Analysis of the Type II-A CRISPR-Cas System in &lt;i&gt;Streptococcus canis&lt;/i&gt; Isolated from Diseased Companion Animals and One Human Patient in Japan

Yoshida, Haruno; Fukushima, Yosuke; Goto, Mieko; Tsuyuki, Yuzo; Takahashi, Takashi

doi:10.7883/yoken.jjid.2018.492

Cited by 3 publications

(2 citation statements)

References 12 publications

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“…A majority, 29 genomes (55.76%) of the CRISPR-Cas systems of the GBS genomes were of Type II-A, while 15 (28.84%) genomes contained both Type II-A and I-C type of the CRISPR-Cas system. This composition is similar to the that of CRISPR-Cas of other Streptococcus species like S. canis [26] and S. pyogenes [27]. The type I-C in GBS contains seven cas genes (cas3, cas5c, cas8c, cas7, cas4, cas1 and cas2) similar to the ones found in S.…”

Section: Discussionsupporting

confidence: 70%

Comparative genomics reveals the diversity of CRISPR-Cas systems among neonatal sepsis causing group BStreptococcus agalactiae

Ghate,

Rao,

Shastry

et al. 2023

Preprint

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The pathogenStreptococcus agalactiae, or Group BStreptococcus(GBS) infection is the leading cause of neonatal sepsis and meningitis in neonates. In this study, we aimed to investigate the occurrence and diversity of the CRISPR-Cas system inS. agalactiaegenomes using computational biology approaches. A total of 51 out of 52 complete genomes (98.07%) ofS. agalactiaepossess CRISPR arrays (75 CRISPR arrays) with 17 strains possessing multiple CRISPR arrays. There were only two CRISPR-Cas systems – type II-A system and type I-C system inS. agalactiaestrains. RNA secondary structure analysis through direct repeat analysis showed that the analyzed strains could form stable secondary structures. The 16S rRNA phylogeny exhibited clustering of the strains into three major clades grouped on the type of CRISPR-Cas system. The anti-CRISPRs that contribute to CRISPR-Cas system diversity and prevent genome editing were also detected. These results provide valuable insights into elucidating the evolution, diversity, and function of CRISPR/Cas elements in this pathogen.

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Section: Discussionsupporting

confidence: 70%

Comparative genomics reveals the diversity of CRISPR-Cas systems among neonatal sepsis causing group BStreptococcus agalactiae

Ghate,

Rao,

Shastry

et al. 2023

Preprint

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“…Putative CRISPR spacers were predicted with CRISPRCasFinder (https://crisprcas.i2bc .paris-saclay.fr) (30,31). A huge difference was noticed between the two strains in the number of spacers identified.…”

Section: Resultsmentioning

confidence: 99%

Novel Sulfolobus Fuselloviruses with Extensive Genomic Variations

Zhang

Zheng

Wang

et al. 2020

J Virol

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Fuselloviruses are among the most widespread and best-characterized archaeal viruses. They exhibit remarkable diversity, as the list of members of this family is rapidly growing. However, it has yet to be shown how a fuselloviral genome may undergo variation at the levels of both single nucleotides and sequence stretches. Here, we report the isolation and characterization of four novel spindle-shaped viruses, named Sulfolobus spindle-shaped viruses 19 to 22 (SSV19-22), from a hot spring in the Philippines. SSV19 is a member of the genus Alphafusellovirus, whereas SSV20-22 belong to the genus Betafusellovirus. The genomes of SSV20-SSV22 are identical except for the presence of two large variable regions, as well as numerous sites of single-nucleotide polymorphisms (SNPs) unevenly distributed throughout the genomes and enriched in certain regions, including the gene encoding the putative end filament protein VP4. We show that coinfection of the host with SSV20 and SSV22 led to the formation of an SSV21-like virus, presumably through homologous recombination. In addition, large numbers of SNPs were identified in DNA sequences retrieved by PCR amplification targeting the SSV20-22 vp4 gene from the original enrichment culture, indicating the enormous diversity of SSV20-22-like viruses in the environment. The high variability of VP4 is consistent with its potential role in host recognition and binding by the virus. IMPORTANCE How a virus survives in the arms race with its host is an intriguing question. In this study, we isolated and characterized four novel fuselloviruses, named Sulfolobus spindle-shaped viruses 19 to 22 (SSV19-22). Interestingly, SSV20-22 differ primarily in two genomic regions and are apparently convertible through homologous recombination during coinfection. Moreover, sites of single-nucleotide polymorphism (SNP) were identified throughout the genomes of SSV20-22 and, notably, enriched in certain regions, including the gene encoding the putative end filament protein VP4, which is believed to be involved in host recognition and binding by the virus.

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Genogrouping of type II-A CRISPR array in Streptococcus dysgalactiae subsp. equisimilis from humans and companion animals compared to multilocus sequence and emm typing

Fukushima¹,

Takayama²,

Yoshida³

et al. 2022

Journal of Infection and Chemotherapy

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Analysis of the Type II-A CRISPR-Cas System in <i>Streptococcus canis</i> Isolated from Diseased Companion Animals and One Human Patient in Japan

Cited by 3 publications

References 12 publications

Comparative genomics reveals the diversity of CRISPR-Cas systems among neonatal sepsis causing group BStreptococcus agalactiae

Comparative genomics reveals the diversity of CRISPR-Cas systems among neonatal sepsis causing group BStreptococcus agalactiae

Novel Sulfolobus Fuselloviruses with Extensive Genomic Variations

Genogrouping of type II-A CRISPR array in Streptococcus dysgalactiae subsp. equisimilis from humans and companion animals compared to multilocus sequence and emm typing

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