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| Effect of Bacterial Community Structure Diversity with Different Carbon and Nitrogen Organic Materials Treatments in Organic Vegetable Soil |
Hao YANG1( ), Gonzalez Perez Pablo1, Rui ZHANG1, Jun YE2, Bao-song CAI1, Dan-feng HUANG1() |
1.Key Laboratory of Urban Agriculture(South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiaotong University; Shanghai 200240, China
2.School of Biotechnology and Biomolecular Sciences, The University of New South Wales, Sydney 2052, Australia |
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Abstract Through the simulation test, PCR-DGGE method was used to investigate the effects of different carbon and nitrogen organic materials on bacterial community structure of organic vegetable production system soil.Results showed that bacterial community structure of conventional and organic production system soils were significantly different.By analyzing the Shannon-Wiener diversity index, overall the bacterial diversity of organic background soil treatments was higher than conventional background soil treatments.The bacterial diversity of organic production system soil with straw(OS)was the highest.Bacterial diversity decrease or increase after adding urea or alfalfa respectively.Conventional and organic production system soils were divided into two ethnic clusters by clustering analysis.Phylogenetic tree showed that the 30 closely related species were attributed to Proteobacteria, Acidobacteria, Actinobacteria, Firmicutes, Verrucomicrobia.The band B13 of CA(conventional production system soil with alfalfa)and the common band B28 of organic background treatment had the highest homology with Bacillus and Pseudomonas respectively.
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Received: 22 December 2014
Published: 08 March 2016
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土壤类型
Soil type | pH | 全碳/
(g kg-1)
Total C | 全氮/
(g·kg-1)
Total N | C / N | 可溶性有机氮 /
(mg·kg-1)
SON | 硝态氮/
(mg·kg-1)
Nitrate | 铵态氮/
(mg·kg-1)
Ammonium | 微生物量碳/
(mg·kg-1)
MBC | 微生物量氮/
(mg·kg-1)
MBN | 有机土壤
Organic soil | 6.80±0.13 | 26.2±3.4 | 3.1±0.03 | 8.4±1.1 | 94.6±9.6 | 42.06±7.78 | 3.35±0.37 | 75.6±13.1 | 18.5±3.8 | 常规土壤
Conventional
soil | 7.10±0.09 | 19.2±2.5 | 2.2±0.05 | 8.7±1.0 | 59.1±6.4 | 68.88±13.60 | 3.71±0.39 | 65.2±13.7 | 7.9±1.4 |
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The properties of the tested soils
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PCR-DGGE profile of soil bacterial community structure C: Conventional soil; CU:Conventional soil + urea; CA:Conventional soil + alfalfa; O:Organic soil; OO:Organic soil + organic fertilizer; OU:Organic soil + urea; OS: Organic soil +straw; OA:Organic soil + alfalfa
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处理
Treatment | 多样性指数(H)
Diversity index | 丰富度指数(D)
Richness | 均匀度指数(E)
Evenness | | C | 2.611 | 2.523 | 0.942 | | CU | 2.600 | 2.409 | 0.938 | | CA | 2.777 | 2.920 | 0.943 | | O | 2.855 | 3.141 | 0.938 | | OO | 2.843 | 3.150 | 0.934 | | OU | 2.848 | 3.100 | 0.936 | | OS | 3.002 | 3.568 | 0.944 | | OA | 2.870 | 3.305 | 0.943 |
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Shannon-Wiener(H), Margalef(D)and Evenness(E)indices of soil bacterial communities in the different treatments
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Cluster analysis of bacterial DGGE with UPGMA C:Conventional soil; CU:Conventional soil + urea; CA:Conventional soil + alfalfa; O:Organic soil; OO:Organic soil + organic fertilizer; OU:Organic soil + urea; OS:Organic soil +straw; OA:Organic soil + alfalfa
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条带
Band | 登录号
Genebank
Accession No. | 序列长度
Sequence
lehgth(bp) | 系统分类
Phylogenetic
affiliation | 相似菌株
Closest Identified Relative
(Genebank Accession No.) | 同源性
