A long‐term field experiment of soil transplantation demonstrating the role of contemporary geographic separation in shaping soil microbial community structure

The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the trad...

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Published inEcology and evolution Vol. 4; no. 7; pp. 1073 - 1087
Main Authors Sun, Bo, Wang, Feng, Jiang, Yuji, Li, Yun, Dong, Zhixin, Li, Zhongpei, Zhang, Xue‐Xian
Format Journal Article
LanguageEnglish
Published England John Wiley & Sons, Inc 01.04.2014
John Wiley & Sons Ltd
Subjects
454 pyrosequencing
Archaea
Bacteria
Biogeography
Communities
Community structure
contemporary disturbance
Cycles
Ecosystems
Empirical analysis
Environmental conditions
Eukaryotes
Experiments
Fungi
Genes
Geographical locations
historical contingency
Historical structures
Laboratories
Manures
Microbial activity
microbial biogeography
Microbiomes
Microorganisms
NifH gene
Nitrogen
Nitrogen cycle
nitrogen cycling
Original Research
Phylogeny
rRNA 16S
rRNA 18S
Soil microorganisms
Soil structure
soil transplantation
Soil types
Soils
Studies
Transplantation
China
China, People's Rep
historical contingency
454 pyrosequencing
microbial biogeography
contemporary disturbance
nitrogen cycling
soil transplantation
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Abstract The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long‐term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ~1000 km apart (i.e., Yingtan in the mid‐subtropical region and Fengqiu in warm‐temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high‐throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA, nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil. The relative importance of historical and contemporary factors in shaping microbial community structure was assessed in this work by a long‐term large‐scale soil transplantation experiment, whereby the same two soils (red soil and purple soil from Yingtan, China) were placed into two geographic locations of ~1000 km apart. Twenty years after the transplantation, the resulting soil microbial communities were subject to molecular analysis, including the high‐throughput 454 pyrosequencing of 16S and 18S rRNA genes. The results suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
AbstractList The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long‐term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ~1000 km apart (i.e., Yingtan in the mid‐subtropical region and Fengqiu in warm‐temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high‐throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA , bacterial amoA , nirK, and nifH . Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ∼1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA , bacterial amoA , nirK, and nifH . Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ~1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA, nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil. The relative importance of historical and contemporary factors in shaping microbial community structure was assessed in this work by a long-term large-scale soil transplantation experiment, whereby the same two soils (red soil and purple soil from Yingtan, China) were placed into two geographic locations of ~1000 km apart. Twenty years after the transplantation, the resulting soil microbial communities were subject to molecular analysis, including the high-throughput 454 pyrosequencing of 16S and 18S rRNA genes. The results suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ~1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA, nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long‐term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ~1000 km apart (i.e., Yingtan in the mid‐subtropical region and Fengqiu in warm‐temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high‐throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA, nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil. The relative importance of historical and contemporary factors in shaping microbial community structure was assessed in this work by a long‐term large‐scale soil transplantation experiment, whereby the same two soils (red soil and purple soil from Yingtan, China) were placed into two geographic locations of ~1000 km apart. Twenty years after the transplantation, the resulting soil microbial communities were subject to molecular analysis, including the high‐throughput 454 pyrosequencing of 16S and 18S rRNA genes. The results suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ∼1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA,nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ∼1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA,nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental disturbances, but their relative importance remains poorly understood. Empirical biogeographic data currently available are mostly based on the traditional method of observational survey, which typically involves comparing indigenous microbial communities across spatial scales. Here, we report a long-term soil transplantation experiment, whereby the same two soils (red Acrisol and purple Cambisol from Yingtan) were placed into two geographic locations of ∼1000 km apart (i.e., Yingtan in the mid-subtropical region and Fengqiu in warm-temperate region; both located in China). Twenty years after the transplantation, the resulting soil microbial communities were subject to high-throughput 454 pyrosequencing analysis of 16S and 18S rRNA genes. Additionally, bacteria and archaea involved in nitrogen cycling were estimated using clone library analysis of four genes: archaeal amoA, bacterial amoA,nirK, and nifH. Data of subsequent phylogenetic analysis show that bacteria, fungi, and other microbial eukaryotes, as well as the nitrogen cycling genes, are grouped primarily by the factor of geographic location rather than soil type. Moreover, a shift of microbial communities toward those in local soil (i.e., Chao soil in Fengqiu) has been observed. The results thus suggest that the historical effects persistent in the soil microbial communities can be largely erased by contemporary disturbance within a short period of 20 years, implicating weak effects of historical contingencies on the structure and composition of microbial communities in the soil.
Author Dong, Zhixin
Sun, Bo
Li, Yun
Jiang, Yuji
Zhang, Xue‐Xian
Li, Zhongpei
Wang, Feng
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  surname: Sun
  fullname: Sun, Bo
  organization: Chinese Academy of Sciences
– sequence: 2
  givenname: Feng
  surname: Wang
  fullname: Wang, Feng
  organization: University of the Chinese Academy of Sciences
– sequence: 3
  givenname: Yuji
  surname: Jiang
  fullname: Jiang, Yuji
  organization: Chinese Academy of Sciences
– sequence: 4
  givenname: Yun
  surname: Li
  fullname: Li, Yun
  organization: Sichuan Agricultural University
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  givenname: Zhixin
  surname: Dong
  fullname: Dong, Zhixin
  organization: Chinese Academy of Science
– sequence: 6
  givenname: Zhongpei
  surname: Li
  fullname: Li, Zhongpei
  organization: Chinese Academy of Sciences
– sequence: 7
  givenname: Xue‐Xian
  surname: Zhang
  fullname: Zhang, Xue‐Xian
  organization: Massey University at Albany
BackLink https://www.ncbi.nlm.nih.gov/pubmed/24772284$$D View this record in MEDLINE/PubMed
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Copyright 2014 The Authors. published by John Wiley & Sons Ltd.
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Issue 7
Keywords historical contingency
454 pyrosequencing
microbial biogeography
contemporary disturbance
nitrogen cycling
soil transplantation
Language English
License Attribution
http://creativecommons.org/licenses/by/3.0
This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
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Snippet The spatial patterns of microbial communities are largely determined by the combined effects of historical contingencies and contemporary environmental...
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StartPage 1073
SubjectTerms 454 pyrosequencing
Archaea
Bacteria
Biogeography
Communities
Community structure
contemporary disturbance
Cycles
Ecosystems
Empirical analysis
Environmental conditions
Eukaryotes
Experiments
Fungi
Genes
Geographical locations
historical contingency
Historical structures
Laboratories
Manures
Microbial activity
microbial biogeography
Microbiomes
Microorganisms
NifH gene
Nitrogen
Nitrogen cycle
nitrogen cycling
Original Research
Phylogeny
rRNA 16S
rRNA 18S
Soil microorganisms
Soil structure
soil transplantation
Soil types
Soils
Studies
Transplantation
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Title A long‐term field experiment of soil transplantation demonstrating the role of contemporary geographic separation in shaping soil microbial community structure
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Volume 4
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