Thermostaphylospora grisealba gen. nov., sp. nov., isolated from mushroom compost and transfer of Thermomonospora chromogena Zhang et al. 1998 to Thermostaphylospora chromogena comb. nov.

Wu, Hao; Liu, Bin; Shao, Yuanyuan; Ou, Xiaoyun; Huang, Fuchang

doi:10.1099/ijsem.0.002551

Cited by 22 publications

(5 citation statements)

References 38 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In turn, T. chromogena (Krasil'nikov and Agre, 1965 ; McCarthy and Cross, 1984 ) is phylogenetically placed within Streptosporangiaceae . While the problematic positioning of T. chromogena was recently fixed by taxonomically assigning the species to the genus Thermostaphylospora (Wu et al, 2018 ), the classification of Thermomonospora remained unsatisfactory.…”

Section: Resultsmentioning

confidence: 99%

See 1 more Smart Citation

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

View full text Add to dashboard Cite

The application of phylogenetic taxonomic procedures led to improvements in the classification of bacteria assigned to the phylum Actinobacteria but even so there remains a need to further clarify relationships within a taxon that encompasses organisms of agricultural, biotechnological, clinical, and ecological importance. Classification of the morphologically diverse bacteria belonging to this large phylum based on a limited number of features has proved to be difficult, not least when taxonomic decisions rested heavily on interpretation of poorly resolved 16S rRNA gene trees. Here, draft genome sequences of a large collection of actinobacterial type strains were used to infer phylogenetic trees from genome-scale data using principles drawn from phylogenetic systematics. The majority of taxa were found to be monophyletic but several orders, families, and genera, as well as many species and a few subspecies were shown to be in need of revision leading to proposals for the recognition of 2 orders, 10 families, and 17 genera, as well as the transfer of over 100 species to other genera. In addition, emended descriptions are given for many species mainly involving the addition of data on genome size and DNA G+C content, the former can be considered to be a valuable taxonomic marker in actinobacterial systematics. Many of the incongruities detected when the results of the present study were compared with existing classifications had been recognized from 16S rRNA gene trees though whole-genome phylogenies proved to be much better resolved. The few significant incongruities found between 16S/23S rRNA and whole genome trees underline the pitfalls inherent in phylogenies based upon single gene sequences. Similarly good congruence was found between the discontinuous distribution of phenotypic properties and taxa delineated in the phylogenetic trees though diverse non-monophyletic taxa appeared to be based on the use of plesiomorphic character states as diagnostic features.

show abstract

Section: Resultsmentioning

confidence: 99%

“…The description is as before (Wu et al, 2018 ) with the following modification. The G+C content of the type-strain genome is 71.0%, its approximate size 5.99 Mbp, its GenBank deposit SAMN04489764 .…”

Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

View full text Add to dashboard Cite

show abstract

“…In conclusion, based on the results of this genome-based phylogenetic study, the family Streptosporangiaceae is composed of 19 genera: the type genus Streptosporangium [47] and the genera Acrocarpospora [48], Bailinhaonella [18], Herbidospora [49], Microbispora [50], Microtetraspora [51], Nonomuraea [52], Planobispora [53], Planomonospora [54], Planotetraspora [55], Sinosporangium [56], Sphaerimonospora [57], Sphaerisporangium [5], Thermoactinospora [58], Thermobispora [59], Thermocatellispora [60], Thermopolyspora [61], Thermostaphylospora [62] and Spongiactinospora [19] with the reclassification of Desertactinospora gelatinilytica [20] as Spongiactinospora gelatinilytica comb. nov.…”

Section: Resultsmentioning

confidence: 99%

Phylogenomic revision of the family Streptosporangiaceae, reclassification of Desertactinospora gelatinilytica as Spongiactinospora gelatinilytica comb. nov. and a taxonomic home for the genus Sinosporangium in the family Streptosporangiaceae

