Whole-Genome Sequences of Two Closely Related Bacteria,
 Actinomyces
 sp. Strain Chiba101 and Actinomyces denticolens DSM 20671
 T

Kanesaki, Yu; Ishige, Taichiro; Sekigawa, Yuriko; Kobayashi, Tomoko; Torii, Yasushi; Yokoyama, Eiji; Ishiwata, Hiroyuki; Hamada, Moriyuki; Tamura, Tomohiko; Azuma, Ryozo; Murakami, Satoshi

doi:10.1128/genomea.00126-17

Cited by 2 publications

(3 citation statements)

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“…Reference assembly was performed using the genome of A. denticolens strain Chiba 101 (GenBank: NZ_AP017896), isolated from an arthritic leg joint of a pig raised in Japan ( 22 ) as a reference sequence. The parameters for mapping the reads were as follows: match score = 1; mismatch cost = 2; insertion open cost = 6; insertion extend cost = 1; deletion open cost = 6; deletion extend cost = 1; length fraction = 0.5; and similarity fraction = 0.8.…”

Section: Methodsmentioning

confidence: 99%

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

et al. 2023

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IntroductionAbscessation of equine head lymph nodes can be caused by various bacteria, but Streptococcus equi subsp. equi is mainly involved. At our laboratory, samples of three unrelated horses with submandibular abscesses were found negative for S. equi, and further testing proved the presence of another genus. This raised the question for the exact identity of this pathogen and whether these isolates were epidemiologically related and it warranted further characterization with regards of virulence and resistance factors.MethodsCulture followed by identification using MALDI-TOF MS, MIC testing and whole genome sequencing (WGS) was performed to characterize the bacteria.ResultsBacterial culture and subsequent identification with MALDI-TOF MS resulted in the reliable identification of A. denticolens in two of the three cases. Final confirmation of A. denticolens for all three isolates was achieved by analysis of the WGS data, supported by multilocus sequence typing (MLST). The three isolates showed 95% nucleotide sequence identity. The number of single nucleotide polymorphisms (10,170 to 36,058) indicated that the isolates were not clonal, suggesting that these cases were epidemiologically unrelated. Only four known virulence related genes were detected. The absence of known antibiotic resistance genes was in line with the high susceptibility, as indicated by the susceptibility patterns obtained for two of the three isolates.ConclusionWe conclude that A. denticolens should be included in the differential diagnosis of (submandibular) lymph node abscessation in horses, especially if strangles cannot be confirmed with laboratory diagnostics. Furthermore, we report the first draft genome of A. denticolens isolated from horses.

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Section: Methodsmentioning

confidence: 99%

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

et al. 2023

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“…Based on the homology of the data deciphered by whole-genome sequences by Kanesaki et al . [ 13 ], ANI between Actinomyces denticolens DSM 20671 T (accession number BDIO01000001 to BDIO01000008) and the strain Chiba 101 (accession number AP017896) was calculated using the ANI Calculator ( http://www.ezbiocloud.net/tools/ani ). The selected house-keeping genes, atpA (ATP synthase F1, alpha subunit, ANA_0169), metG (methionyl-tRNA synthetase, ANA 1898), rpoB (DNA-directed RNA polymerase, beta subunit, ANA_1497), pgi (glucose-6-phosphate isomerase, ANA_0727), gltA (citrate synthase I, ANA_1674), gyrA (DNA gyrase, A subunit, ANA_2224), pheS (phenylalanyl-tRNA synthetase, alpha subunit, ANA_1034) and 2 genes for fimbrial proteins, Type-2 fimbriae fimA (ANA_0024 fimbrial structural subunit) and type-1 fimbriae fimP (ANA_2510 Type-1 fimbrial major subunit precursor) of strain Chiba 101 were compared to those of the Actinomyces denticolens DSM 20671 T .…”

Section: Methodsmentioning

confidence: 99%

“…Interestingly, we found that complete genome sequences of the strain Chiba 101 and the type-strain of Actinomyces denticolens (=DSM 20671 T ) had closely related each other [ 13 ]. We speculated that Actinomyces denticolens, strain Chiba 101 and “ Actinomyces suis ” Franke 1973 could possibly belong to the same species.…”

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Actinomyces denticolens as a causative agent of actinomycosis in animals

Murakami

Kobayashi

Sekigawa

et al. 2018

The Journal of Veterinary Medical Science

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The name “Actinomyces suis” was applied to each actinomycete isolate from swine actinomycosis by Grässer in 1962 and Franke in 1973. Nevertheless, this specific species was not included in the “Approved List of Bacterial Name” due to absence of the type cultures. Therefore, “Actinomyces suis” based on the description of Franke 1973 has been considered as “species incertae sedis”. We isolated a number of Actinomyces strains from swine. The representative strains of them was designated as Chiba 101 that was closely similar to the description in “Actinomyces suis” reported by Franke in 1973. Interestingly, it was found that the biological characteristics of these strains were also very similar to those of Actinomyces denticolens. Furthermore, the average nucleotide identity (ANI) value between strain Chiba 101 and the type-strain of Actinomyces denticolens (=DSM 20671T) was found to be 99.95%. Sequences of the housekeeping genes and 16S rRNA gene showed 100% homology. These results strongly suggested that “Actinomyces suis” Franke 1973 is the same species as Actinomyces denticolens. Since actinomycosis caused by Actinomyces denticolens have been demonstrated in horses recently, it is necessary to recognize that Actinomyces denticolens is the pathogenic actinomycetes in broader range of animals.

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Whole-Genome Sequences of Two Closely Related Bacteria, Actinomyces sp. Strain Chiba101 and Actinomyces denticolens DSM 20671 ^T

Cited by 2 publications

References 4 publications

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

<i>Actinomyces denticolens</i> as a causative agent of actinomycosis in animals

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Whole-Genome Sequences of Two Closely Related Bacteria, Actinomyces sp. Strain Chiba101 and Actinomyces denticolens DSM 20671 T

Cited by 2 publications

References 4 publications

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

Detection and molecular characterization of Actinomyces denticolens causing lymph node abscessation in horses

<i>Actinomyces denticolens</i> as a causative agent of actinomycosis in animals

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Whole-Genome Sequences of Two Closely Related Bacteria, Actinomyces sp. Strain Chiba101 and Actinomyces denticolens DSM 20671 ^T