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Terminal Restriction Fragment Length Polymorphism Analysis of Soil Bacterial Communities under Different Vegetation Types in Subtropical Area.

Wu Z, Lin W, Li B, Wu L, Fang C, Zhang Z - PLoS ONE (2015)

Bottom Line: The order of Shannon-Wiener index (H) of all soil samples was in the order of EBF>CF>SDF>AM, whereas bacterial species richness as estimated by four restriction enzymes indicated no significant difference.Principal component analysis (PCA) revealed that the soil bacterial communities' structures of EBF, CF, SDF and AM were clearly separated along the first and second principal components, which explained 62.17% and 31.58% of the total variance, respectively.The soil physical-chemical properties such as total organic carbon (TOC), total nitrogen (TN), total phosphorus (TP) and total potassium (TK) were positively correlated with the diversity of bacterial communities.

View Article: PubMed Central - PubMed

Affiliation: Life Sciences College of Fujian Agriculture and Forestry University, Fujian, China.

ABSTRACT
Soil microbes are active players in energy flow and material exchange of the forest ecosystems, but the research on the relationship between the microbial diversity and the vegetation types is less conducted, especially in the subtropical area of China. In this present study, the rhizosphere soils of evergreen broad-leaf forest (EBF), coniferous forest (CF), subalpine dwarf forest (SDF) and alpine meadow (AM) were chosen as test sites. Terminal-restriction fragment length polymorphisms (T-RFLP) analysis was used to detect the composition and diversity of soil bacterial communities under different vegetation types in the National Natural Reserve of Wuyi Mountains. Our results revealed distinct differences in soil microbial composition under different vegetation types. Total 73 microbes were identified in soil samples of the four vegetation types, and 56, 49, 46 and 36 clones were obtained from the soils of EBF, CF, SDF and AM, respectively, and subsequently sequenced. The Actinobacteria, Fusobacterium, Bacteroidetes and Proteobacteria were the most predominant in all soil samples. The order of Shannon-Wiener index (H) of all soil samples was in the order of EBF>CF>SDF>AM, whereas bacterial species richness as estimated by four restriction enzymes indicated no significant difference. Principal component analysis (PCA) revealed that the soil bacterial communities' structures of EBF, CF, SDF and AM were clearly separated along the first and second principal components, which explained 62.17% and 31.58% of the total variance, respectively. The soil physical-chemical properties such as total organic carbon (TOC), total nitrogen (TN), total phosphorus (TP) and total potassium (TK) were positively correlated with the diversity of bacterial communities.

No MeSH data available.


Related in: MedlinePlus

Schematic representation of bacterial communities in soil samples of different vegetation types.The figure shows the differences of bacterial communities’ composition among different vegetation types (EBF, CF, SDF and AM).
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pone.0129397.g001: Schematic representation of bacterial communities in soil samples of different vegetation types.The figure shows the differences of bacterial communities’ composition among different vegetation types (EBF, CF, SDF and AM).

Mentions: All the experimental data of T-RFLP were listed in Supporting Information (S1 File). According to Table A in S1 File, total 73 microbes were identified in soil samples of the four different vegetation types, which 56, 49, 46 and 36 clones were obtained and sequenced from the soil samples of EBF, CF, SDF and AM, respectively (Table B, Table C, Fig. A in S1 File). All microbes can be categorized into 14 phylum, 21 class and 66 species. 14 phylum were Proteobacteria, Bacteroidetes, Fusobacterium, Actinobacteria, Cellulophaga, Arthrobacter, Lactobacillus, Clostridium, Mycoplasma, Nitrospira, Streptococcus, Desulfobacter, Staphylococcus and Chloroflexi. The Actinobacteria, Fusobacterium, Bacteroidetes and Proteobacteria were four dominant phylum in all soil samples (Fig 1, Table D in S1 File). For EBF samples, two of the predominant T-RFs were affiliated to Acidobacteria (21.37%) and Fusobacterium (16.81%), whereas Acidobacteria (26.87%) and Fusobacterium (26.37%) were also the most dominant in CF. Compared with the clone sequences retrieved from EBF and CF samples, the predominant T-RFs were affiliated to Acidobacteria (21.33%) and Proteobacteria (20.56%) in SDF samples, whereas Acidobacteria (19.22%) and Bacteroidetes (18.75%) were found in AM samples.


