Granulicatella adiacens abscess: Two rare cases and review

Gupta, Sapna; Garg, Meenu; Misra, Sanjay; Singhal, Sanjay

doi:10.4103/jlp.jlp_58_17

Cited by 13 publications

(17 citation statements)

References 14 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The Node 1S4 swab of the dining table wall observed a higher abundance of Streptococcus species and other oral related species, such as Neisseria sp. and Granulicatelle sp., as compared to the other two locations [ 58 , 64 , 65 ], correlating with the astronaut saliva microbiome and previous ISS microbiome study [ 62 , 66 ]. The 15 most abundant suggested species found with this swab-to-sequencer method represented 74.6–88% of total suggested species identified onboard the ISS ( Figure 5 ).…”

Section: Resultsmentioning

confidence: 73%

Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station Using Nanopore Sequencing

Stahl-Rommel

Nguyen

Arnold

et al. 2021

Genes

View full text Add to dashboard Cite

For the past two decades, microbial monitoring of the International Space Station (ISS) has relied on culture-dependent methods that require return to Earth for analysis. This has a number of limitations, with the most significant being bias towards the detection of culturable organisms and the inherent delay between sample collection and ground-based analysis. In recent years, portable and easy-to-use molecular-based tools, such as Oxford Nanopore Technologies’ MinION™ sequencer and miniPCR bio’s miniPCR™ thermal cycler, have been validated onboard the ISS. Here, we report on the development, validation, and implementation of a swab-to-sequencer method that provides a culture-independent solution to real-time microbial profiling onboard the ISS. Method development focused on analysis of swabs collected in a low-biomass environment with limited facility resources and stringent controls on allowed processes and reagents. ISS-optimized procedures included enzymatic DNA extraction from a swab tip, bead-based purifications, altered buffers, and the use of miniPCR and the MinION. Validation was conducted through extensive ground-based assessments comparing current standard culture-dependent and newly developed culture-independent methods. Similar microbial distributions were observed between the two methods; however, as expected, the culture-independent data revealed microbial profiles with greater diversity. Protocol optimization and verification was established during NASA Extreme Environment Mission Operations (NEEMO) analog missions 21 and 22, respectively. Unique microbial profiles obtained from analog testing validated the swab-to-sequencer method in an extreme environment. Finally, four independent swab-to-sequencer experiments were conducted onboard the ISS by two crewmembers. Microorganisms identified from ISS swabs were consistent with historical culture-based data, and primarily consisted of commonly observed human-associated microbes. This simplified method has been streamlined for high ease-of-use for a non-trained crew to complete in an extreme environment, thereby enabling environmental and human health diagnostics in real-time as future missions take us beyond low-Earth orbit.

show abstract

Section: Resultsmentioning

confidence: 73%

Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station Using Nanopore Sequencing

Stahl-Rommel

Nguyen

Arnold

et al. 2021

Genes

View full text Add to dashboard Cite

show abstract

“…Sequence analysis of a throat swab sample from a 12-year-old girl showed Influenza A virus H3N2 with 1365 f. Haemophilus parainfluenzae (2469 f) and Escherichia coli (4226 f) detected. In addition, a number of bacteria that have been reported to have pathogenic potential were found in the sample: Granulicatella adiacens (45,700 f) [ 24 ], Capnocytophaga gingivalis (26,919 f) [ 25 ], Lautropia mirabilis (74,316 f) [ 26 ], Eikenella corrodens (7923 f) [ 27 ], Rothia mucilaginosa (3622 f), Peptoniphilus lacrimalis (3520 f) [ 28 ], Neisseria flavescens (1617 f) [ 29 ], and Actinomyces graevenitzii (2546 f).…”

Section: Resultsmentioning

confidence: 99%

Evaluation of Extraction Methods for Clinical Metagenomic Assay

et al. 2020

View full text Add to dashboard Cite

(1) Background: Clinical metagenomics is a promising approach that helps to identify etiological agents in cases of unknown infections. For the efficient detection of an unknown pathogen, the extraction method must be carefully selected for the maximum recovery of nucleic acid from different microorganisms. The aim of this study was to evaluate different extraction methods that have the ability to isolate nucleic acids from different types of pathogens with good quality and quantity for efficient use in clinical metagenomic identification. (2) Methods: A mock sample spiked with five different pathogens was used for the comparative evaluation of different commercial extraction kits. Extracted samples were subjected to library preparation and run on MiSeq. The selected extraction method based on the outcome of the comparative evaluation was used subsequently for the nucleic acid isolation of all infectious agents in clinical respiratory samples with multiple infections. (3) Results: The protocol using the PowerViral® Environmental RNA-DNA Isolation Kit with a 5-min bead beating step achieved the best results with a low starting volume. The analysis of the tested clinical specimens showed the ability to successfully identify different types of pathogens. (4) Conclusions: The optimized extraction protocol in this study is recommended for clinical metagenomics application in specimens with multiple infections from different taxa.

show abstract

“…Antibiotic susceptibility testing is problematic. Disc diffusion techniques are not recommended for Granulicatella isolates due to a lack of established breakpoints [ 8 , 9 ]. Broth microdilution and E-tests [ 10 ] using CLSI publishing guidelines 2007 or March 2017 EUCAST clinical breakpoint tables [ 11 ] may be used.…”

Section: Discussion and Literature Reviewmentioning

confidence: 99%

Granulicatella adiacens: An uncommon diagnosis of prosthetic hip joint infection. A case report with review of the literature

Badrick

Nusem

Heney

et al. 2021

IDCases

View full text Add to dashboard Cite

Highlights Prosthetic hip infection caused by Granulicatella adiacens . Diagnosis was achieved using broad range 16S PCR gene analysis at an early stage, after joint aspiration and culture failed to yield a pathogen. Granulicatella adiacens is a nutritionally variant streptococcus (NVS). Staged revision surgery together with administration of appropriate antibiotics resulted in cure. Diagnosis challenging, and often delays appropriate antibiotic administration.

show abstract

Granulicatella adiacens abscess: Two rare cases and review

Cited by 13 publications

References 14 publications

Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station Using Nanopore Sequencing

Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station Using Nanopore Sequencing

Evaluation of Extraction Methods for Clinical Metagenomic Assay

Granulicatella adiacens: An uncommon diagnosis of prosthetic hip joint infection. A case report with review of the literature

Contact Info

Product

Resources

About