The structure and diversity of the bacterial communities in rhizosphere soils of native Phragmites australis and Scirpus rnariqueter and alien Spartina alterniflora in the Yangtze River Estuary were investigated by co...The structure and diversity of the bacterial communities in rhizosphere soils of native Phragmites australis and Scirpus rnariqueter and alien Spartina alterniflora in the Yangtze River Estuary were investigated by constructing 16S ribosomal DNA （rDNA） clone libraries. The bacterial diversity was quantified by placing the clones into operational taxonomic unit （OTU） groups at the level of sequence similarity of 〉 97%. Phylogenetic analysis of the resulting 398 clone sequences indicated a high diversity of bacteria in the rhizosphere soils of these plants. The members of Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, and Deltaproteobacteria of the phylum Proteobacteria were the most abundant in rhizobacteria. Chao 1 nonpaxametric diversity estimator coupled with the reciprocal of Simpson＇s index （l/D） was applied to sequence data obtained from each library to evaluate total sequence diversity and quantitatively compare the level of dominance. The results showed that Phragmites, Scirpus, and Spartina rhizosphere soils contained 200, 668, and 382 OTUs, respectively. The bacterial communities in the Spartina and Phragraites rhizosphere soils displayed species dominance revealed by 1/D, whereas the bacterial community in Scirpus rhizosphere soil had uniform distributions of species abundance. Overall, analysis of 16S rDNA clone libraries from the rhizosphere soils indicates that the changes in bacterial composition may occur concomitantly with the shift of species composition in plant communities.展开更多
New terrestrial habitats have emerged and a primary succession has developed in the retreat area （29°34＇N, 102°oo＇E, 2951-2886 m） after the retreat of the Hailuogou glacier. To investigate soil microbial...New terrestrial habitats have emerged and a primary succession has developed in the retreat area （29°34＇N, 102°oo＇E, 2951-2886 m） after the retreat of the Hailuogou glacier. To investigate soil microbial changes along the primary successional chronosequence, mixed soil samples were collected at six sites at different ages （2 young sites, 2 mid-aged sites, and 2 old sites）. The RNA was extracted and amplified. Bacterial 16S rRNA and fungal 18S rRNA were analyzed using high-throughput 454 pyrosequencing analysis. Overall, pyrosequeneing showed that Proteobacteria, Acidobacteria, Baeteroidetes and Actinobacteria were the main bacterial phyla, and the fungal communities were strongly dominated by the phyla Ascomyeota and Basidiomyeota in the retreat area. The Shannon diversity index （Hshannon） of bacteria was 6.5 - 7.9, and that of fungi was 2.2 - 4.1 in these sites. For the bacterial communities, diversity and evenness values were highest on the mid-age sites and were relatively low on the young trend was observed for the and old sites. A similar fungal communities. In contrast, soil properties showed significant linear distributional trends （increase or decrease） with the age of the site. Combining the linear change patterns of soil properties, the highest values of bacterial and fungal evenness and diversity in the mid-aged sites indicated that there was less environmental stress and more niches for microbial communities in the middle successional stage compare with other stages. In addition, our analysis showed that microbial communities were the main drivers that build a soil organic matter pool to expedite pedogenesis for ecosystem succession. This primary succession in the Hailuogou glacier retreat area is developing rapidly compared with that in other glacier retreats.展开更多
To reveal the effects of Fe2＋ on bacterial communities in the early stages of minerals dissolution, two different acid mine drainage （AMD） samples were collected at Dabaoshan Mine and Shenbu Mine. Community success...To reveal the effects of Fe2＋ on bacterial communities in the early stages of minerals dissolution, two different acid mine drainage （AMD） samples were collected at Dabaoshan Mine and Shenbu Mine. Community successions of AMD niches were analyzed by Amplified Ribosomal DNA Restriction Analysis （ARDRA）, sequencing, and phylogenetic analysis in original AMD samples and their subculture under Fe2＋ concentrations. Although geochemical properties and community structures were greatly different between the two original AMD samples, bacterial community successions were still very similar under high Fe2＋ concentrations. The results showed that Acidithiobacillus ferrooxidans have competitive relationship with other bacterial species living in the AMD, including species that were also capable of oxidizing ferrous ion. A competitive relationship among different At. ferrooxidans strains likewise existed. Some of At. ferrooxidans can grow first under conditions of high ferrous ion concentration, and other At. ferrooxidans species decreased gradually and disappeared. This suggested that these species of At. ferrooxidans are most acidophilic bacteria and afford Fe3＋ to leach other metallic ion in the early stages of minerals dissolution.展开更多
