Alexey Fomenkov
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Explore the profile of Alexey Fomenkov including associated specialties, affiliations and a list of published articles.
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64
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1269
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Recent Articles
1.
Johnson S, Weigele P, Fomenkov A, Ge A, Vincze A, Eaglesham J, et al.
Nucleic Acids Res
. 2024 Dec;
53(2.
PMID: 39657740
The availability of large databases of biological sequences presents an opportunity for in-depth exploration of gene diversity and function. Bacterial defense systems are a rich source of diverse but difficult...
2.
Soto-Serrano A, Li W, Panah F, Hui Y, Atienza P, Fomenkov A, et al.
Microb Genom
. 2024 Nov;
10(11).
PMID: 39526732
The reconstruction of complete bacterial genomes is essential for microbial research, offering insights into genetic content, ontology and regulation. While Pacific Biosciences (PacBio) provides high-quality genomes, its cost remains a...
3.
Kelleher P, Ortiz Charneco G, Kampff Z, Diaz-Garrido N, Bottacini F, McDonnell B, et al.
Nucleic Acids Res
. 2024 Sep;
52(19):11853-11869.
PMID: 39315705
Bacteria possess (bacterio)phage defence systems to ensure their survival. The thermophilic lactic acid bacterium, Streptococcus thermophilus, which is used in dairy fermentations, harbours multiple CRISPR-Cas and restriction and modification (R/M)...
4.
Wu H, Fujisawa Y, Tozuka Z, Fomenkov A, Nakura Y, Kajiyama S, et al.
Enzyme Microb Technol
. 2024 Jul;
180:110471.
PMID: 38959818
Here, we report a novel endonuclease and N-adenine DNA methyltransferase (mA methyltransferase) in the Ureaplasma parvum SV3F4 strain. Our previous study found that the SV3F4 strain carries 17 unique genes,...
5.
Fomenkov A, Weigele P, McClung C, Madinger C, Roberts R
Front Microbiol
. 2023 Apr;
14:1112734.
PMID: 37089567
Although restriction-modification systems are found in both Eubacterial and Archaeal kingdoms, comparatively less is known about patterns of DNA methylation and genome defense systems in archaea. Here we report the...
6.
Yang W, Fomenkov A, Heiter D, Xu S, Ettwiller L
PLoS Genet
. 2022 Sep;
18(9):e1010389.
PMID: 36121836
Phosphorothioation (PT), in which a non-bridging oxygen is replaced by a sulfur, is one of the rare modifications discovered in bacteria and archaea that occurs on the sugar-phosphate backbone as...
7.
Zaworski J, Dagva O, Brandt J, Baum C, Ettwiller L, Fomenkov A, et al.
PLoS Genet
. 2022 Apr;
18(4):e1009943.
PMID: 35377874
Understanding mechanisms that shape horizontal exchange in prokaryotes is a key problem in biology. A major limit on DNA entry is imposed by restriction-modification (RM) processes that depend on the...
8.
Ravin N, Rudenko T, Smolyakov D, Beletsky A, Rakitin A, Markov N, et al.
Front Microbiol
. 2021 Nov;
12:760289.
PMID: 34745068
Two strains of filamentous, colorless sulfur bacteria were isolated from bacterial fouling in the outflow of hydrogen sulfide-containing waters from a coal mine ( sp. Ku-5) and on the seashore...
9.
Zaworski J, Dagva O, Kingston A, Fomenkov A, Morgan R, Bossi L, et al.
G3 (Bethesda)
. 2021 Sep;
11(9).
PMID: 34544129
The Salmonella research community has used strains and bacteriophages over decades, exchanging useful new isolates among laboratories for the study of cell surface antigens, metabolic pathways and restriction-modification (RM) studies....
10.
Fomenkov A, DasSarma P, Kennedy S, Roberts R, DasSarma S
Microbiol Resour Announc
. 2021 Aug;
10(34):e0061921.
PMID: 34435862
The genome of halophilic archaeon Haloarcula sinaiiensis ATCC 33800 was sequenced and assembled and comprises seven replicons. Four m6A and one m4C modified motifs and their responsible methyltransferase genes have...