Effect of Long-Term Pesticides and Chemical Fertilizers Application on the Microbial Community Specifically Anammox and Denitrifying Bacteria in Rice Field Soil of Jhenaidah and Kushtia District, Bangladesh

2020 ◽  
Vol 104 (6) ◽  
pp. 828-833 ◽  
Author(s):  
M. Mizanur Rahman ◽  
Kamrun Nahar ◽  
Md. Meraj Ali ◽  
Nasrin Sultana ◽  
Mohammad Minnatul Karim ◽  
...  
Keyword(s):  
Microbial Community ◽  
Rice Field ◽  
Denitrifying Bacteria ◽  
Field Soil ◽  
Chemical Fertilizers ◽  
Rice Field Soil

scholarly journals Molecular Analyses of the Methane-Oxidizing Microbial Community in Rice Field Soil by Targeting the Genes of the 16S rRNA, Particulate Methane Monooxygenase, and Methanol Dehydrogenase

1999 ◽  
Vol 65 (5) ◽  
pp. 1980-1990 ◽  
Author(s):  
Thilo Henckel ◽  
Michael Friedrich ◽  
Ralf Conrad
Keyword(s):  
Microbial Community ◽  
Rice Field ◽  
Ssu Rdna ◽  
Type I ◽  
Type Ii ◽  
Field Soil ◽  
Particulate Methane Monooxygenase ◽  
Rice Field Soil ◽  
Pcr Products ◽  
Primer Sets

ABSTRACT Rice field soil with a nonsaturated water content induced CH4 consumption activity when it was supplemented with 5% CH4. After a lag phase of 3 days, CH4 was consumed rapidly until the concentration was less than 1.8 parts per million by volume (ppmv). However, the soil was not able to maintain the oxidation activity at near-atmospheric CH4 mixing ratios (i.e., 5 ppmv). The soil microbial community was monitored by performing denaturing gradient gel electrophoresis (DGGE) during the oxidation process with different PCR primer sets based on the 16S rRNA gene and on functional genes. A universal small-subunit (SSU) ribosomal DNA (rDNA) primer set and 16S rDNA primer sets specifically targeting type I methylotrophs (members of the γ subdivision of the classProteobacteria [γ-Proteobacteria]) and type II methylotrophs (members of the α-Proteobacteria) were used. Functional PCR primers targeted the genes for particulate methane monooxygenase (pmoA) and methanol dehydrogenase (mxaF), which code for key enzymes in the catabolism of all methanotrophs. The yield of PCR products amplified from DNA in soil that oxidized CH4 was the same as the yield of PCR products amplified from control soil when the universal SSU rDNA primer set was used but was significantly greater when primer sets specific for methanotrophs were used. The DGGE patterns and the sequences of major DGGE bands obtained with the universal SSU rDNA primer set showed that the community structure was dominated by nonmethanotrophic populations related to the genera Flavobacterium andBacillus and was not influenced by CH4. The structure of the methylotroph community as determined with the specific primer sets was less complex; this community consisted of both type I and type II methanotrophs related to the generaMethylobacter, Methylococcus, andMethylocystis. DGGE profiles of PCR products amplified with functional gene primer sets that targeted the mxaF andpmoA genes revealed that there were pronounced community shifts when CH4 oxidation began. High CH4concentrations stimulated both type I and II methanotrophs in rice field soil with a nonsaturated water content, as determined with both ribosomal and functional gene markers.

Impact of long-term fertilizer treatment on the microeukaryotic community structure of a rice field soil

2015 ◽  
Vol 80 ◽  
pp. 237-243 ◽  
Author(s):  
Jun Murase ◽  
Azusa Hida ◽  
Kaori Ogawa ◽  
Toshihiro Nonoyama ◽  
Nanako Yoshikawa ◽  
...  
Keyword(s):  
Community Structure ◽  
Rice Field ◽  
Fertilizer Treatment ◽  
Field Soil ◽  
Rice Field Soil

scholarly journals Response of the protistan community of a rice field soil to different oxygen tensions

2017 ◽  
Vol 93 (5) ◽  
Author(s):  
Yuriko Takenouchi ◽  
Kazufumi Iwasaki ◽  
Jun Murase
Keyword(s):  
Rice Field ◽  
Field Soil ◽  
Rice Field Soil ◽  
Oxygen Tensions

scholarly journals Streptacidiphilus oryzae sp. nov., an actinomycete isolated from rice-field soil in Thailand

2006 ◽  
Vol 56 (6) ◽  
pp. 1257-1261 ◽  
Author(s):  
Liming Wang ◽  
Ying Huang ◽  
Zhiheng Liu ◽  
Michael Goodfellow ◽  
Carlos Rodríguez
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Rice Field ◽  
Gene Tree ◽  
Morphological Properties ◽  
Rrna Gene ◽  
New Taxon ◽  
Field Soil ◽  
Rice Field Soil

The taxonomic position of ten acidophilic actinomycetes isolated from an acidic rice-field soil was established using a polyphasic approach. 16S rRNA gene sequences determined for the isolates were aligned with corresponding sequences of representatives of the genera Kitasatospora, Streptacidiphilus and Streptomyces and phylogenetic trees were inferred using four tree-making algorithms. The isolates had identical sequences and formed a distinct branch at the periphery of the Streptacidiphilus 16S rRNA gene tree. The chemotaxonomic and morphological properties of representative isolates were consistent with their assignment to the genus Streptacidiphilus. The isolates shared nearly identical phenotypic profiles that readily distinguished them from representatives of the established species of Streptacidiphilus. It is evident from the genotypic and phenotypic data that the isolates form a homogeneous group that corresponds to a novel species in the genus Streptacidiphilus. The name proposed for this new taxon is Streptacidiphilus oryzae sp. nov.; the type strain is strain TH49T (=CGMCC 4.2012T=JCM 13271T).

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