First Report of Coexistence of Three Different MDR Plasmids, and That of Occurrence of IMP-Encoding Plasmid in Leclercia adecarboxylata

Yin, Zhe; Hu, Lingfei; Cheng, Qiaoxiang; Jiang, Xiaoyuan; Xu, Yanan; Yang, Wenhui; Yang, Huinying; Zhao, Yuee; Gao, Bo; Wang, Jinglin; Dai, Erfu; Zhou, Dongsheng

doi:10.3389/fmicb.2019.02468

Cited by 4 publications

(2 citation statements)

References 38 publications

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“…Fifthly, a K-antigen gene cluster was present only in pL21-1NR. Sixthly, a 13.5-kb backbone region matching IncFII plasmid pKp_Goe_414-4 34 was found in pBJ20-tetA, p71221-mphA, and pW08291-tetA; a 8.3-kb one and a 25.7-kb one, a 7.4-kb one, and a 43.6-kb one matching IncFII plasmids p1220-CTXM 35 and pKPN1705-2 (CP022825), p16005813A, 36 and IncI plasmid p628-CTXM 37 in pW08291-tetA and pA2508-emrE, pL21-1NR, and pSC138, respectively.…”

Section: Resultsmentioning

confidence: 98%

IncFIB-4.1 and IncFIB-4.2 Single-Replicon Plasmids: Small Backbones with Large Accessory Regions

Xu¹,

Jing²,

Hu³

et al. 2022

IDR

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Purpose To establish a typing scheme for IncFIB replicon and to dissect genomic features of IncFIB-4.1/4.2 single-replicon plasmids. Methods A total of 146 representative fully sequenced IncFIB-replicon-containing plasmids were selected to construct a phylogenetic tree of repB IncFIB sequences. A collection of nine IncFIB-4.1/4.2 single-replicon plasmids from China were fully sequenced here and compared with the first sequenced IncFIB-4.1/4.2 single-replicon plasmids from GenBank to dissect their genomic diversity. Results In this study, a repB sequence-based scheme was proposed for grouping IncFIB replicon into seven primary types and further into 70 subtypes. A collection of nine IncFIB-4.1/4.2 single-replicon plasmids were fully sequenced here and compared with the first sequenced IncFIB-4.1/4.2 single-replicon plasmids from GenBank. These 11 plasmids had small backbones and shared only three key backbone markers repB together with its iterons, parABC , and stbD . Each plasmid contained one large accessory region (LAR) inserted into the backbone, and these 11 LARs had significantly distinct profiles of mobile genetic elements (MGEs) and resistance/metabolism gene loci. Antibiotic resistance regions (ARRs; the antibiotic resistance gene-containing genetic elements) were found in seven of these 11 LARs. Besides resistance genes, ARRs carried unit or composite transposons, integrons, and putative resistance units. IncFIB-4.1/4.2 single-replicon plasmids were important vectors of drug resistance genes. This was the first report of three novel MGEs: In1776, Tn 6755 , and Tn 6857 . Conclusion Data presented here provided a deeper insight into diversity and evolution of IncFIB replicon and IncFIB-4.1/4.2 single-replicon plasmids.

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Section: Resultsmentioning

confidence: 98%

IncFIB-4.1 and IncFIB-4.2 Single-Replicon Plasmids: Small Backbones with Large Accessory Regions

Xu¹,

Jing²,

Hu³

et al. 2022

IDR

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“…The genetic structure of the bla IMP– 8 gene in ZDHYF418 and the sequences most similar to ZDHYF418 by BLAST are shown in Figure 1 . The genetic structure around bla IMP– 8 in C. thiooxydans ZDHYF418 has a percent identity of 99.96 and 99.94% to the p447-IMP in K. pneumoniae (accession number: KY978631 ) ( Zhan et al, 2018 ) and p16005813B in Leclercia adecarboxylata , respectively (accession number: MK036884 ) ( Yin et al, 2019 ). The genetic structure of bla IMP– 8 gene in C. thiooxydans ZDHYF418 includes DDE-type integrase/transposase/recombinase–tniB–tniQ-recombinase family protein-aac(6′)-Ib-cr-bla IMP– 8 -intI1 .…”

Section: Resultsmentioning

confidence: 99%

Emergence of IMP-8-Producing Comamonas thiooxydans Causing Urinary Tract Infection in China

Guo

Wang

et al. 2021

Front. Microbiol.