Homology(%) | | B1 | KM281157 | 435 | Firmicutes; Clostridiaceae; Clostridium. | Uncultured Clostridium sp.clone T3-69 16S ribosomal RNA gene, partial sequence(KM200463) | 99% | | B2 | KM281158 | 434 | Acidobacteria; Acidobacteriales. | Uncultured Acidobacteriales bacterium clone E2006TS6.44 16S ribosomal RNA gene, partial sequence(GU983317) | 99% | | B5 | KM281161 | 434 | Acidobacteria; | Uncultured Acidobacteria bacterium clone AKYG1109 16S ribosomal RNA gene, partial sequence(AY921847) | 99% | | B7 | KM281163 | 438 | | Uncultured bacterium(HQ119238) | 99% | | B8 | KM281164 | 434 | Acidobacteria; | Uncultured Acidobacteria bacterium clone HG-B02190 16S ribosomal RNA gene, partial sequence(JN409248) | 99% | | B9 | KM281165 | 434 | | Uncultured bacterium clone WIF2 16S ribosomal RNA gene, partial Sequence(HQ166676) | 100% | | B10 | KM281166 | 437 | | Uncultured bacterium(JF708475) | 92% | | B11 | KM281167 | 435 | | Uncultured bacterium clone CP63 16S ribosomal RNA gene, partial sequence(JX133269) | 100% | | B12 | KM281168 | 437 | | Uncultured bacterium(JF708475) | 100% | | B13 | KM281169 | 436 | Firmicutes; Bacillaceae; Bacillus. | Uncultured Bacillus sp.clone SGR274 16S ribosomal RNA gene, partial sequence(JQ793581) | 94% | | B14 | KM281170 | 434 | Proteobacteria; Rhodocyclales; Rhodocyclaceae. | Uncultured Rhodocyclaceae bacterium partial 16S rRNA gene, clone SBROB5_44(LN555043) | 98% | | B15 | KM281171 | 436 | Proteobacteria; Alphaproteobacteria; | Uncultured alpha proteobacterium(JN038900) | 99% | | B16 | KM281172 | 435 | | Uncultured bacterium clone MCzcultivatedPlana46 16S ribosomal RNA gene, partial sequence(HM444534) | 99% | | B18 | KM281174 | 438 | Acidobacteria; | Uncultured Acidobacteria(JN409214) | 93% | | B19 | KM281175 | 439 | Actinobacteria; Intrasporangiaceae; Humibacillus. | Humibacillus xanthopallidus gene for 16S rRNA, partial sequence, strain:S32487(AB648995) | 99% | | B21 | KM281177 | 431 | | Uncultured bacterium isolate DGGE gel band CB-9 16S ribosomal RNA gene, partial sequence(KJ667548) | 99% | | B24 | KM281180 | 433 | Actinobacteria; Micromonosporaceae; Planosporangium. | Planosporangium thailandense strain HSS8-18 16S ribosomal RNA gene, partial sequence(NR_108119) | 98% | | B26 | KM281181 | 436 | Proteobacteria; Xanthomonadales; Sinobacteraceae. | Uncultured Sinobacteraceae bacterium partial 16S rRNA gene, clone SBROB5_36(LN555035) | 94% | | B28 | KM281183 | 435 | Proteobacteria; Pseudomonadaceae; Pseudomonas. | Pseudomonas sp.CC-MHH0089 16S ribosomal RNA gene, partial sequence(KJ720680) | 99% | | B29 | KM281184 | 431 | | Uncultured bacterium clone BacC-s_023 16S ribosomal RNA gene, partial sequence(EU335200) | 98% | | B30 | KM281185 | 434 | | Uncultured bacterium partial 16S rRNAgene, clone SICT499_N9D2_16S_B(LN570594) | 99% | | B31 | KM281186 | 435 | | Uncultured bacterium(DQ973988) | 97% | | B32 | KM281187 | 434 | | Uncultured bacterium(GU320659) | 91% | | B34 | KM281188 | 433 | Actinobacteria; Nocardioidaceae; Marmoricola. | Marmoricola sp.M57 16S ribosomal RNA gene, partial sequence(KC464831) | 99% | | B35 | KM281189 | 435 | Acidobacteria; | Uncultured Acidobacteria(JN408907) | 99% | | B39 | KM281192 | 433 | Actinobacteria; Propionibacterineae; Nocardioidaceae; Marmoricola. | Uncultured Marmoricola sp.clone BG1-39 16S ribosomal RNA gene, partial sequence(JX079124) | 97% | | B42 | KM281194 | 434 | Verrucomicrobia; Verrucomicrobiales; Verrucomicrobiaceae. | Uncultured Verrucomicrobiaceae(FJ542838) | 98% | | B43 | KM281195 | 434 | | Uncultured bacterium(JX133426) | 100% | | B44 | KM281196 | 422 | | Uncultured bacterium(DQ499290) | 95% | | B46 | KM281198 | 437 | | Uncultured bacterium isolate DGGE gel band CB-16 16S ribosomal RNA gene, partial sequence(KJ667555) | 94% |
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Sequence alignment of bands in bacterial DGGE profile
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Phylogenetic tree of bacteria
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2016, Vol. 34 
