Multiple parallel origins of parasitic Marine Alveolates DOI Creative Commons
Corey C. Holt, Elisabeth Hehenberger, Denis V. Tikhonenkov

и другие.

Nature Communications, Год журнала: 2023, Номер 14(1)

Опубликована: Ноя. 3, 2023

Microbial eukaryotes are important components of marine ecosystems, and the Marine Alveolates (MALVs) consistently both abundant diverse in global environmental sequencing surveys. MALVs dinoflagellates that thought to be parasites other protists animals, but lack data beyond ribosomal RNA gene sequences from all a few described species means much their biology evolution remain unknown. Using single-cell transcriptomes several free-living relatives, we show evolved independently two distinct, ancestors parasitism parallel. Phylogenomics shows one subgroup (MALV-II -IV, or Syndiniales) is related novel lineage free-living, eukaryovorous predators, eleftherids, while (MALV-I, Ichthyodinida) predator Oxyrrhis retains proteins targeted non-photosynthetic plastid. Reconstructing photosynthesis, plastids, early-diverging number parallels with apicomplexan sisters. In groups, similar forms multiple times photosynthesis was lost many times. By contrast, complete loss plastid organelle infrequent and, when this does happen, leaves no residual genes.

Язык: Английский

Mitochondrial genomes revisited: why do different lineages retain different genes? DOI Creative Commons
Anzhelika Butenko, Julius Lukeš, Dave Speijer

и другие.

BMC Biology, Год журнала: 2024, Номер 22(1)

Опубликована: Янв. 25, 2024

Abstract The mitochondria contain their own genome derived from an alphaproteobacterial endosymbiont. From thousands of protein-coding genes originally encoded by ancestor, only between 1 and about 70 are on extant mitochondrial genomes (mitogenomes). Thanks to a dramatically increasing number sequenced annotated mitogenomes coherent picture why some were lost, or relocated the nucleus, is emerging. In this review, we describe characteristics mitochondria-to-nucleus gene transfer resulting varied content across eukaryotes. We introduce ‘burst-upon-drift’ model best explain nuclear-mitochondrial population genetics with flares due genetic drift.

Язык: Английский

Процитировано

25
Microbial predators form a new supergroup of eukaryotes DOI
Denis V. Tikhonenkov, Kirill V. Mikhailov, Ryan M.R. Gawryluk

и другие.

Nature, Год журнала: 2022, Номер 612(7941), С. 714 - 719

Опубликована: Дек. 7, 2022

Язык: Английский

Процитировано

58
Functional and evolutionary significance of unknown genes from uncultivated taxa DOI Creative Commons
Álvaro Rodríguez del Río,

Joaquín Giner‐Lamia,

Carlos P. Cantalapiedra

и другие.

Nature, Год журнала: 2023, Номер 626(7998), С. 377 - 384

Опубликована: Дек. 18, 2023

Many of the Earth's microbes remain uncultured and understudied, limiting our understanding functional evolutionary aspects their genetic material, which largely overlooked in most metagenomic studies

Язык: Английский

Процитировано

43
Eukaryotic genomes from a global metagenomic data set illuminate trophic modes and biogeography of ocean plankton DOI Creative Commons
Harriet Alexander, Sarah K. Hu, Arianna I. Krinos

и другие.

mBio, Год журнала: 2023, Номер 14(6)

Опубликована: Ноя. 10, 2023

Single-celled eukaryotes play ecologically significant roles in the marine environment, yet fundamental questions about their biodiversity, ecological function, and interactions remain. Environmental sequencing enables researchers to document naturally occurring protistan communities, without culturing bias, metagenomic metatranscriptomic approaches cannot separate individual species from communities. To more completely capture genomic content of mixed populations, we can create bins sequences that represent same organism (metagenome-assembled genomes [MAGs]). We developed EukHeist pipeline, which automates binning population-level eukaryotic prokaryotic reads. show exciting insight into what communities are present trophic ocean. Scalable computational tools, like EukHeist, may accelerate identification meaningful genetic signatures large data sets complement researchers' efforts leverage MAG databases for addressing questions, resolving evolutionary relationships, discovering potentially novel biodiversity.

Язык: Английский

Процитировано

31
Reconstruction of Plastid Proteomes of Apicomplexans and Close Relatives Reveals the Major Evolutionary Outcomes of Cryptic Plastids DOI Creative Commons
Varsha Mathur, Eric D. Salomaki, Kevin C. Wakeman

и другие.

