Expanding Metabolic Diversity of Two Archaeal Phyla: Nanoarchaeota and Korarchaeota

Kelley, John F.

doi:10.15760/etd.3470

Cited by 2 publications

(1 citation statement)

References 92 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…strain AV08 and Thermosulfurimonas strain F29 from deep-sea hydrothermal environments [80,81] all possess the CRISPR/Cas system. CRISPR/Cas defense mechanisms have been found in the genome of marine archaea Nitrososphaerota and Nanoarchaeota inhabiting extreme environments [82][83][84]. Moreover, complex CRISPR/Cas systems have been identified in some archaea within the Asgard superphylum [85], the hyperthermophiles within the phylum Euryarchaeota [86,87], and some extremely halophilic archaeons like Salinigranum rubrum GX10 T and Halorussus halophius sp.…”

Section: Huge Inventory Of Crispr/cas In the Oceanmentioning

confidence: 99%

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Li,

Wu,

Zhang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

Initially discovered over 35 years ago in the bacterium Escherichia coli as a defense system against invasion of viral (or other exogenous) DNA into the genome, CRISPR/Cas has ushered in a new era of functional genetics and served as a versatile genetic tool in all branches of life science. CRISPR/Cas has revolutionized the methodology of gene knockout with simplicity and rapidity, but it is also powerful for gene knock-in and gene modification. In the field of marine biology and ecology, this tool has been instrumental in the functional characterization of ‘dark’ genes and the documentation of the functional differentiation of gene paralogs. Powerful as it is, challenges exist that have hindered the advances in functional genetics in some important lineages. This review examines the status of applications of CRISPR/Cas in marine research and assesses the prospect of quickly expanding the deployment of this powerful tool to address the myriad fundamental marine biology and biological oceanography questions.

show abstract

Section: Huge Inventory Of Crispr/cas In the Oceanmentioning

confidence: 99%

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Li,

Wu,

Zhang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

show abstract

Wood–Ljungdahl pathway found in novel marine Korarchaeota groups illuminates their evolutionary history

et al. 2023

View full text Add to dashboard Cite

Korarchaeota, due to its rarity in common environments, is one of the archaeal phyla that has received the least attention from researchers. It was previously thought to consist solely of strict thermophiles. However, our study provides genetic evidence for the presence of korarchaeal members in temperate subsurface seawater. Furthermore, a systematic reclassification of the Korarchaeota based on 16S rRNA genes and genomes has revealed three novel marine groups (Kor-6 to Kor-8) at the root of the Korarchaeota branch. Kor-6 contains microbes that are present in moderate temperatures. All three novel marine phyla possess genes for the Wood–Ljungdahl pathway, and Kor-7 and Kor-8 possess fewer genes encoding oxygen resistance traits than other korarchaeal groups, suggesting a distinct lifestyle for these novel phyla. Our results, together with estimations of Korarchaeota divergence times, suggest that oxygen availability may be one of the important factors that have influenced the evolution of Korarchaeota. IMPORTANCE Korarchaeota were previously thought to inhabit exclusively high-temperature environments. However, our study provides genetic evidence for their unexpected presence in temperate marine waters. Through analysis of publicly available korarchaeal reference data, we have systematically reclassified Korarchaeota and identified the existence of three previously unknown marine groups (Kor-6, Kor-7, and Kor-8) at the root of the Korarchaeota branch. Comparative analysis of their gene content revealed that these novel groups exhibit a lifestyle distinct from other Korarchaeota. Specifically, they have the ability to fix carbon exclusively via the Wood–Ljungdahl (WL) pathway, and the genomes within Kor-7 and Kor-8 contain few genes encoding antioxidant enzymes, indicating their strictly anaerobic lifestyle. Further studies suggest that the genes related to methane metabolism and the WL pathway may have been inherited from a common ancestor of the Korarchaeota and that oxygen availability may be one of the important evolutionary factors that shaped the diversification of this archaeal phylum.

show abstract

Expanding Metabolic Diversity of Two Archaeal Phyla: Nanoarchaeota and Korarchaeota

Cited by 2 publications

References 92 publications

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Wood–Ljungdahl pathway found in novel marine Korarchaeota groups illuminates their evolutionary history

Contact Info

Product

Resources

About