Hydrobiologia, Journal Year: 2024, Volume and Issue: unknown
Published: Nov. 28, 2024
Language: Английский
Published: Jan. 31, 2025
Chromosomal inversions are an important class of genetic variation that link multiple alleles together into a single inherited block can have effects on fitness. To study the role large in massive evolutionary radiation Lake Malawi cichlids, we used long-read technologies to identify four and two tandem span half each respective chromosome, which encompass over 10% genome. Each inversion is fixed one states within seven major ecogroups, suggesting they played separation lake lineages specific habitats. One exception benthic sub-radiation, where both inverted non-inverted continue segregate group. The histories three six suggest transferred from pelagic Diplotaxodon group ancestors at time sub-radiation was seeded. remaining found subset species living deep waters. We show some these as XY sex-determination systems but also likely limited total species. Our work suggests been under sexual natural selection cichlids will be understanding how this adaptive evolved.
Language: Английский
Citations
1
Published: Jan. 31, 2025
Chromosomal inversions are an important class of genetic variation that link multiple alleles together into a single inherited block can have effects on fitness. To study the role large in massive evolutionary radiation Lake Malawi cichlids, we used long-read technologies to identify four and two tandem span half each respective chromosome, which encompass over 10% genome. Each inversion is fixed one states within seven major ecogroups, suggesting they played separation lake lineages specific habitats. One exception benthic sub-radiation, where both inverted non-inverted continue segregate group. The histories three six suggest transferred from pelagic Diplotaxodon group ancestors at time sub-radiation was seeded. remaining found subset species living deep waters. We show some these as XY sex-determination systems but also likely limited total species. Our work suggests been under sexual natural selection cichlids will be understanding how this adaptive evolved.
Language: Английский
Citations
0
bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown
Published: March 11, 2025
Summary Recombination is central to genetics and evolution of sexually reproducing organisms. However, obtaining accurate estimates recombination rates, how they vary along chromosomes, continues be challenging. To advance our ability estimate we present Hi-reComb , a new method software for estimation maps from bulk gamete chromosome conformation capture sequencing (Hi-C). Simulations show that produces robust, landscapes. With empirical data sperm five fish species the advantages this approach, including joint assessment large structural variants, map comparisons using bootstrap, workflows with trio phasing vs. Hi-C phasing. off-the-shelf library construction straightforward rapid workflow, approach will facilitate routine landscape broad range studies model organisms in evolutionary biology. open-source freely available at https://github.com/millanek/Hi-reComb .
Language: Английский
Citations
0
Molecular Ecology, Journal Year: 2024, Volume and Issue: 34(2)
Published: Dec. 24, 2024
Adaptive radiations are rich laboratories for exploring, testing, and understanding key theories in evolution ecology because they offer spectacular displays of speciation ecological adaptation. Particular challenges to the study adaptive radiation include high levels species richness, rapid speciation, gene flow between species. Over last decade, high-throughput sequencing technologies access population genomic data have lessened these by enabling analysis samples from many individual organisms at whole-genome scales. Here we review how facilitated our knowledge five areas: (1) phylogenetics, (2) hybridization, (3) timing rates diversification, (4) basis trait evolution, (5) role genome structure divergence. We current each area, highlight outstanding questions, focus on methods that facilitate detection complex patterns divergence demography populations through time. It is clear revolutionising ability reconstruct evolutionary history rapidly diversifying clades. Additionally, studies increasingly emphasising central flow, re-use standing genetic variation during adaptation, structural elements as facilitators process radiations. hybridization-and hypothesized processes which it shapes diversification-and questions seeking bridge divide microevolutionary macroevolutionary areas future study. Overall, has an exciting era research, with implications deeper fundamental across tree life.