Terminal Restriction Fragment Length Polymorphism Analysis of Soil Bacterial Communities under Different Vegetation Types in Subtropical Area.

Wu Z, Lin W, Li B, Wu L, Fang C, Zhang Z - PLoS ONE (2015)

Schematic representation of bacterial communities in soil samples of different vegetation types.The figure shows the differences of bacterial communities’ composition among different vegetation types (EBF, CF, SDF and AM).
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4476674&req=5

pone.0129397.g001: Schematic representation of bacterial communities in soil samples of different vegetation types.The figure shows the differences of bacterial communities’ composition among different vegetation types (EBF, CF, SDF and AM).
Mentions: All the experimental data of T-RFLP were listed in Supporting Information (S1 File). According to Table A in S1 File, total 73 microbes were identified in soil samples of the four different vegetation types, which 56, 49, 46 and 36 clones were obtained and sequenced from the soil samples of EBF, CF, SDF and AM, respectively (Table B, Table C, Fig. A in S1 File). All microbes can be categorized into 14 phylum, 21 class and 66 species. 14 phylum were Proteobacteria, Bacteroidetes, Fusobacterium, Actinobacteria, Cellulophaga, Arthrobacter, Lactobacillus, Clostridium, Mycoplasma, Nitrospira, Streptococcus, Desulfobacter, Staphylococcus and Chloroflexi. The Actinobacteria, Fusobacterium, Bacteroidetes and Proteobacteria were four dominant phylum in all soil samples (Fig 1, Table D in S1 File). For EBF samples, two of the predominant T-RFs were affiliated to Acidobacteria (21.37%) and Fusobacterium (16.81%), whereas Acidobacteria (26.87%) and Fusobacterium (26.37%) were also the most dominant in CF. Compared with the clone sequences retrieved from EBF and CF samples, the predominant T-RFs were affiliated to Acidobacteria (21.33%) and Proteobacteria (20.56%) in SDF samples, whereas Acidobacteria (19.22%) and Bacteroidetes (18.75%) were found in AM samples.

Bottom Line: The order of Shannon-Wiener index (H) of all soil samples was in the order of EBF>CF>SDF>AM, whereas bacterial species richness as estimated by four restriction enzymes indicated no significant difference.Principal component analysis (PCA) revealed that the soil bacterial communities' structures of EBF, CF, SDF and AM were clearly separated along the first and second principal components, which explained 62.17% and 31.58% of the total variance, respectively.The soil physical-chemical properties such as total organic carbon (TOC), total nitrogen (TN), total phosphorus (TP) and total potassium (TK) were positively correlated with the diversity of bacterial communities.

View Article: PubMed Central - PubMed

Affiliation: Life Sciences College of Fujian Agriculture and Forestry University, Fujian, China.

ABSTRACT
Soil microbes are active players in energy flow and material exchange of the forest ecosystems, but the research on the relationship between the microbial diversity and the vegetation types is less conducted, especially in the subtropical area of China. In this present study, the rhizosphere soils of evergreen broad-leaf forest (EBF), coniferous forest (CF), subalpine dwarf forest (SDF) and alpine meadow (AM) were chosen as test sites. Terminal-restriction fragment length polymorphisms (T-RFLP) analysis was used to detect the composition and diversity of soil bacterial communities under different vegetation types in the National Natural Reserve of Wuyi Mountains. Our results revealed distinct differences in soil microbial composition under different vegetation types. Total 73 microbes were identified in soil samples of the four vegetation types, and 56, 49, 46 and 36 clones were obtained from the soils of EBF, CF, SDF and AM, respectively, and subsequently sequenced. The Actinobacteria, Fusobacterium, Bacteroidetes and Proteobacteria were the most predominant in all soil samples. The order of Shannon-Wiener index (H) of all soil samples was in the order of EBF>CF>SDF>AM, whereas bacterial species richness as estimated by four restriction enzymes indicated no significant difference. Principal component analysis (PCA) revealed that the soil bacterial communities' structures of EBF, CF, SDF and AM were clearly separated along the first and second principal components, which explained 62.17% and 31.58% of the total variance, respectively. The soil physical-chemical properties such as total organic carbon (TOC), total nitrogen (TN), total phosphorus (TP) and total potassium (TK) were positively correlated with the diversity of bacterial communities.

No MeSH data available.


Related in: MedlinePlus