽  
Samrat Mondol ◽  
Gautam Talukdar ◽  
Gopal Singh Rawat
Keyword(s):  
Bacterial Community ◽  
High Altitude ◽  
Bacterial Communities ◽  
Western Himalaya ◽  
Soil Bacterial Community ◽  
Community Diversity ◽  
Soil Bacterial Communities ◽  
Alpine Habitats ◽  
Soil Bacterial ◽  
The Himalaya

AbstractSoil heterotrophic respiration-driven CO2 emissions, its impact on global warming and the mechanistic roles of soil bacterial communities in this process have been an area of active research. However, our knowledge regarding the effects of environmental changes on soil bacterial communities is limited. To this end, the climate-sensitive high-altitude alpine ecosystems offer ideal opportunities to investigate relationship between climate change and bacterial communities. While data from several high-altitude mountain regions suggest that local environment factors and geological patterns govern bacterial communities, no information is available from the Himalaya. Here we provide baseline information on seasonal soil bacterial community diversity and composition along a 3200-4000 m elevation gradient covering four alpine habitats (subalpine forest, alpine scrub, alpine meadow and moraine) in Gangotri National Park, western Himalaya. Bacterial metabarcoding data from 36 field-collected samples showed no elevation trend in the bacterial richness and a non-monotonous decrease in their diversity. Further, their community diversity and composition varied significantly among habitats along elevation but were stable seasonally within each habitat. The richness was primarily influenced by soil inorganic carbon (SOC) and total nitrogen (TN), whereas temperature, SOC and TN affected diversity and composition patterns. Given the importance of the Himalaya in the context of global carbon cycle this information will help in accurate modeling of climate adaptation scenarios of bacterial niches and their downstream impacts towards climate warming.

scholarly journals Soil Bacterial Community Shifts Are Driven by Soil Nutrient Availability along a Teak Plantation Chronosequence in Tropical Forests in China

Biology ◽  
2021 ◽  
Vol 10 (12) ◽  
pp. 1329
Author(s):  
Zhi Yu ◽  
Kunnan Liang ◽  
Guihua Huang ◽  
Xianbang Wang ◽  
Mingping Lin ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Soil Bacterial Community ◽  
Community Diversity ◽  
Soil Bacterial Communities ◽  
Bacterial Community Diversity ◽  
Teak Plantation ◽  
Soil Bacterial ◽  
Total Potassium ◽  
Significant Factors

Soil bacterial communities play crucial roles in ecosystem functions and biogeochemical cycles of fundamental elements and are sensitive to environmental changes. However, the response of soil bacterial communities to chronosequence in tropical ecosystems is still poorly understood. This study characterized the structures and co-occurrence patterns of soil bacterial communities in rhizosphere and bulk soils along a chronosequence of teak plantations and adjacent native grassland as control. Stand ages significantly shifted the structure of soil bacterial communities but had no significant impact on bacterial community diversity. Bacterial community diversity in bulk soils was significantly higher than that in rhizosphere soils. The number of nodes and edges in the bacterial co-occurrence network first increased and then decreased with the chronosequence. The number of strongly positive correlations per network was much higher than negative correlations. Available potassium, total potassium, and available phosphorus were significant factors influencing the structure of the bacterial community in bulk soils. In contrast, urease, total potassium, pH, and total phosphorus were significant factors affecting the structure of the bacterial community in the rhizosphere soils. These results indicate that available nutrients in the soil are the main drivers regulating soil bacterial community variation along a teak plantation chronosequence.

scholarly journals Extensive Phylogenetic Analysis of a Soil Bacterial Community Illustrates Extreme Taxon Evenness and the Effects of Amplicon Length, Degree of Coverage, and DNA Fractionation on Classification and Ecological Parameters

2008 ◽  
Vol 75 (3) ◽  
pp. 668-675 ◽  
Author(s):  
Sergio E. Morales ◽  
Theodore F. Cosart ◽  
Jesse V. Johnson ◽  
William E. Holben
Keyword(s):  
Bacterial Community ◽  
Sequence Similarity ◽  
Diversity Indices ◽  
Soil Bacterial Community ◽  
Community Diversity ◽  
Sequence Length ◽  
Rrna Gene ◽  
Ecological Parameters ◽  
Soil Bacterial ◽  
Analytical Approaches

