Identification and Classification of Microbes

Bisen, Prakash S.; Debnath, Mousumi; Prasad, G. V. R.

doi:10.1002/9781118311912.ch4

Cited by 3 publications

(1 citation statement)

References 58 publications

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“…Historical changes in classification are the fossilized indicators of conceptual revolutions” (1). Historically, bacterial species delimitation relied on the phenotypic, morphological, and chemotaxonomic characterization (2–4). The 1960s saw the introduction of molecular techniques in bacterial species delimitation through the use of GC-content (5), DNA-DNA hybridization (6), and 16S rRNA sequencing (7, 8).…”

Section: Introductionmentioning

confidence: 99%

Using Core Genome Alignments to Assign Bacterial Species

Chung

Munro²,

Hotopp

2018

Preprint

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17With the exponential increase in the number of bacterial taxa with genome sequence data, a new 18 standardized method is needed to assign bacterial species designations using genomic data that is 19 consistent with the classically-obtained taxonomy. This is particularly acute for unculturable obligate 20 intracellular bacteria like those in the Rickettsiales, where classical methods like DNA-DNA hybridization 21 cannot be used to define species. Within the Rickettsiales, species designations have been applied 22 inconsistently, often obfuscating the relationship between organisms and the context for experimental 23 results. In this study, we generated core genome alignments for a wide range of genera with classically 24 defined species, including Arcobacter,

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Section: Introductionmentioning

confidence: 99%

Using Core Genome Alignments to Assign Bacterial Species

Chung

Munro²,

Hotopp

2018

Preprint

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Antimicrobial Peptides and Macromolecules for Combating Microbial Infections: From Agents to Interfaces

Zhang

et al. 2022

ACS Appl. Bio Mater.

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Bacterial resistance caused by the overuse of antibiotics and the shelter of biofilms has evolved into a global health crisis, which drives researchers to continuously explore antimicrobial molecules and strategies to fight against drug-resistant bacteria and biofilm-associated infections. Cationic antimicrobial peptides (AMPs) are considered to be a category of potential alternative for antibiotics owing to their excellent bactericidal potency and lesser likelihood of inducing drug resistance through their distinctive antimicrobial mechanisms. In this review, the hitherto reported plentiful action modes of AMPs are systematically classified into 15 types and three categories (membrane destructive, nondestructive membrane disturbance, and intracellular targeting mechanisms). Besides natural AMPs, cationic polypeptides, synthetic polymers, and biopolymers enable to achieve tunable antimicrobial properties by optimizing their structures. Subsequently, the applications of these cationic antimicrobial agents at the biointerface as contact-active surface coatings and multifunctional wound dressings are also emphasized here. At last, we provide our perspectives on the development of clinically significant cationic antimicrobials and related challenges in the translation of these materials.

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Using Core Genome Alignments To Assign Bacterial Species

et al. 2018

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With the increasing availability of genome sequences, we sought to develop and apply a robust, portable, and high-resolution method for the assignment of genera and species designations that can recapitulate classically defined taxonomic designations. Using cutoffs derived from the lengths and sequence identities of core genome alignments along with phylogenetic analyses, we sought to evaluate or reevaluate genus- and species-level designations for diverse taxa, with an emphasis on the order Rickettsiales, where species designations have been applied inconsistently. Our results indicate that the Rickettsia genus has an overabundance of species designations, that the current Anaplasma and Neorickettsia genus designations are both too broad and need to be divided, and that there are clear demarcations of Wolbachia species that do not align precisely with the existing supergroup designations.

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Identification and Classification of Microbes

Cited by 3 publications

References 58 publications

Using Core Genome Alignments to Assign Bacterial Species

Using Core Genome Alignments to Assign Bacterial Species

Antimicrobial Peptides and Macromolecules for Combating Microbial Infections: From Agents to Interfaces

Using Core Genome Alignments To Assign Bacterial Species

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