Evidence map›Paper›PMID 34850832›Full record

ArticleClinical infectious diseases : an official publication of the Infectious Diseases Society of America2021

High-Resolution Genomic Profiling of Carbapenem-Resistant Klebsiella pneumoniae Isolates: A Multicentric Retrospective Indian Study.

Geetha Nagaraj, Varun Shamanna, Vandana Govindan, Steffimole Rose, D Sravani, K P Akshata, M R Shincy, V T Venkatesha, Monica Abrudan, Silvia Argimón and 5 more

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers, 4 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
44citing papers in PubMed, 4 pooled it
2.7field-weighted citation impact, top 8% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

44 citing papers in PubMed, 4 syntheses or guidelines pooled it, 55 citations in OpenAlex.

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  19. Mapping Antimicrobial Resistance inDiagnostics (Basel, Switzerland) · 2025
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors at 2 institutions in 2 countries.

Geetha NagarajCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
Varun ShamannaCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
Vandana GovindanCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
Steffimole RoseCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
D SravaniCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
K P AkshataCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
M R ShincyCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
V T VenkateshaCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
Monica AbrudanCentre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, UK.
Silvia ArgimónCentre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, UK.
Mihir KekreCentre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, UK.
Anthony UnderwoodCentre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, UK.
David M AanensenCentre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, UK.
K L RavikumarCentral Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India.
NIHR Global Health Research Unit on Genomic Surveillance of Antimicrobial Resistance
Kempegowda Institute of Medical Sciences · INUniversity of Oxford · GB

Funding

National Institute for Health Research 16_136_111
6 · The paper itself

Abstract

backgroundCarbapenem-resistant Klebsiella pneumoniae (CRKP) is a threat to public health in India because of its high dissemination, mortality, and limited treatment options. Its genomic variability is reflected in the diversity of sequence types, virulence factors, and antimicrobial resistance (AMR) mechanisms. This study aims to characterize the clonal relationships and genetic mechanisms of resistance and virulence in CRKP isolates in India. MATERIALS AND

methodsWe characterized 344 retrospective K. pneumoniae clinical isolates collected from 8 centers across India collected in 2013-2019. Susceptibility to antibiotics was tested with VITEK 2. Capsular types, multilocus sequence type, virulence genes, AMR determinants, plasmid replicon types, and a single-nucleotide polymorphism phylogeny were inferred from their whole genome sequences.

resultsPhylogenetic analysis of the 325 Klebsiella isolates that passed quality control revealed 3 groups: K. pneumoniae sensu stricto (n = 307), K. quasipneumoniae (n = 17), and K. variicola (n = 1). Sequencing and capsular diversity analysis of the 307 K. pneumoniae sensu stricto isolates revealed 28 sequence types, 26 K-locus types, and 11 O-locus types, with ST231, KL51, and O1V2 being predominant. blaOXA-48-like and blaNDM-1/5 were present in 73.2% and 24.4% of isolates, respectively. The major plasmid replicon types associated with carbapenase genes were IncF (51.0%) and Col group (35.0%).

conclusionOur study documents for the first time the genetic diversity of K and O antigens circulating in India. The results demonstrate the practical applicability of genomic surveillance and its utility in tracking the population dynamics of CRKP. It alerts us to the urgency for longitudinal surveillance of these transmissible lineages.

Indexed as

Klebsiella InfectionsKlebsiella pneumoniaeAnti-Bacterial AgentsBacterial Proteinsbeta-LactamasesCarbapenemsGenomicsHumansMicrobial Sensitivity TestsMultilocus Sequence TypingPhylogenyRetrospective StudiesAnti-Bacterial AgentsBacterial Proteinsbeta-LactamasesCarbapenemsblaOXA232carbapenem resistanceColKP3KL51K. pneumoniaeST231

Identifiers

PMID34850832
PMCPMC8634558
OpenAlexW3215764772

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.