ABSTRACT To thoroughly investigate the bacterial community diversity present in a single composite sample from an agricultural soil and to examine potential biases resulting from data acquisition and analytical approaches, we examined the effects of percent G+C DNA fractionation, sequence length, and degree of coverage of bacterial diversity on several commonly used ecological parameters (species estimation, diversity indices, and evenness). We also examined variation in phylogenetic placement based on multiple commonly used approaches (ARB alignments and multiple RDP tools). The results demonstrate that this soil bacterial community is highly diverse, with 1,714 operational taxonomic units demonstrated and 3,555 estimated (based on the Chao1 richness estimation) at 97% sequence similarity using the 16S rRNA gene. The results also demonstrate a fundamental lack of dominance (i.e., a high degree of evenness), with 82% of phylotypes being encountered three times or less. The data also indicate that generally accepted cutoff values for phylum-level taxonomic classification might not be as applicable or as general as previously assumed and that such values likely vary between prokaryotic phyla or groups.

scholarly journals   Long-term agrichemical use leads to alterations in bacterial community diversity

2012 ◽  
Vol 58 (No. 10) ◽  
pp. 452-458 ◽  
Author(s):  
H. Tan ◽  
M. Barret ◽  
O. Rice ◽  
D.N. Dowling ◽  
J. Burke ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Spring Barley ◽  
Community Diversity ◽  
Rrna Gene ◽  
Soil Bacterial Communities ◽  
Culture Independent ◽  
Concomitant Reduction ◽  
Soil Bacterial

&nbsp; Bacterial communities are key drivers of soil fertility and agriculture productivity. Understanding how soil bacterial communities change in response to different conditions is an important aspect in the development of sustainable agriculture. There is a desire to reduce the current reliance on high inputs of chemicals and fertilisers in agriculture, but limited data are available on how this might impact soil bacterial communities. This study investigated the bacterial communities in a spring barley monoculture site subjected to two different input regimes for over 12 years: a conventional chemical/fertiliser regime, and a reduced input regime. A culture independent approach was performed to compare the bacterial communities through 16S rRNA gene PCR-DGGE. PCO analysis revealed that the rhizosphere has a strong structuring effect on the bacterial community. Moreover, high inputs of agrichemicals lead to an increase of phosphorus level in the soil and a concomitant reduction of the bacterial diversity. These results may help to evaluate the environmental risks associated with agrichemical usage. &nbsp;

scholarly journals Impact of Rocky Desertification Control on Soil Bacterial Community in Karst Graben Basin, Southwestern China

2021 ◽  
Vol 12 ◽  
Author(s):  
Qiang Li ◽  
Ang Song ◽  
Hui Yang ◽  
Werner E. G. Müller
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Control Area ◽  
Soil Bacterial Community ◽  
Rrna Gene ◽  
Natural Ecosystem ◽  
Rocky Desertification ◽  
Soil Bacterial Communities ◽  
Edaphic Properties ◽  
Soil Bacterial

Microorganisms play critical roles in belowground ecosystems, and karst rocky desertification (KRD) control affects edaphic properties and vegetation coverage. However, the relationship between KRD control and soil bacterial communities remains unclear. 16S rRNA gene next-generation sequencing was used to investigate soil bacterial community structure, composition, diversity, and co-occurrence network from five ecological types in KRD control area. Moreover, soil physical-chemical properties and soil stoichiometry characteristics of carbon, nitrogen and phosphorus were analyzed. Soil N and P co-limitation decreased in the contribution of the promotion of KRD control on edaphic properties. Though soil bacterial communities appeared strongly associated with soil pH, soil calcium, soil phosphorus and plant richness, the key factor to determine their compositions was the latter via changed edaphic properties. The co-occurrence network analysis indicated that soil bacterial network complexity in natural ecosystem was higher than that in additional management ecosystem. Candidatus Udaeobacter, Chthoniobacterales, and Pedosphaeraceae were recognized as the key taxa maintaining karst soil ecosystems in KRD control area. Our results indicate that natural recovery is the suitable way for restoration and rehabilitation of degraded ecosystems, and thus contribute to the ongoing endeavor to appraise the interactions among soil-plant ecological networks.

