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Biology subjects

Biggel, M.

Publications and source records attributed to Biggel, M..

2 recordsLinked to original sources

Development of shuttle vector-based transformation systems for Chlamydia pecorum and Chlamydia caviae

Chlamydia (C.) abortus, C. caviae and C. pecorum are obligate intracellular, zoonotic pathogens, which have all been associated with community-acquired pneumonia in humans. C. abortus is the causative agent of enzootic ovine abortion in small ruminants and can lead to miscarriage in women. C. caviae causes conjunctivitis in guinea pigs, while C. pecorum is found in livestock, resulting in economic losses and contributing to the decline of the koala population in Australia. Studying the biology of these bacteria has been challenging due to a dearth of genetic tools. This study aimed to establish transformation systems for C. abortus and C. pecorum using shuttle vectors and to expand upon already existing protocols for C. caviae. Shuttle vectors comprised the cryptic plasmid of the chlamydial species of interest, the pUC19 origin of replication (ori), a beta-lactamase (bla), and genes that mediate heterologous expression of fluorescent proteins (GFP, mNeonGreen, mScarlet). A C. suis-tailored transformation protocol and a previously established protocol for C. psittaci, C. trachomatis and C. pneumoniae were applied. While C. pecorum and C. caviae transformation experiments were successful, transformation of C. abortus remained ineffective. Shuttle vectors yielded stable transformants over several passages in the presence and absence of selective antibiotics while the fluorescence intensity of GFP was superior compared to mNeonGreen. Finally, we co-cultured GFP- and mScarlet-expressing C. pecorum strains demonstrating that both fluorophores can be detected in the same cell or even inclusion, possibly promoting homologous recombination. These findings open new avenues into our understanding of interstrain and interspecies co-infection dynamics both in vitro and in vivo.

microbiology↗

Oxford Nanopore's 2024 sequencing technology for Listeria monocytogenes outbreak detection and source attribution: progress and clone-specific challenges

Whole genome sequencing is an essential cornerstone of pathogen surveillance and outbreak detection. Established sequencing technologies are currently challenged by Oxford Nanopore Technologies (ONT), which offers an accessible and cost-effective alternative enabling gap-free assemblies of chromosomes and plasmids. Limited accuracy has hindered its use for investigating pathogen transmission, but recent technology updates have brought significant improvements. To evaluate its readiness for outbreak detection, we selected 78 Listeria monocytogenes isolates from diverse lineages or known epidemiological clusters for sequencing with ONTs V14 Rapid Barcoding Kit and R10.4.1 flow cells. The most accurate of several tested workflows generated assemblies with a median of one error (SNP or indel) per assembly. For 66 isolates, cgMLST profiles from ONT-only assemblies were identical to those generated from Illumina data. Eight assemblies were of lower quality with more than 20 erroneous sites each, primarily caused by methylations at the GAAGAC motif (5'-GAAG6mAC-3 / 3'-GT4mCTTC-5'). This led to inaccurate clustering, failing to group isolates from a persistence-associated clone that carried the responsible restriction-modification system. Out of 50 methylation motifs detected among the 78 isolates, only the GAAGAC motif was linked to substantially increased error rates. Our study shows that most L. monocytogenes genomes assembled from ONT-only data are suitable for high-resolution genotyping, but further improvements of chemistries or basecallers are required for reliable routine use in outbreak and food safety investigations.

genomics↗