Diversity and Phylogeny of Described Aerobic Methanotrophs

Dedysh, Svetlana N.; Knief, Claudia

doi:10.1007/978-3-319-74866-5_2

Cited by 60 publications

(57 citation statements)

References 83 publications

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“…Aerobic methanotrophs play a very important role in mitigation of methane, the second most important greenhouse gas (1). Strain FWC3, a Methylococcaceae member, was isolated (in 2018) from a fresh-brackish water canal sediment sample collected from Nagaon, Alibag, India (18.65° N; 72.86° E) in 2017, using enrichment and isolation method as described (2).…”

Section: Figmentioning

confidence: 99%

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

Khatri

Pandit

Mohite

et al. 2019

Preprint

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13We isolated a gammaproteobacterial methanotrophic strain FWC3, from canal sediment from 14 Western India. The strain oxidizes methane and can also grow on methanol. The draft 15 genome of the same was sequenced which showed a size of ~3.4 Mbp and 63% GC content. 16FWC3 is a coccoid, pale pink pigmented methanotroph and is seen in the form of diplococci, 17 triplets, tetrads or small aggregates. After comparison of the complete 16S rRNA gene 18 sequence, average amino-acid similarities and digital DNA-DNA hybridization values with 19 that of the neighboring type species, we propose that the strain belongs to a novel genus and 20 species, Ca. Methylolobus aquaticus FWC3 Ts . 21 22 78 79At present, FWC3 cannot be grown to a sufficient extent and preserved for long term storage, 80 which are requirements for the preservation in two international foreign culture collections 81 located in two different countries. Hence, we propose a Candidatus name, 'Candidatus 82 Methylolobus aquaticus' FWC3 Ts (taxonomic novelty based on the whole genome sequence). 83This proposal is as per the current proposal for describing novel species based on the genome 84 sequence and due to the fact that our genome fulfills the minimal standards for the use of 85 genome data for taxonomic purposes (9, 11). 86

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Section: Figmentioning

confidence: 99%

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

Khatri

Pandit

Mohite

et al. 2019

Preprint

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“…Methanotrophs have traditionally been divided into Gammaproteobacteria (Type I) and Alphaproteobacteria (Type II; Semrau, Dispirito, & Yoon, 2010). Type I methanotrophs are further subdivided into Type Ia, which includes the genera Methylosarcina, Methylobacter, Methylomonas and Methylomicrobium, and Type Ib, which includes the genera Methylococcus, Methyloparacoccus and Methyloterricola (Dedysh & Knief, 2018). Type II methanotrophs include Methylosinus and Methylocystis (Sengupta & Dick, 2017).…”

Section: Introductionmentioning

confidence: 99%

Co‐incorporation of Chinese milk vetch (Astragalus sinicus L.) and rice (Oryza sativa L.) straw minimizes CH₄ emissions by changing the methanogenic and methanotrophic communities in a paddy soil

Zhou

Gao

et al. 2020

European J Soil Science

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The practice of co‐incorporating rice straw and leguminous green manure (such as Chinese milk vetch) into paddy soils has become increasingly popular in the last 10 years, although its effect on soil CH4 emissions and microbial community structure is poorly understood. In this study, data from a 2‐year pot experiment were used to reveal the effects of the co‐incorporation of rice straw and Chinese milk vetch on CH4 emissions and methanogenic and methanotrophic communities in paddy soil. Five treatments were chosen: CK (unamended control), CF (inorganic fertilizer), FM (inorganic fertilizer and Chinese milk vetch, 20 g 10 kg−1 dry soil, 4.5 t ha−1), FR (inorganic fertilizer and rice straw, 20 g 10 kg−1 dry soil, 4.5 t ha−1) and FMR (inorganic fertilizer and Chinese milk vetch and rice straw mixture, 5 + 15 g 10 kg−1 dry soil, 1.125 + 2.375 t ha−1). Overall, the soil CH4 emissions in the 2 years under all residue treatments (104.4–122.8 and 83.3–133.3 g CH4 m−2) were higher than those in CK (57.0 and 20.7 g CH4 m−2) and CF (71.8 and 21.9 g CH4 m−2) treatments. The FMR treatment decreased CH4 emissions when compared with FM and FR, especially in the second year. A higher abundance of methanogens (mcrA gene copies) was found under the plant residue‐treated soils (4.35 × 108 g−1 dry soil on average) and FM increased the abundance of methanotrophs (pmoA gene copies, 2.68 × 106 g−1 dry soil). Application of plant residues changed the methanogenic and methanotrophic community structures in comparison with CF (e.g., markedly increased the populations of Methanobacteriales and Methylomonas and suppressed Methanomicrobiales and Methylobacter populations). Methane emissions were significantly and positively related to the mcrA and pmoA gene copy numbers, as well as the mcrA/pmoA ratio. The partial least squares path model (PLS‐PM) indicated that the rice plant biomass (path coefficient = 0.64), the abundance of methanogens (path coefficient = 0.57) and the community structure of methanotrophs (path coefficient = −0.59) were determinants of CH4 emissions. Among the three residue‐treated soils, FMR showed the lowest CH4 emissions and was associated with a slight decrease in the mcrA/pmoA ratio and a significant increase in the Type I/Type II methanotrophs ratio. Thus, we recommend the co‐incorporation of Chinese milk vetch and rice straw as a sustainable fertilization pattern to improve the growth of rice and minimize CH4 emissions. Highlights Residue application improves rice productivity (except for FR), soil fertility and CH4 emissions. Co‐incorporation of MV and RS reduces CH4 emissions in comparison with pure MV or RS addition. Residue application changes the community structure of methanogens and methanotrophs. The methanogenic abundance and the methanotrophic community structure determine the CH4 emissions.