scholarly journals Effects of Simulated Nitrogen Deposition on the Bacterial Community of Urban Green Spaces

2021 ◽  
Vol 11 (3) ◽  
pp. 918
Author(s):  
Lingzi Mo ◽  
Augusto Zanella ◽  
Xiaohua Chen ◽  
Bin Peng ◽  
Jiahui Lin ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Bacterial Diversity ◽  
Negative Impact ◽  
Bacterial Community Composition ◽  
N Deposition ◽  
Soil Bacterial Community ◽  
Rrna Gene ◽  
Soil Dna ◽  
Urban Green ◽  
Soil Bacterial

Continuing nitrogen (N) deposition has a wide-ranging impact on terrestrial ecosystems. To test the hypothesis that, under N deposition, bacterial communities could suffer a negative impact, and in a relatively short timeframe, an experiment was carried out for a year in an urban area featuring a cover of Bermuda grass (Cynodon dactylon) and simulating environmental N deposition. NH4NO3 was added as external N source, with four dosages (N0 = 0 kg N ha−2 y−1, N1 = 50 kg N ha−2 y−1, N2 = 100 kg N ha−2 y−1, N3 = 150 kg N ha−2 y−1). We analyzed the bacterial community composition after soil DNA extraction through the pyrosequencing of the 16S rRNA gene amplicons. N deposition resulted in soil bacterial community changes at a clear dosage-dependent rate. Soil bacterial diversity and evenness showed a clear trend of time-dependent decline under repeated N application. Ammonium nitrogen enrichment, either directly or in relation to pH decrease, resulted in the main environmental factor related to the shift of taxa proportions within the urban green space soil bacterial community and qualified as a putative important driver of bacterial diversity abatement. Such an impact on soil life induced by N deposition may pose a serious threat to urban soil ecosystem stability and surrounding areas.

scholarly journals Diversity of Soil Bacterial Community Is Influenced by Spatial Location and Time but Not Potato Cultivar

2020 ◽  
Vol 4 (3) ◽  
pp. 225-238
Author(s):  
Kamrun Nahar ◽  
Jean-Baptiste Floc’h ◽  
Claudia Goyer ◽  
Bernie J. Zebarth ◽  
Sean Whitney
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Common Scab ◽  
Potato Cultivar ◽  
Community Diversity ◽  
Bacterial Community Diversity ◽  
Streptomyces Spp ◽  
Β Diversity ◽  
Soil Bacterial ◽  
Spatial Locations

Potato cultivars susceptible to common scab were previously reported to harbor five to six times more abundant pathogenic Streptomyces spp. in the rhizosphere soils compared with tolerant cultivars. It is still unclear if the diversity of soil bacterial communities is related to the abundance of pathogenic Streptomyces spp. This study evaluated the effects of potato cultivar on the diversity of bacterial communities in three spatial locations (soil located close to the plant [SCP], in the rhizosphere soil [RS], and in the geocaulosphere soil [GS]) in 2013 and 2014. Common scab tolerant (Goldrush and Hindenburg) and susceptible cultivars (Green Mountain and Agria) were planted in a field infested with pathogenic Streptomyces spp. causing common scab. The β-diversity of the bacterial community was significantly different between years and on dates within each year according to a permutational multivariate analysis of variance. The β-diversity also varied significantly among spatial locations (i.e., SCP, RS, and GS), probably due to changes in soil properties, but did not change significantly among potato cultivars. The architecture of the bacterial network in RS in 2014 was more complex compared with 2013 with a 2.5-fold increase in the number of bacteria included according to a co-occurrence analysis. These results indicated that the soil bacterial community diversity changed temporally and spatially. However, bacterial community diversity and richness were not affected by potato cultivar, suggesting that there were no relationships between bacterial community diversity or richness and the abundance of pathogenic Streptomyces spp.