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The emergence of carbapenem resistance (CR) caused by hydrolytic enzymes called carbapenemases has become a major concern worldwide. So far, CR genes have been widely detected in various bacteria. However, there is no report of CR gene harboring Comamonas thiooxydans. We first isolated a strain of an IMP-8-producing C. thiooxydans from a patient with urinary tract infection in China. Species identity was determined using MALDI-TOF MS analysis and carbapenemase-encoding genes were detected using PCR. The complete genomic sequence of C. thiooxydans was identified using Illumina Novaseq and Oxford Nanopore PromethION. Antimicrobial susceptibility analysis indicated that the C. thiooxydans strain ZDHYF418 was susceptible to imipenem, intermediate to meropenem, and was resistant to aztreonam, fluoroquinolones, and aminoglycosides. The blaIMP–8 gene was chromosomally located, and was part of a Tn402-like class 1 integron characterized by the following structure: DDE-type integrase/transposase/recombinase-tniB-tniQ-recombinase family protein-aac(6′)-Ib-cr-blaIMP–8-intI1. Phylogenetic analysis demonstrated that the closest relative of ZDHYF418 is C. thiooxydans QYY (accession number: CP053920.1). We detected 330 SNP differences between ZDHYF418 and C. thiooxydans QYY. Strain QYY was isolated from activated sludge in Jilin province, China in 2015. In summary, we isolated a strain of C. thiooxydans that is able to produce IMP-8 and a novel blaOXA. This is the first time that a CR gene has been identified in C. thiooxydans. The occurrence of the strain needs to be closely monitored.

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The genome, pangenome, and physiological analysis of Leclercia adecarboxylata (kcgeb_e1), a plant growth-promoting bacterium

Saeed,

Sudalaimuthuasari,

Purayil

et al. 2024

Discov Appl Sci

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Plant growth-promoting bacteria (PGPB) as biofertilizer plays an important role in agriculture practices. In this study, we isolated and identified plant-associated bacteria Leclercia adecarboxylata (kcgeb_e1) from the root region of the halophytic plant Sesuvium verrucosum. We tested its physiological activity and the effect of inoculation, with and without salt, on photosynthesis using Cajanus cajan. Further, we sequenced the whole genome of L. adecarboxylata (kcgeb_e1) and carried out pangenome analysis with 12 other genomes of the same species, which highlights unique genes enriched for pathways involved in abiotic stress tolerance (salinity, drought and heat) and carbohydrate transport. Moreover, gene families involved in abiotic stress tolerance, host adhesion, and transport were under positive selection (e.g., Aldo/keto reductase family, Hemagglutinin, Porin, and sugar transport). We observed a loss of ACC deaminase gene in this pangenome; however, this strain can still produce 1-aminocyclopropane-1-carboxylate (ACC), an enhancer of abiotic stress, which suggests that its homologue, d-cysteine sulfatase, has a bifunctional activity. In addition, this strain has Indole acetic acid (IAA) and phosphate solubilization activity. Combining these findings with the efficiency of colonizing the root surface of Solanum lycopersicum, this strain showed remarkable enhancement of photosynthesis, comparing control to inoculated plants. This increase in photosynthesis is consistent with an increase in sucrose under salt treatment, but not in glucose and fructose, which acts as a sensor in opposing the negative effect of salinity and promoting sustainable growth. Given all this, our study suggests that this PGPB can act as a biofertilizer for sustainable agriculture.

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First Report of Coexistence of Three Different MDR Plasmids, and That of Occurrence of IMP-Encoding Plasmid in Leclercia adecarboxylata

Cited by 4 publications

References 38 publications

IncFIB-4.1 and IncFIB-4.2 Single-Replicon Plasmids: Small Backbones with Large Accessory Regions

IncFIB-4.1 and IncFIB-4.2 Single-Replicon Plasmids: Small Backbones with Large Accessory Regions

Emergence of IMP-8-Producing Comamonas thiooxydans Causing Urinary Tract Infection in China

The genome, pangenome, and physiological analysis of Leclercia adecarboxylata (kcgeb_e1), a plant growth-promoting bacterium

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