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“…Methanotrophs play a vital role in the mitigation of wetland derived methane [2]. Methanotrophs are from the classes Alphaproteobacteria (Type II), Gammaproteobacteria (Type Ia and b) and recently have been reported from the phylum Verrucomicrobia [3]. Type Ib methanotrophs (earlier named as Type X) are major players in wetland and freshwater habitats, however, very few members have been isolated.…”

Section: Introductionmentioning

confidence: 99%

Description and Genome Analysis of <em>Methylotetracoccus aquaticus sp. nov</em>. , a Novel Tropical Wetland Methanotroph, with the Amended Description of <em>Methylotetracoccus gen. nov.</em>

Rahalkar¹,

Khatri²,

Mohite³

et al. 2020

Preprint

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We enriched and isolated a novel gammproteobacterial methanotroph; strain FWC3, from tropical freshwater wetland, near Nagaon beach, Alibag, India. FWC3 is a coccoid, flesh pink/peach pigmented, non-motile methanotroph and the cells are present in pairs and as tetracocci. The culture can grow on methane (20%) as well as on a wide range of methanol from concentrations (0.02%-5%). Based on the comparison of genome data, FAME analysis, morphological characters and biochemical characters, FWC3 belongs to the tentatively and newly but not validly described genus ‘Methylotetracoccus’ of which only a single species strain was described, Methylotetracoccus oryzae C50C1. The ANI index between FWC3 and C50C1 strains is 94%, and the DDH value is 55.7%, less than the cut-off values 96% and 70%, respectively. The genome size of FWC3 is smaller (3.4 Mbp) compared to that of C50C1 (4.8 Mbp). Additionally, the FAME profile of FWC3 shows differences in cell wall fatty acid profiles compared to Methylotetracoccus oryzae C50C1. Also, there are other differences on the morphological, physiological and genomic levels. We propose FWC3 to be a member of a novel species of the genus Methylotetracoccus, for which the name Methylotetracoccus aquaticus is proposed. Also, an amended description of the genus Methylotetracoccus gen. nov. is given here. FWC3 is available in two international culture collections with the accession numbers: MCC 4198 (Microbial Culture collection, India) and JCM 33786 (Japan Collection of Microorganisms, Japan).

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Diversity and Phylogeny of Described Aerobic Methanotrophs

Cited by 60 publications

References 83 publications

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

Co‐incorporation of Chinese milk vetch (Astragalus sinicus L.) and rice (Oryza sativa L.) straw minimizes CH₄ emissions by changing the methanogenic and methanotrophic communities in a paddy soil

Description and Genome Analysis of <em>Methylotetracoccus aquaticus sp. nov</em>. , a Novel Tropical Wetland Methanotroph, with the Amended Description of <em>Methylotetracoccus gen. nov.</em>

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Diversity and Phylogeny of Described Aerobic Methanotrophs

Cited by 60 publications

References 83 publications

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

A novel gammaproteobacterial methanotroph from Methylococccaeae; strain FWC3, isolated from canal sediment from Western India

Co‐incorporation of Chinese milk vetch (Astragalus sinicus L.) and rice (Oryza sativa L.) straw minimizes CH4 emissions by changing the methanogenic and methanotrophic communities in a paddy soil

Description and Genome Analysis of <em>Methylotetracoccus aquaticus sp. nov</em>. , a Novel Tropical Wetland Methanotroph, with the Amended Description of <em>Methylotetracoccus gen. nov.</em>

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Co‐incorporation of Chinese milk vetch (Astragalus sinicus L.) and rice (Oryza sativa L.) straw minimizes CH₄ emissions by changing the methanogenic and methanotrophic communities in a paddy soil