Molecular Biology and Evolution, Год журнала: 2023, Номер 40(1)

Опубликована: Янв. 1, 2023

Abstract Apicomplexans and related lineages comprise many obligate symbionts of animals; some which cause notorious diseases such as malaria. They evolved from photosynthetic ancestors transitioned into a symbiotic lifestyle several times, giving rise to species with diverse non-photosynthetic plastids. Here, we sought reconstruct the evolution cryptic plastids in apicomplexans, chrompodellids, squirmids (ACS clade) by generating five new single-cell transcriptomes understudied gregarine lineages, constructing robust phylogenomic tree incorporating all ACS clade sequencing datasets available, using these examine detail, evolutionary distribution 162 proteins recently shown be apicoplast spatial proteomics Toxoplasma. This expanded homology-based reconstruction plastid found confirms earlier work showing convergence overall metabolic pathways retained once photosynthesis is lost, but also reveals differences degrees reduction specific lineages. We show that loss genome common unexpectedly find lineage- species-specific proteins, suggesting presence innovations neofunctionalizations may confer functional capabilities are yet discovered enigmatic organelles.

Язык: Английский

Процитировано

28
Life-cycle-coupled evolution of mitosis in close relatives of animals DOI Creative Commons

Hiral Shah,

Marine Olivetta, Chandni Bhickta

и другие.

Nature, Год журнала: 2024, Номер 630(8015), С. 116 - 122

Опубликована: Май 22, 2024

Eukaryotes have evolved towards one of two extremes along a spectrum strategies for remodelling the nuclear envelope during cell division: disassembling in an open mitosis or constructing intranuclear spindle closed

Язык: Английский

Процитировано

18
Repeated co-option of HMG-box genes for sex determination in brown algae and animals DOI
R. Luthringer, Morgane Raphalen,

C Guerra

и другие.

Science, Год журнала: 2024, Номер 383(6689)

Опубликована: Март 21, 2024

In many eukaryotes, genetic sex determination is not governed by XX/XY or ZW/ZZ systems but a specialized region on the poorly studied U (female) V (male) chromosomes. Previous studies have hinted at existence of dominant male-sex factor chromosome in brown algae, group multicellular eukaryotes distantly related to animals and plants. The nature this has remained elusive. Here, we demonstrate that an HMG-box gene acts as male-determining mirroring role genes play animals. Over billion-year evolutionary timeline, these lineages independently co-opted HMG box for male determination, representing paradigm evolution's ability recurrently use same "toolkit" accomplish similar tasks.

Язык: Английский

Процитировано

16
Silica-associated proteins from hexactinellid sponges support an alternative evolutionary scenario for biomineralization in Porifera DOI Creative Commons
Katsuhiko Shimizu,

Michika Nishi,

Yuto Sakate

и другие.

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Янв. 7, 2024

Abstract Metazoans use silicon traces but rarely develop extensive silica skeletons, except for the early-diverging lineage of sponges. The mechanisms underlying metazoan silicification remain incompletely understood, despite significant biotechnological and evolutionary implications. Here, characterization two proteins identified from hexactinellid sponge silica, hexaxilin perisilin, supports that three classes siliceous sponges (Hexactinellida, Demospongiae, Homoscleromorpha) independent protein machineries to build their which become non-homologous structures. Hexaxilin forms axial filament intracellularly pattern main symmetry skeletal parts, while perisilin appears operate in thickening, guiding extracellular deposition peripheral as does glassin, a previously characterized silicifying protein. Distant homologs occur some bilaterians with suggesting putative conserved activity along evolution. findings also support ancestral Porifera were non-skeletonized, acquiring skeletons only after diverging into major classes, what reconciles molecular-clock dating fossil record.

Язык: Английский

Процитировано

12
Viperin immunity evolved across the tree of life through serial innovations on a conserved scaffold DOI
Helena Shomar, Héloïse Georjon, Yanlei Feng

и другие.

Nature Ecology & Evolution, Год журнала: 2024, Номер 8(9), С. 1667 - 1679

Опубликована: Июль 4, 2024

Язык: Английский

Процитировано

12
RNA-guided RNA silencing by an Asgard archaeal Argonaute DOI Creative Commons
Carolien Bastiaanssen, Pilar Bobadilla Ugarte, Kijun Kim

и другие.

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Июнь 29, 2024

Abstract Argonaute proteins are the central effectors of RNA-guided RNA silencing pathways in eukaryotes, playing crucial roles gene repression and defense against viruses transposons. Eukaryotic Argonautes subdivided into two clades: AGOs generally facilitate miRNA- or siRNA-mediated silencing, while PIWIs piRNA-mediated silencing. It is currently unclear when how Argonaute-based mechanisms arose diverged during emergence early evolution eukaryotes. Here, we show that Asgard archaea, closest prokaryotic relatives an evolutionary expansion took place. In particular, a deep-branching PIWI protein (HrAgo1) encoded by genome Lokiarchaeon ‘ Candidatus Harpocratesius repetitus’ shares common origin with eukaryotic proteins. Contrasting known use single-stranded DNA as guides and/or targets, HrAgo1 mediates cleavage, facilitates expressed human cells supplied miRNA precursors. A cryo-EM structure HrAgo1, combined quantitative single-molecule experiments, reveals displays structural features target-binding modes mix those AGO Thus, this archaeal may have retained ancestral molecular architecture preceded functional mechanistic divergence PIWIs.

Язык: Английский

Процитировано

11