Vertical changes in bacterial and archaeal communities with soil depth in Japanese paddy fields(Soil Biology)

スポンサーリンク

概要

• 論文の詳細を見る

• Vertical changes in bacterial and archaeal communities (mainly methanogen) with soil depth in three Japanese paddy fields (Tatsuta, Nagakute and Ichinomiya, Aichi prefecture) were investigated by polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) and quantitative PCR. All fields were located in an alluvial area and the soil texture differed among the layers. The Nagakute and Ichinomiya paddy fields were well-drained paddy fields (Gray Upland soil and Gray Lowland soil, respectively), whereas the Tatsuta paddy field was a wet paddy field (Gley soil). The amount of extracted DNA drastically decreased below a depth of 20cm and remained at a low level in the deeper layers in all fields. Numbers of mcrA genes, encoding the methyl-coenzyme M reductase α subunit of methanogenic archaea, drastically decreased with depth in the Nagakute and Ichinomiya paddy fields; high numbers of mcrA genes were retained through the layers in the Tatsuta paddy field. Cluster analysis of the DGGE band patterns of the bacterial and archaeal communities showed that their patterns in each field were initially divided into two groups, upper and lower layers, except for the bacterial community in the Tatsuta paddy field. These differences in the communities roughly corresponded to the distribution of the rice roots. Sequencing analysis of representative DGGE bands of the archaeal communities showed that diverse methanogens belonging to members of Methanomicrobiales, Methanosarcina spp., Methanosaeta spp., Methanocellales and Methanobacteriaceae inhabited the plowed soil layer, whereas uncultured members in the cluster ZC-I group of Methanosarcinales were more predominant beneath the plowed soil layer. Archaeal members other than methanogens inhabited the deeper layers of the Nagakute and Ichinomiya paddy fields. These results showed that the populations and compositions of bacterial and archaeal communities in paddy fields distinctly varied with soil depth, and indicated that the distribution of rice roots and the groundwater level might affect the populations and compositions in the subsoil.

• 社団法人日本土壌肥料学会の論文

著者

• Watanabe Takeshi

  Laboratory Of Fish Nutrition Department Of Marine Biosciences Tokyo University Of Marine Sciences An

• 木村 真人

  Laboratory Of Soil Biology And Chemistry School Of Agricultural Sciences Nagoya University

• 木村 眞人

  名大農

• Asakawa Susumu

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Asakawa Susumu

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bio-agricultural Sciences Nagoya Univers

• KIMURA Makoto

  Laboratory of Structural Biology, Graduate School of Systems Life Sciences, Kyushu University

• Kimura Makoto

  Nagoya Univ. Aichi Jpn

• Asakawa Susumu

  Nagoya Univ. Nagoya Jpn

• Asakawa S

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Asakawa S

  Kyushu National Agricultural Experiment Station

• TAKI Katsutoshi

  Aichi-ken Agricultural Research Center

• Katoh Masahiko

  Graduate School Of Bioagricultural Sciences Nagoya University:(present Address)zen-noh Agricultural

• Kimura M

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Kimura Makoto

  School Of Agriculture Nagoya University

• Kimura M

  School Of Agriculture Nagoya University

• WANG Guanghua

  Laboratory of Soil Biology and Chemistry, Graduate School of Bioagricultural Sciences, Nagoya Univer

• OHASHI Yoshinori

  Aichi-ken Agricultural Research Center

• Wang Guanghua

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Watanabe Takeshi

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Kimura Makoto

  Laboratory Of Biochemistry Department Of Bioscience And Biotechnology Graduate School Faculty Of Agr

• Kimura Makoto

  Laboratory Of Soil Biology And Chemistry Graduate School Of Bioagricultural Sciences Nagoya Universi

• Kimura Makoto

  Laboratory Of Biochemistry Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduat

• Watanabe Takeshi

  Laboratory Of Fish Nutrition Department Of Aquatic Biosciences Tokyo University Of Fisheries

• Kimura Makoto

  Laboratory Of Biochemistry Department Of Agricultural Chemistry Faculty And Graduate School Of Agric

