Classification of thermophilic actinobacteria isolated from arid desert soils, including the description of Amycolatopsis deserti sp. nov.

Busarakam, Kanungnid; Brown, Ros; Bull, Alan T.; Tan, Geok Yuan Annie; Zucchi, Tiago Domingues; Silva, Leonardo José da; Souza, Wallace Rafael de; Goodfellow, Michael

doi:10.1007/s10482-015-0635-8

Cited by 23 publications

(13 citation statements)

References 49 publications

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“…Basonym: Yuhushiella deserti Mao et al 2011 (The name Amycolatopsis deserti has already been published (Busarakam et al, 2016 ) hence a new epithet has been chosen to avoid homonyms).…”

Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

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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.

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“…Basonym: Yuhushiella deserti Mao et al 2011 (The name Amycolatopsis deserti has already been published (Busarakam et al, 2016 ) hence a new epithet has been chosen to avoid homonyms).…”

Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

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“…A steady flow of filamentous actinobacteria recovered from other nonpolar deserts have been validly named as new species, they include Amycolatopsis desertii (Busarakam et al ), Desertiactinospora gelatinilytica (Saygin et al ), Nakamurella deserti (Liu et al , b), Prauserella isguensis (Saker et al ), Saccharothrix algeriensis (Zitouni et al ), Saccharothrix tharensis (Ibeyaima et al ) and Streptosporangium becharense (Chaouch et al ).…”

Section: Desertsmentioning

confidence: 99%

Extreme environments: microbiology leading to specialized metabolites

et al. 2019

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Summary The prevalence of multidrug‐resistant microbial pathogens due to the continued misuse and overuse of antibiotics in agriculture and medicine is raising the prospect of a return to the preantibiotic days of medicine at the time of diminishing numbers of drug leads. The good news is that an increased understanding of the nature and extent of microbial diversity in natural habitats coupled with the application of new technologies in microbiology and chemistry is opening up new strategies in the search for new specialized products with therapeutic properties. This review explores the premise that harsh environmental conditions in extreme biomes, notably in deserts, permafrost soils and deep‐sea sediments select for micro‐organisms, especially actinobacteria, cyanobacteria and fungi, with the potential to synthesize new druggable molecules. There is evidence over the past decade that micro‐organisms adapted to life in extreme habitats are a rich source of new specialized metabolites. Extreme habitats by their very nature tend to be fragile hence there is a need to conserve those known to be hot‐spots of novel gifted micro‐organisms needed to drive drug discovery campaigns and innovative biotechnology. This review also provides an overview of microbial‐derived molecules and their biological activities focusing on the period from 2010 until 2018, over this time 186 novel structures were isolated from 129 representatives of microbial taxa recovered from extreme habitats.

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“…Members of the genus Amycolatopsis are well known producers of secondary metabolites which can be exploited for biotechnological applications (Tan and Goodfellow, 2015;Sangal et al, 2018). Amycolatopsis species are commonly found in arid or hyper-arid soils (Tan and Goodfellow, 2015) as exemplified by the description of recent novel Amycolatopsis from desert soils (Busarakam et al, 2016;Idris et al, 2018). However, these sources have been explored only for bioactive compounds producing Amycolatopsis.…”

Section: Diversity Of Pla-degrading Actinobacteria: How To Find and Wmentioning

confidence: 99%

Actinobacteria as Promising Candidate for Polylactic Acid Type Bioplastic Degradation

Butbunchu

Pathom-aree

2019

Front. Microbiol.

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Polylactic acid (PLA) is one of the most commercially available and exploited bioplastics worldwide. It is an important renewable polymer for the replacement of petroleumbased plastic materials. They are both biodegradable and bio-based plastic. Microbial degrading activity is a desirable method for environmental safety and economic value for bioplastic waste managements. Members of the phylum actinobacteria are found to play an important role in PLA degradation. Most of the PLA degrading actinobacteria belong to the family Pseudonocardiaceae. Other taxa include members of the family Micromonosporaceae, Streptomycetaceae, Streptosporangiaceae, and Thermomonosporaceae. This mini-review aims to provide an overview on PLA degrading actinobacteria including their diversity and taxonomy, isolation and screening procedures and PLA degrading enzyme production from 1997 to 2019. Consideration is also given to where to sampling and how we might use these beneficial actinobacteria for PLA waste management.

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Classification of thermophilic actinobacteria isolated from arid desert soils, including the description of Amycolatopsis deserti sp. nov.

Cited by 23 publications

References 49 publications

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Extreme environments: microbiology leading to specialized metabolites

Actinobacteria as Promising Candidate for Polylactic Acid Type Bioplastic Degradation

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