scholarly journals The Influence of Land Use Patterns on Soil Bacterial Community Structure in the Karst Graben Basin of Yunnan Province, China

Forests ◽  
2019 ◽  
Vol 11 (1) ◽  
pp. 51 ◽  
Author(s):  
Jiangmei Qiu ◽  
Jianhua Cao ◽  
Gaoyong Lan ◽  
Yueming Liang ◽  
Hua Wang ◽  
...  
Keyword(s):  
Land Use ◽  
Surface Layer ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Yunnan Province ◽  
Soil Bacterial Community ◽  
Land Use Patterns ◽  
Use Patterns ◽  
Soil Bacterial Communities ◽  
Soil Bacterial

Land use patterns can change the structure of soil bacterial communities. However, there are few studies on the effects of land use patterns coupled with soil depth on soil bacterial communities in the karst graben basin of Yunnan province, China. Consequently, to reveal the structure of the soil bacterial community at different soil depths across land use changes in the graben basins of the Yunnan plateau, the relationship between soil bacterial communities and soil physicochemical properties was investigated for a given area containing woodland, shrubland, and grassland in Yunnan province by using next-generation sequencing technologies coupled with soil physicochemical analysis. Our results indicated that the total phosphorus (TP), available potassium (AK), exchangeable magnesium (E-Mg), and electrical conductivity (EC) in the grassland were significantly higher than those in the woodland and shrubland, yet the total nitrogen (TN) and soil organic carbon (SOC) in the woodland were higher than those in the shrubland and grassland. Proteobacteria, Verrucomicrobia, and Acidobacteria were the dominant bacteria, and their relative abundances were different in the three land use types. SOC, TN, and AK were the most important factors affecting soil bacterial communities. Land use exerts strong effects on the soil bacterial community structure in the soil’s surface layer, and the effects of land use attenuation decrease with soil depth. The nutrient content of the soil surface layer was higher than that of the deep layer, which was more suitable for the survival and reproduction of bacteria in the surface layer.

Effects of inoculation with organic-phosphorus-mineralizing bacteria on soybean (Glycine max) growth and indigenous bacterial community diversity

2017 ◽  
Vol 63 (5) ◽  
pp. 392-401 ◽  
Author(s):  
Wei Sun ◽  
Xun Qian ◽  
Jie Gu ◽  
Xiao-Juan Wang ◽  
Yang Li ◽  
...  
Keyword(s):  
Glycine Max ◽  
Carbon Source ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Organic Phosphorus ◽  
Community Diversity ◽  
Carbon Source Utilization ◽  
Soil Bacterial Communities ◽  
Bacterial Community Diversity ◽  
Soil Bacterial

Three different organic-phosphorus-mineralizing bacteria (OPMB) strains were inoculated to soil planted with soybean (Glycine max), and their effects on soybean growth and indigenous bacterial community diversity were investigated. Inoculation with Pseudomonas fluorescens Z4-1 and Brevibacillus agri L7-1 increased organic phosphorus degradation by 22% and 30%, respectively, compared with the control at the mature stage. Strains P. fluorescens Z4-1 and B. agri L7-1 significantly improved the soil alkaline phosphatase activity, average well color development, and the soybean root activity. Terminal restriction fragment length polymorphism analysis demonstrated that P. fluorescens Z4-1 and B. agri L7-1 could persist in the soil at relative abundances of 2.0%–6.4% throughout soybean growth. Thus, P. fluorescens Z4-1 and B. agri L7-1 could potentially be used in organic-phosphorus-mineralizing biofertilizers. OPMB inoculation altered the genetic structure of the soil bacterial communities but had no apparent influence on the carbon source utilization profiles of the soil bacterial communities. Principal components analysis showed that the changes in the carbon source utilization profiles of bacterial community depended mainly on the plant growth stages rather than inoculation with OPMB. The results help to understand the evolution of the soil bacterial community after OPMB inoculation.

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