• KIMURA Makoto

  Laboratory for Remediation Research, Plant Science Center, RIKEN

関連論文

• 2 葉面処理が水稲根面微生物の分布に及ぼす影響(関東支部講演会講演要旨)
• Bacterial Communities Associated with Nodal Roots of Rice Plants along with the Growth Stages : Estimation by PCR-DGGE and Sequence Analyses (Soil Biology)
• 16-24 水田における栄養塩類の収支に関する研究(第1報) : 水稲生育に伴う暗渠水中の栄養塩類の経時変化(16.水田土壌肥沃度)
• 6-6 水田土壌の逐次還元過程に関与する微生物群集構造(第一報) : 嫌気呼吸のための各種電子受容体を添加した土壌におけるPLFA, PCR-RFLPパターンの経時的変化(6.土壌生物)
• Entrapment and transport of foreign material in the spleen and kidney of Japanese conger Conger myriaster
• Methanogenic archaeal communities in paddy field soils in north-east China as evaluated by PCR-DGGE, sequencing and real-time PCR analyses(Soil Biology)
• Low diversity of T4-type bacteriophages in applied rice straw, plant residues and rice roots in Japanese rice soils : Estimation from major capsid gene (g23) composition(Soil Biology)
• Change in T4-type bacteriophage communities during the composting process of rice straw : Estimation from the major capsid gene (g23) sequences(Soil Biology)
• T4-type bacteriophage communities estimated from the major capsid genes (g23) in manganese nodules in Japanese paddy fields(Soil Biology)
• Methanogenic archaeal communities developed in paddy fields in the Kojima Bay polder, estimated by denaturing gradient gel electrophoresis, real-time PCR and sequencing analyses(Soil Biology)
• Bacterial communities in iron mottles in the plow pan layer in a Japanese rice field : Estimation using PCR-DGGE and sequencing analyses(Soil Biology)
• Bacterial communities in manganese nodules in rice field subsoils : Estimation using PCR-DGGE and sequencing analyses(Soil Biology)
• 6-7 Bacterial communities inhabiting manganese nodules in rice field subsoils estimated by PCR-DGGE of 16S rDNA
• Effect of Application of Rice Straw and Compost on the Bacterial Communities Associated with Moina sp. in the Floodwater of a Paddy Soil Microcosm : Estimation Based on DGGE Pattern and Sequence Analyses (Soil Biology)
• Bacterial Communities Responsible for the Decomposition of Rice Straw Compost in a Japanese Rice Paddy Field Estimated by DGGE Analysis of Amplified 16S rDNA and 16S rRNA Fragments (Soil Biology)
• Comparison of Bacterial Communities Associated with Microcrustaceans from the Floodwater of a Paddy Field Microcosm : Estimation Based on DGGE Pattern and Sequence Analyses (Soil Biology)
• Vertical Changes in Bacterial Communities in Percolating Water of a Japanese Paddy Field as Revealed by PCR-DGGE (Soil Biology)
• Microbial Communities Responsible for the Decomposition of Rice Straw Compost in a Japanese Rice Paddy Field Determined by Phospholipid Fatty Acid (PLFA) Analysis(Soil Biology)
• Nutrient Leaching from the Plow Layer by Water Percolation and Accumulation in the Subsoil in an Irrigated Paddy Field(Soil Physics)
• Bacterial Community Associated with Five Species of Microcrustaceans in the Floodwater of a Paddy Field Microcosm
• Succession and Phylogenetic Profile of Eukaryote in the Composting Process of Rice Straw Estimated by PCR-DGGE Analysis
• Analysis of communities of ammonia oxidizers, methanotrophs, and methanogens associated with microcrustaceans in the floodwater of a rice field microcosm
• Succession and Phylogenetic Profile of Methanogenic Archaeal Communities during the Composting Process of Rice Straw Estimated by PCR-DGGE Analysis(Soil Biology)
• Analysis of Communities of Ammonia Oxidizers, Methanotrophs, and Methanogens Associated with Microcrustaceans in the Floodwater of a Rice Field Microcosm(Soil Biology)
• Succession and Phylogenetic Composition of Bacterial Communities Responsible for the Composting Process of Rice Straw Estimated by PCR-DGGE Analysis (Soil Biology)
• Comparison of Microbial Communities in Percolating Water from Plow Layer and Subsoil Layer Estimated by Phospholipid Fatty Acid (PLFA) Analysis
• Succession of Microbiota Estimated by Phospholipid Fatty Acid Analysis and Changes in Organic Constituents during the Composting Process of Rice Straw
• Sites and Processes of Nutrient Accumulation in the Subsoil through Water Percolation from the Plow Layer in a Submerged Paddy Soil Microcosm(Soil Physics)
• PA-22 Bacterial communities in paddy fields with long-term application of rice straw compost(Agricultural ecosystem,Poster presentation A)