基金Project supported by the National Natural Science Foundation of China (Nos.30370235 and 30670330)Science and Technology Commission of Shanghai (No.04DZ19304)Ministry of Education of China (No.105063)
文摘The structure and diversity of the bacterial communities in rhizosphere soils of native Phragmites australis and Scirpus rnariqueter and alien Spartina alterniflora in the Yangtze River Estuary were investigated by constructing 16S ribosomal DNA （rDNA） clone libraries. The bacterial diversity was quantified by placing the clones into operational taxonomic unit （OTU） groups at the level of sequence similarity of 〉 97%. Phylogenetic analysis of the resulting 398 clone sequences indicated a high diversity of bacteria in the rhizosphere soils of these plants. The members of Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, and Deltaproteobacteria of the phylum Proteobacteria were the most abundant in rhizobacteria. Chao 1 nonpaxametric diversity estimator coupled with the reciprocal of Simpson＇s index （l/D） was applied to sequence data obtained from each library to evaluate total sequence diversity and quantitatively compare the level of dominance. The results showed that Phragmites, Scirpus, and Spartina rhizosphere soils contained 200, 668, and 382 OTUs, respectively. The bacterial communities in the Spartina and Phragraites rhizosphere soils displayed species dominance revealed by 1/D, whereas the bacterial community in Scirpus rhizosphere soil had uniform distributions of species abundance. Overall, analysis of 16S rDNA clone libraries from the rhizosphere soils indicates that the changes in bacterial composition may occur concomitantly with the shift of species composition in plant communities.
基金funded by the National Natural Science Foundation of China(Grant Nos.41501281 and 41272200)the Chinese Academy of Sciences(CAS "Light of West China" Program)
文摘New terrestrial habitats have emerged and a primary succession has developed in the retreat area （29°34＇N, 102°oo＇E, 2951-2886 m） after the retreat of the Hailuogou glacier. To investigate soil microbial changes along the primary successional chronosequence, mixed soil samples were collected at six sites at different ages （2 young sites, 2 mid-aged sites, and 2 old sites）. The RNA was extracted and amplified. Bacterial 16S rRNA and fungal 18S rRNA were analyzed using high-throughput 454 pyrosequencing analysis. Overall, pyrosequeneing showed that Proteobacteria, Acidobacteria, Baeteroidetes and Actinobacteria were the main bacterial phyla, and the fungal communities were strongly dominated by the phyla Ascomyeota and Basidiomyeota in the retreat area. The Shannon diversity index （Hshannon） of bacteria was 6.5 - 7.9, and that of fungi was 2.2 - 4.1 in these sites. For the bacterial communities, diversity and evenness values were highest on the mid-age sites and were relatively low on the young trend was observed for the and old sites. A similar fungal communities. In contrast, soil properties showed significant linear distributional trends （increase or decrease） with the age of the site. Combining the linear change patterns of soil properties, the highest values of bacterial and fungal evenness and diversity in the mid-aged sites indicated that there was less environmental stress and more niches for microbial communities in the middle successional stage compare with other stages. In addition, our analysis showed that microbial communities were the main drivers that build a soil organic matter pool to expedite pedogenesis for ecosystem succession. This primary succession in the Hailuogou glacier retreat area is developing rapidly compared with that in other glacier retreats.
文摘To reveal the effects of Fe2＋ on bacterial communities in the early stages of minerals dissolution, two different acid mine drainage （AMD） samples were collected at Dabaoshan Mine and Shenbu Mine. Community successions of AMD niches were analyzed by Amplified Ribosomal DNA Restriction Analysis （ARDRA）, sequencing, and phylogenetic analysis in original AMD samples and their subculture under Fe2＋ concentrations. Although geochemical properties and community structures were greatly different between the two original AMD samples, bacterial community successions were still very similar under high Fe2＋ concentrations. The results showed that Acidithiobacillus ferrooxidans have competitive relationship with other bacterial species living in the AMD, including species that were also capable of oxidizing ferrous ion. A competitive relationship among different At. ferrooxidans strains likewise existed. Some of At. ferrooxidans can grow first under conditions of high ferrous ion concentration, and other At. ferrooxidans species decreased gradually and disappeared. This suggested that these species of At. ferrooxidans are most acidophilic bacteria and afford Fe3＋ to leach other metallic ion in the early stages of minerals dissolution.
