Biochemistry (Moscow), Journal Year: 2023, Volume and Issue: 88(12-13), P. 2007 - 2022
Published: Dec. 1, 2023
Language: Английский
Genome Biology and Evolution, Journal Year: 2024, Volume and Issue: 16(10)
Published: Oct. 1, 2024
Abstract The assembly of a comprehensive and dated Tree Life (ToL) remains one the most formidable challenges in evolutionary biology. complexity life's history, involving both vertical horizontal transmission genetic information, defies its representation by simple bifurcating phylogeny. With advent genome metagenome sequencing, vast amounts data have become available. However, employing this information for phylogeny divergence time inference has introduced significant theoretical computational hurdles. This perspective addresses some key methodological assembling ToL, namely, identification classification homologous genes, accounting gene tree-species tree mismatch due to population-level processes along with duplication, loss, transfer, accurate dating events. Ultimately, success endeavor requires new approaches that integrate knowledge databases optimized phylogenetic algorithms capable managing complex models.
Language: Английский
Citations
0
Frontiers in Microbiomes, Journal Year: 2023, Volume and Issue: 1
Published: Feb. 1, 2023
Introduction Host-microbe interactions are pivotal in host biology, ecology, and evolution. Recent developments sequencing technologies have provided newer insights into the same through hologenome concept. Methods We report here study on metagenome-assembled genomes (MAGs) associated with Candida tropicalis (studied shotgun metagenome sequencing), adding to knowledge about endomicrobiomes of yeast. De novo assembly binning recovered two partial archaeal genomes, taxonomically belonging phylum Asgardarchaeota. Results Discussion The phylogenomic analysis based core genes revealed that both binned cladded separately less studied uncultivated ‘ Candidatus ’ superphylum, designated as Asgard archaea (the nearest known relative eukaryotes). Between average nucleotide index (ANI) was 71.2%. identities Heimdallarchaeota’ were 60.4-61.2%. metabolic pathways predicted sulfur reduction, Kreb’s pathway, glycolysis, C1 carbon metabolism. Further, support autotrophic well heterotrophic mode growth, which might probably help its nutritional requirements also. showed few eukaryotic signature proteins (ESPs) SNARE indicating members Asgardarchaeota closest relatives eukaryotes. gaps present potential MAGs obtained absence a essential shows they symbiotic relationship host. study, reports for first-time endosymbiosis It also provides potential, evolutionary history, endosymbiotic nature important but 160 poorly archaea.
Language: Английский
Citations
1
Genome Biology and Evolution, Journal Year: 2022, Volume and Issue: 14(6)
Published: May 31, 2022
Language: Английский
Citations
2
Published: Dec. 14, 2023
Abstract Kelp forests are major marine ecosystems and key sources of biodiversity comparable to tropical forests, as pointed out by Darwin on the Beagle in 1834: “Yet if any country a forest was destroyed, I do not believe nearly so many species animals would perish here, from destruction kelp” . Despite roles supporting life, our understanding their biology lags far behind that land plants. mitigates effects climate change, sequesters CO 2 , reduces eutrophication while providing biomass for food, feed, materials. Genome editing together with functional genomics can map genetic diversity potentials temperature tolerance, important since they already face upper tolerance limits some regions. This chapter considers genome prerequisites; transformation methods introducing DNA/RNA annotated genomes predicting results. Risk assessments discussed. These uses show how widely applicable techniques be used basic science securing global environment existence.
Language: Английский
Citations
0
Biochemistry (Moscow), Journal Year: 2023, Volume and Issue: 88(12-13), P. 2007 - 2022
Published: Dec. 1, 2023
Language: Английский
Citations
0