• PA-19 Molecular ecological analyses of methanogenic archaeal 16S rRNA and mcrA genes in Japanese paddy field soils(Agricultural ecosystem,Poster presentation A)
• Molecular analyses reveal stability of bacterial communities in bulk soil of a Japanese paddy field : Estimation by denaturing gradient gel electrophoresis of 16S rRNA genes amplified from DNA accompanied with RNA(Soil Biology)
• B-20 Molecular Identification of Methane-Oxidizing Bacteria in Rice Paddy Field
• BACTERIAL EXPRESSION AND IN VITRO ACTIVITY OF RECOMBINANT MOLT - INHIBTING HORMONE (r - MIH) OF THE KURAMA PRAWN Penaeus japonicus
• Phosphorus retention efficiency in rainbow trout fed diets with low fish meal and alternative protein ingredients
• Bioavailability and tissue distribution of amino acid-chelated trace elements in rainbow trout Oncorhynchus mykiss
• Different combinations of protein ingredients in carp diets for reducing phosphorus loading
• A laboratory-based assessment of phosphorus and nitrogen loading from currently available commercial carp feeds
• Changes of phosphorus absorption from several feed ingredients in rainbow trout during growing stages and effect of extrusion of soybean meal
• Spawning performance of yellowtail Seriola quinqueradiata fed dry pellets containing paprika and squid meal
• Effects of dry pellets containing astaxanthin and squid meal on the spawning performance of striped jack Pseudocaranx dentex
• Quality evaluation of different types of non-fish meal diets for yellowtail
• Effect of squid meal in dry pellets on the spawning performance of striped jack Pseudocaranx dentex
• The influence of astaxanthin supplemented dry pellets on spawning of striped jack
• Further clarification of winter energy and protein requirements at the optimum feeding frequency for yellowtail
• Effects of dietary β-carotene on the immune response of rainbow trout Oncorhynchus mykiss
• Energy and protein requirements of yellowtail for maximum growth and maintenance of body weight
• Energy and protein requirements for maximum growth and maintenance of bodyweight of yellowtail
• Energy and protein requirements of yellowtail during winter season
• Effect of dietary fish meal levels on environmental phosphorus loading from carp culture
• Total Phosphorus Loading onto the Water Environment from Common Carp Fed Commercial Diets
• A Winter-based Assessment on Energy and Protein Requirements of Yellowtail at the Optimum Feeding Frequency
• Chemical Components of Eggs and Yolksac Larvae Obtained from Striped Jack Broodstock Fed on a Raw Fish Mix or Dry Pellets
• Energy and Protein Requirements of Yellowtail:A Winter-based Assessment at the Optimum Feeding Frequency
• Effect of elevated atmospheric CO_2 concentration on ammonia oxidizing bacteria communities inhabiting in rice roots(Soil Biology)
• Effect of Free-Air CO_2 Enrichment (FACE) on the Community Structure of Aquatic Organisms in Floodwater of a Japanese Paddy Field during the Flooding Period of Rice Cultivation (Soil Biology)
• Effect of Free-Air CO_2 Enrichment (FACE ) on Methanogenic Archaeal Communities Inhabiting Rice Roots in a Japanese Rice Field (Soil Biology)
• Comparison of Aquatic Organisms Communities between Paddy Fields under Rice-Duck (Aigamo) Farming and Paddy Fields under Conventional Farming(Soil Biology)
• A Trial to Culture Yellowtail with Non-fishmeal Diets
• The First Spawn-taking from Striped Jack Broodstock Fed Soft-dry Pellets
• Vertical changes in bacterial and archaeal communities with soil depth in Japanese paddy fields(Soil Biology)
• Molecular characterization of methane-oxidizing bacteria associated with rice straw decomposition in a rice field(Soil Biology)
• Succession and phylogenetic profile of eukaryotic communities in rice straw incorporated into a rice field : Estimation by PCR-DGGE and sequence analyses(Soil Biology)
• 6-14 Phylogenetic characterization of methane oxidizing bacteria inhabiting in rice straw incorporated into rice fields
• Succession and Phylogenetic Profile of Eubacterial Communities in Rice Straw Incorporated into a Rice Field : Estimation by PCR-DGGE Analysis (Soil Biology)
• Community Structure of Eukaryotes in Rice Roots Estimated by PCR-DGGE Pattern and Sequence Analyses(Soil Biology)
• Identification of a novel cuticular protein in the kuruma prawn Penaeus japonicus
