A novel thermophilic Aeribacillus bacteriophage AP45 isolated from the Valley of Geysers, Kamchatka: genome analysis suggests the existence of a new genus within the Siphoviridae family

Morozova, Vera; Bokovaya, O; Kozlova, Yu. N.; Kurilshikov, Alexander; Бабкин, И. В.; Tupikin, A. E.; Bondar, Alexander A.; Ryabchikova, E. I.; Brayanskaya, A.; Peltek, S. E.; Tikunova, Nina

doi:10.1007/s00792-019-01119-2

Cited by 8 publications

(14 citation statements)

References 41 publications

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“…The authors confirmed that fast-growing bacteria contain more prophages in their genome, which might be one characteristic of KS04AU. Out of the four phage regions found in the KS04AU genome, the two intact phages were identical to the thermophyllic bacteriophage Aeribacillus bacteriophage AP45 [41], first isolated from the Kamchatka region, Russia, and Paenibacillus larvae bacteriophage Tripp from North Carolina, USA [42]. The two phage regions contain no phage lytic enzyme (lysin) gene to lyse the host strain; we, therefore, suggest KS04AU to be immune to these phages, making it a stable strain in relation to subsequent infections.…”

Section: Discussionmentioning

confidence: 99%

Genetic Characteristics and Enzymatic Activities of Bacillus velezensis KS04AU as a Stable Biocontrol Agent against Phytopathogens

Diabankana

Shulga

Validov

et al. 2022

IJPB

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Bacillus velezensis has a broad application in the agricultural and industrial sectors for its biocontrol properties and its potential active secondary metabolites. The defined phenotypic characteristics of a strain vary according to its ecosystem. We report the complete genomic analysis of B. velezensis KS04AU compared to four strains of B. velezensis (SRCM102752, ONU-553, FZB42, and JS25R) and two closely related Bacillus amyloliquefaciens (LL3 and IT-45). A total of 4771 protein coding genes comprises the KS04AU genome, in comparison with 3334 genes core genes found in the six other strains and the remaining 1437 shell genes. Average nucleotide identity of the target strain to the six other strains showed 99.65% to B. velezensis ONU-553, sharing 60 orthologous genes. Secondary metabolite gene cluster analysis of all strains showed that KS04AU has a mersacidin cluster gene, which is absent in the genome of the other strains. PHASTER analysis also showed KS04AU harboring two phages (Aeribacllus AP45 NC_048651 and Paenibacillus_Tripp NC_028930), which were also unique in comparison with the other strains. Analysis on anti-microbial resistance genes showed no difference in the genome of KS04AU to any of the other genomes, with the exception of B. amyloliquefaciens IT-45 which had one unique small multidrug-resistance antibiotic efflux-pump gene (qacJ). The CRISPR-Cas systems in the strains were also compared showing one CRISPR gene found only in KS04AU. Hydrolytic activity, antagonistic activity against phytopathogens (Fusarium oxysporum, Fusarium graminearum, Alternaria alternata and Pseudomonas syringae) and biocontrol against tomato foot and root rot experiments were carried out. B. velezensis KS04AU inhibits the growth of all phytopathogens tested, produces hydrolytic activity, and reduces Fusarium oxysporum f.sp. radicis-lycopersici (Forl) ZUM2407 lesions up to 46.02 ± 0.12%. The obtained results confirm B. velezensis KS04AU as a potential biocontrol strain for plant protection.

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Section: Discussionmentioning

confidence: 99%

Genetic Characteristics and Enzymatic Activities of Bacillus velezensis KS04AU as a Stable Biocontrol Agent against Phytopathogens

Diabankana

Shulga

Validov

et al. 2022

IJPB

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“…Similarly, the bacteriophage ϕOH2, which infects G. kaustophilus NBRC 102445(T), was isolated from the sediment of a hot spring [ 26 ] and bacteriophage AP45 and its host strain Aeribacillus sp. CEMTC656 were isolated from the Valley of Geysers, Kamchatka, Russia [ 27 ].…”

Section: Environment Relationmentioning

confidence: 99%

“…On the whole, the ubiquity of thermophages and their impact on various trophic levels seems to have a powerful direct influence on diverse microbial communities that play a crucial role in biogeochemical cycles. All this, in turn, plays a role in altering those cycles [ 27 , 28 , 29 ]. As a result, thermophages can affect/stimulate the modifications of those cycles.…”

Section: Environment Relationmentioning

confidence: 99%

“…Moreover, over half of the putative AP45 ORFs were highly similar to probacteriophage sequences of the Aeribacillus pallidus strain 8m3. It was suggested that the AP45 bacteriophage and revealed probacteriophages might be members of a new genus within the Siphoviridae family [ 27 ].…”

Section: ‘ Bacillus Group’ Bacteriophages—chronological Reviewmentioning

confidence: 99%

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Bacteriophages of Thermophilic ‘Bacillus Group’ Bacteria—A Review

et al. 2021

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Bacteriophages of thermophiles are of increasing interest owing to their important roles in many biogeochemical, ecological processes and in biotechnology applications, including emerging bionanotechnology. However, due to lack of in-depth investigation, they are underrepresented in the known prokaryotic virosphere. Therefore, there is a considerable potential for the discovery of novel bacteriophage-host systems in various environments: marine and terrestrial hot springs, compost piles, soil, industrial hot waters, among others. This review aims at providing a reference compendium of thermophages characterized thus far, which infect the species of thermophilic ‘Bacillus group’ bacteria, mostly from Geobacillus sp. We have listed 56 thermophages, out of which the majority belong to the Siphoviridae family, others belong to the Myoviridae and Podoviridae families and, apparently, a few belong to the Sphaerolipoviridae, Tectiviridae or Corticoviridae families. All of their genomes are composed of dsDNA, either linear, circular or circularly permuted. Fourteen genomes have been sequenced; their sizes vary greatly from 35,055 bp to an exceptionally large genome of 160,590 bp. We have also included our unpublished data on TP-84, which infects Geobacillus stearothermophilus (G. stearothermophilus). Since the TP-84 genome sequence shows essentially no similarity to any previously characterized bacteriophage, we have defined TP-84 as a new species in the newly proposed genus Tp84virus within the Siphoviridae family. The information summary presented here may be helpful in comparative deciphering of the molecular basis of the thermophages’ biology, biotechnology and in analyzing the environmental aspects of the thermophages’ effect on the thermophile community.

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“…Bryanskaya et al, published description of environmental factors for the composition of microbial communities of saline lakes in BMC Microbiology special issue [ 15 ]. While this journal issue has been in preparation, novel thermophilic Aeribacillus bacteriophage AP45 was isolated from the Kamchatka [ 16 ] as well as a thermophilic bacterium Geobacillus icigianus [ 17 ].…”

mentioning

confidence: 99%

Microbiology research at the systems biology and bioinformatics - 2019 (SBB-2019) school

et al. 2020

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A novel thermophilic Aeribacillus bacteriophage AP45 isolated from the Valley of Geysers, Kamchatka: genome analysis suggests the existence of a new genus within the Siphoviridae family

Cited by 8 publications

References 41 publications

Genetic Characteristics and Enzymatic Activities of Bacillus velezensis KS04AU as a Stable Biocontrol Agent against Phytopathogens

Genetic Characteristics and Enzymatic Activities of Bacillus velezensis KS04AU as a Stable Biocontrol Agent against Phytopathogens

Bacteriophages of Thermophilic ‘Bacillus Group’ Bacteria—A Review

Microbiology research at the systems biology and bioinformatics - 2019 (SBB-2019) school

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