Thermus thermophilus Argonaute Functions in the Completion of DNA Replication

Jolly, Samson M.; Gainetdinov, Ildar; Jouravleva, Karina; Zhang, Han; Strittmatter, Lara; Bailey, Shannon M.; Hendricks, Gregory M.; Dhabaria, Avantika; Ueberheide, Beatrix; Zamore, Phillip D.

doi:10.1016/j.cell.2020.07.036

Cited by 89 publications

(102 citation statements)

References 87 publications

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“…In the absence of both DNA gyrase and royalsocietypublishing.org/journal/rsob Open Biol. 10: 200293 Argonaute activities, chromosome resolution does not occur [241]. Such a critical function for AGO proteins in DNA replication has not previously been observed, and further work is warranted to see if AGO proteins act in chromosome resolution in archaea.…”

Section: Decatenation and Resolutionmentioning

confidence: 94%

“…In eukaryotes, short RNA guides act to target AGO proteins against transposons and viruses while in bacteria, AGO proteins have been shown to defend against transformation by DNA plasmids. Recent work has implicated Argonaute protein in termination and decatenation of DNA replication in the bacterium T. thermophilus [ 241 ]. When DNA gyrase is inhibited, Argonaute is capable of completing DNA synthesis and ensuring correct decatenation of the chromosome [ 241 ].…”

Section: Dna Replicationmentioning

confidence: 99%

“…Recent work has implicated Argonaute protein in termination and decatenation of DNA replication in the bacterium T. thermophilus [ 241 ]. When DNA gyrase is inhibited, Argonaute is capable of completing DNA synthesis and ensuring correct decatenation of the chromosome [ 241 ]. In the absence of both DNA gyrase and Argonaute activities, chromosome resolution does not occur [ 241 ].…”

Section: Dna Replicationmentioning

confidence: 99%

“…When DNA gyrase is inhibited, Argonaute is capable of completing DNA synthesis and ensuring correct decatenation of the chromosome [ 241 ]. In the absence of both DNA gyrase and Argonaute activities, chromosome resolution does not occur [ 241 ]. Such a critical function for AGO proteins in DNA replication has not previously been observed, and further work is warranted to see if AGO proteins act in chromosome resolution in archaea.…”

Section: Dna Replicationmentioning

confidence: 99%

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Haloferax volcanii —a model archaeon for studying DNA replication and repair

et al. 2020

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The tree of life shows the relationship between all organisms based on their common ancestry. Until 1977, it comprised two major branches: prokaryotes and eukaryotes. Work by Carl Woese and other microbiologists led to the recategorization of prokaryotes and the proposal of three primary domains: Eukarya, Bacteria and Archaea. Microbiological, genetic and biochemical techniques were then needed to study the third domain of life. Haloferax volcanii , a halophilic species belonging to the phylum Euryarchaeota, has provided many useful tools to study Archaea, including easy culturing methods, genetic manipulation and phenotypic screening. This review will focus on DNA replication and DNA repair pathways in H. volcanii , how this work has advanced our knowledge of archaeal cellular biology, and how it may deepen our understanding of bacterial and eukaryotic processes.

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Section: Decatenation and Resolutionmentioning

confidence: 94%

Section: Dna Replicationmentioning

confidence: 99%

Section: Dna Replicationmentioning

confidence: 99%

Section: Dna Replicationmentioning

confidence: 99%

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Haloferax volcanii —a model archaeon for studying DNA replication and repair

et al. 2020

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“…It has been demonstrated that fulllength pAgos function as prokaryotic antiviral systems, with the PIWI domain performing cleavage of invading nucleic acids [7]. Furthermore, a function beyond immunity -decatenation of circular chromosomes during replication -has also been documented [8]. However, the majority (~60 %) of identi ed pAgos are shorter (encode just MID and PIWI domains) and are catalytically inactive due to mutations in the PIWI domain.…”

Section: Introductionmentioning

confidence: 99%

Prokaryotic Argonaute From Archaeoglobus Fulgidus Interacts With DNA as a Homodimer