Language: Английский
Citations
1
Biodiversity Data Journal, Journal Year: 2024, Volume and Issue: 12
Published: Oct. 18, 2024
The iconic freshwater cichlid fishes (Cichlidae) comprise about 1750 validly named species and hundreds more that are known, but not yet described named. Cichlids an important source of protein for millions people on several continents, model organisms in studies evolution, speciation, ecology, development, behaviour physiology popular as aquarium fishes. Yet, comparative internal anatomy rare. Even their osteology has been taxonomically surveyed. postcranial skeleton especially neglected. Here, I provide the first survey cichlids considerable variation numbers vertebrae, supraneurals dorsal- anal-fin supports (pterygiophores), well patterns with which pterygiophores insert between neural or haemal spines. study includes some 1700 specimens nearly 400 species. Focusing largest subfamily, African Pseudocrenilabrinae, furnishes data from all one its 166 genera. Limited other subfamilies (Etroplinae, Ptychochrominae Cichlinae) related leaffishes, Polycentridae, also presented. Key examples pterygiophore insertion throughout range illustrated discussed. Detailed analytical tables raw provided supplementary files. A bizarre specialisation Cyprichromis is noted, evidently time. Uniquely this Lake Tanganyikan genus, five to seven anal abdominal position, located anterior fin inserting toward successive pairs pleural ribs. Taxonomic changes: most speciose tribe cichlids, currently known Haplochromini, correctly called Pseudocrenilabrini. Based chiefly molecular phylogenetic findings workers, propose four pseudocrenilabrine subtribes, occurring rivers three endemic Malawi. re-assign Tropheini another subtribe Pseudocrenilabrini, line numerous placing tropheines firmly within tribe. remaining genera Pseudocrenilabrini remain incertae sedis pending clarification relationships. character complex here surveyed a promising phylogenetically informative characteristics distinguishing uniting taxa at multiple hierarchical levels, through subfamily. This reference set novel can information palaeontological cichlids. These attributes skeletal features potentially available preserved fossils may help determine correct taxonomic placement.
Language: Английский
Citations
0
Published: Oct. 29, 2024
Chromosomal inversions are an important class of genetic variation that link multiple alleles together into a single inherited block can have effects on fitness. To study the role large in massive evolutionary radiation Lake Malawi cichlids, we used long-read technologies to identify four and two tandem span half each respective chromosome, which encompass over 10% genome. Each inversion is fixed one states within seven major ecogroups, suggesting they played separation lake lineages specific habitats. One exception benthic sub-radiation, where both inverted non-inverted continue segregate group. The histories three six suggest transferred from pelagic Diplotaxodon group ancestors at time sub-radiation was seeded. remaining found subset species living deep waters. We show some these as XY sex-determination systems but also likely limited total species. Our work suggests been under sexual natural selection cichlids will be understanding how this adaptive evolved.
Language: Английский
Citations
0
Evolution, Journal Year: 2024, Volume and Issue: unknown
Published: Nov. 26, 2024
Abstract Variation of recombination rate along the genome is crucial importance to rapid adaptation and organismal diversification. Many unknowns remain regarding how why landscapes evolve in nature. Here, we reconstruct maps based on linkage disequilibrium use subsampling simulations derive a new measure landscape evolution: Population Recombination Divergence Index (PRDI). Using PRDI, show that fine-scale differ substantially between two cichlid fish ecotypes Astatotilapia calliptera diverged only ~2,500 generations ago. Perhaps surprisingly, differences are not driven by divergence terms allele frequency (FST) nucleotide diversity (Δ(π)): although there some association, observe positive PRDI regions where FST Δ(π) zero. We found stronger association evolution 47 large haplotype blocks polymorphic Lake Masoko, cover 21% genome, appear include multiple inversions. Among blocks, strong clear degree heterozygosity, consistent with suppression heterozygotes. Overall, our work provides holistic view changes population during early stages speciation gene flow.
Language: Английский
Citations
0
Hydrobiologia, Journal Year: 2024, Volume and Issue: unknown
Published: Nov. 28, 2024
Language: Английский
Citations
0