Saygin

Şahi̇n

2020

International Journal of Systematic and Evolutionary Microbiology

View full text Add to dashboard Cite

show abstract

“…4 ). Increasing in the Young phase, this group included the Bacillales species: Bacillus borbori , Bacillus coagulans , Brevibacillus thermoruber , Brevibacillus borstelens is, Cohnella panacarvi , Ureibacillus terrenus , Thermobacillus composti , as well as four Paenibacillus and three Geobacillus species ( Ali, Hemeda & Abdelaliem, 2019 ; Makky, 2009 ; Odeniyi, Onilude & Ayodele, 2009 ; Ting et al, 2013 ; Togo et al, 2016 ; Wang et al, 2013 ; Watanabe et al, 2007 ; Zainudin et al, 2013 ), while increases from Young to Middle phase were limited to the species Clostridium colicanis , Gracilibacter thermotolerans and Ruminiclostridium thermocellum from Clostridiales, and Thermomonospora curvata and Thermomonospora chromogena from Streptosporangiales ( File S2 ) ( Chertkov et al, 2011 ; Greetham et al, 2003 ; Sheng et al, 2016 ; Wu et al, 2018 ). Within the plant cell wall matrix, cellulose is recalcitrant to deconstruction and requires the sequential action of enzymes (endoglucanases, cellobiohydrolases and β-glucosidases) for glucose liberation ( Béguin & Aubert, 1994 ), which are characterized by higher efficiency under thermophilic conditions ( Tuomela et al, 2000 ).…”

Section: Discussionmentioning

confidence: 99%

Dynamics of bacterial and archaeal communities during horse bedding and green waste composting

Grenier

González

Brereton

et al. 2023

PeerJ

View full text Add to dashboard Cite

Organic waste decomposition can make up substantial amounts of municipal greenhouse emissions during decomposition. Composting has the potential to reduce these emissions as well as generate sustainable fertilizer. However, our understanding of how complex microbial communities change to drive the chemical and biological processes of composting is still limited. To investigate the microbiota associated with organic waste decomposition, initial composting feedstock (Litter), three composting windrows of 1.5 months (Young phase), 3 months (Middle phase) and 12 months (Aged phase) old, and 24-month-old mature Compost were sampled to assess physicochemical properties, plant cell wall composition and the microbial community using 16S rRNA gene amplification. A total of 2,612 Exact Sequence Variants (ESVs) included 517 annotated as putative species and 694 as genera which together captured 57.7% of the 3,133,873 sequences, with the most abundant species being Thermobifida fusca, Thermomonospora chromogena and Thermobifida bifida. Compost properties changed rapidly over time alongside the diversity of the compost community, which increased as composting progressed, and multivariate analysis indicated significant variation in community composition between each time-point. The abundance of bacteria in the feedstock is strongly correlated with the presence of organic matter and the abundance of plant cell wall components. Temperature and pH are the most strongly correlated parameters with bacterial abundance in the thermophilic and cooling phases/mature compost respectively. Differential abundance analysis revealed 810 ESVs annotated as species significantly varied in relative abundance between Litter and Young phase, 653 between the Young and Middle phases, 1182 between Middle and Aged phases and 663 between Aged phase and mature Compost. These changes indicated that structural carbohydrates and lignin degrading species were abundant at the beginning of the thermophilic phase, especially members of the Firmicute and Actinobacteria phyla. A high diversity of species capable of putative ammonification and denitrification were consistently found throughout the composting phases, whereas a limited number of nitrifying bacteria were identified and were significantly enriched within the later mesophilic composting phases. High microbial community resolution also revealed unexpected species which could be beneficial for agricultural soils enriched with mature compost or for the deployment of environmental and plant biotechnologies. Understanding the dynamics of these microbial communities could lead to improved waste management strategies and the development of input-specific composting protocols to optimize carbon and nitrogen transformation and promote a diverse and functional microflora in mature compost.

show abstract

Thermostaphylospora grisealba gen. nov., sp. nov., isolated from mushroom compost and transfer of Thermomonospora chromogena Zhang et al. 1998 to Thermostaphylospora chromogena comb. nov.

Cited by 22 publications

References 38 publications

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Phylogenomic revision of the family Streptosporangiaceae, reclassification of Desertactinospora gelatinilytica as Spongiactinospora gelatinilytica comb. nov. and a taxonomic home for the genus Sinosporangium in the family Streptosporangiaceae

Dynamics of bacterial and archaeal communities during horse bedding and green waste composting

Contact Info

Product

Resources

About