Golovinas

Rutkauskas

Manakova

et al. 2020

Preprint

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Argonaute (Ago) proteins are found in all three domains of life. The best characterized group is eukaryotic Argonautes (eAgos), which are the core of RNA interference. The best understood prokaryotic Ago (pAgo) proteins are full-length pAgos. They are composed of four major structural/functional domains (N, PAZ, MID and PIWI) and thereby closely resemble eAgos. It was demonstrated that full-length pAgos function as prokaryotic antiviral systems, with the PIWI domain performing cleavage of invading nucleic acids. However, the majority of identified pAgos are shorter and catalytically inactive (encode just MID and inactive PIWI domains), thus their action mechanism and function remain unknown. In this work we focus on AfAgo, a short pAgo protein encoded by an archaeon Archaeoglobus fulgidus. We find that in all previously solved AfAgo structures, its two monomers form substantial dimerization interfaces involving the C-terminal β-sheets. Led by this finding, we have employed various biochemical and biophysical assays, including SEC-MALS, SAXS, single-molecule FRET and AFM, to show that AfAgo is indeed a homodimer in solution, which is capable of simultaneous interaction with two DNA molecules. This finding underscores the diversity of prokaryotic Agos and broadens the range of currently known Argonaute-nucleic acid interaction mechanisms.

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The immune system of prokaryotes: potential applications and implications for gene editing

Liu,

Wang

et al. 2024

Biotechnology Journal

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Gene therapy has revolutionized the treatment of genetic diseases. Spearheading this revolution are sophisticated genome editing methods such as TALENs, ZFNs, and CRISPR‐Cas, which trace their origins back to prokaryotic immune systems. Prokaryotes have developed various antiviral defense systems to combat viral attacks and the invasion of genetic elements. The comprehension of these defense mechanisms has paved the way for the development of indispensable tools in molecular biology. Among them, restriction endonuclease originates from the innate immune system of bacteria. The CRISPR‐Cas system, a widely applied genome editing technology, is derived from the prokaryotic adaptive immune system. Single‐base editing is a precise editing tool based on CRISPR‐Cas system that involves deamination of target base. It is worth noting that prokaryotes possess deamination enzymes as part of their defense arsenal over foreign genetic material. Furthermore, prokaryotic Argonauts (pAgo) proteins, also function in anti‐phage defense, play an important role in complementing the CRISPR‐Cas system by addressing certain limitations it may have. Recent studies have also shed light on the significance of Retron, a reverse transcription transposon previously showed potential in genome editing, has also come to light in the realm of prokaryotic immunity. These noteworthy findings highlight the importance of studying prokaryotic immune system for advancing genome editing techniques. Here, both the origin of prokaryotic immunity underlying aforementioned genome editing tools, and potential applications of deaminase, pAgo protein and reverse transcriptase in genome editing among prokaryotes were introduced, thus emphasizing the fundamental mechanism and significance of prokaryotic immunity.

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Thermus thermophilus Argonaute Functions in the Completion of DNA Replication

Cited by 89 publications

References 87 publications

Haloferax volcanii —a model archaeon for studying DNA replication and repair

Haloferax volcanii —a model archaeon for studying DNA replication and repair

Prokaryotic Argonaute From Archaeoglobus Fulgidus Interacts With DNA as a Homodimer

The immune system of prokaryotes: potential applications and implications for gene editing

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Thermus thermophilus Argonaute Functions in the Completion of DNA Replication

Cited by 89 publications

References 87 publications

Haloferax volcanii —a model archaeon for studying DNA replication and repair

Haloferax volcanii —a model archaeon for studying DNA replication and repair

Prokaryotic Argonaute From Archaeoglobus Fulgidus Interacts With DNA&nbsp;as a Homodimer

The immune system of prokaryotes: potential applications and implications for gene editing

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Prokaryotic Argonaute From Archaeoglobus Fulgidus Interacts With DNA as a Homodimer