• Supplemental Effect of Astaxanthin in Broodstock Diets on the Quality of Yellowtail Eggs
• Effect of Krill Meal Supplementation in Soft-dry Pellets on Spawning and Quality of Egg of Yellowtail
• Morphology, host range and phylogenetic diversity of Sphingomonas phages in the floodwater of a Japanese paddy field(Soil Biology)
• P6-5 Comparison of T4-type bacteriophage communities in paddy soils between Japan and Northeast China as estimated from major capsid gene (g23) sequences
• Ecology of viruses in soils : Past, present and future perspectives
• Abundance of bacteriophages of common heterotrophic bacteria in the floodwater of a Japanese paddy field(Soil Biology)
• Seasonal variations in the abundance of virus-like particles and bacteria in the floodwater of a Japanese paddy field(Soil Biology)
• Succession and phylogenetic composition of eubacterial communities in rice straw during decomposition on the surface of paddy field soil(Soil Biology)
• A vailability of Phosphorus in Various Phosphates to Carp and Rainbow Trout Determined by a Simple Fractionation Method
• Identification of secernin 1 as a novel immunotherapy target for gastric cancer using the expression profiles of cDNA microarray
• Effect of Application of Rice Straw and Compost on the Community Structure of Bacteria Associated with Microcrustaceans in the Floodwater of a Paddy Field Microcosm
• Effect of Application of Rice Straw and Compost on the Community Structure of Bacteria Associated with Microcrustaceans in the Floodwater of a Paddy Field Microcosm (Soil Biology)
• Soil organic matter dynamics in lands continuously cultivated with maize and soybean in Heilongjiang Province, Northeast China : Estimation from natural ^C abundance(Soil Chemistry and Mineralogy)
• Phylogenetic distribution of bacteria isolated from the floodwater of a Japanese paddy field(Soil Chemistry and Mineralogy)
• Molecular analysis of the ammonia oxidizing bacterial community in the surface soil layer of a Japanese paddy field(Soil Biology)
• Effects of physical properties of diets on evacuation time of digesta and plasma free amino acid patterns in yellowtail
• Separation between Surface Adsorption and Reaction of NH_3 on Si (100) by Flash Heating
• Atomic-Layer Surface Reaction of SiH_4 on Ge(100) ( Quantum Dot Structures)
• Characterization of ammonia oxidizing bacteria associated with weeds in a Japanese paddy field using amoA gene fragments(Soil Biology)
• 6-15 Diversity of Ammonium Oxidizing Bacteria Associated with Weeds Growing in a Japanese Paddy Field
• Changes in the Community Structure of Aquatic Organisms after Midseason Drainage in the Floodwater of Japanese Paddy Fields (Soil Biology)
• Methanogenic Archaeal Communities in Rice Roots Grown in Flooded Soil Pots : Estimation by PCR-DGGE and Sequence Analyses(Soil Biology)
• Phylogenetic Study on CTO Primer-Amplified Ammonia-Oxidizing Bacteria and β-Proteobacteria Associated with Rice Roots Grown in a Flooded Paddy Soil (Soil Biology)
• Community Structure of Bacteria and Fungi Responsible for Rice Straw Decomposition in a Paddy Field Estimated by PCR-RFLP Analysis
• Composition and structure of aquatic organism communities in various water conditions of a paddy field
• The First Spawn-taking from Broodstock Yellowtail Cultured with Extruded Dry Pellets
• Digestible and Metabolizable Energy of Various Diets for Carp and Rainbow Trout
• Energy Requirements for Maintenance of Body Weight and Activity, and for Maximum Growth in Rainbow Trout
• Endogenous Nitrogen Excretion and Non-fecal Eneygy Losses in Carp and Rainbow Trout
• High frequency of phage-infected bacterial cells in a rice field soil in Japan(Soil Biology)
• Carbon flow into ammonia-oxidizing bacteria and archaea during decomposition of ^C-labeled plant residues in soil(Soil biology)
• 6-14 Bacterial communities incorporating carbon of root cap cells under upland soil conditions (DNA-SIP approach)
• T4-type bacteriophage communities in Japanese paddy fields estimated from major capsid gene (g23) sequences(The annal Meeting of the Society in 2008)
• Succession and phylogenetic profile of methanogenic archaeal communities during the composting process of rice straw estimated by PCR-DGGE analysis(The annual Meeting of the Society in 2004)

もっと見る 閉じる

スポンサーリンク