Whole genome data confirm pervasive gene discordance in the evolutionary history of Coenonympha (Nymphalidae) butterflies

Molecular Phylogenetics and Evolution, Год журнала: 2024, Номер 202, С. 108222 - 108222

Опубликована: Окт. 30, 2024

Язык: Английский

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Genome-wide data reveal extensive gene flow during the diversification of the western rattlesnakes (Viperidae: Crotalinae: Crotalus)

Molecular Phylogenetics and Evolution, Год журнала: 2021, Номер 165, С. 107313 - 107313

Опубликована: Сен. 17, 2021

Язык: Английский

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Strong plastid degradation is consistent within section Chondrophyllae, the most speciose lineage of Gentiana

Ecology and Evolution, Год журнала: 2022, Номер 12(8)

Опубликована: Авг. 1, 2022

Abstract Recovering phylogenetic relationships in lineages experiencing intense diversification has always been a persistent challenge evolutionary studies, including Gentiana section Chondrophyllae sensu lato (s.l.). Indeed, this subcosmopolitan taxon encompasses more than 180 mostly annual species distributed around the world. We sequenced and assembled 22 new plastomes representing 21 s.l. In addition to previously released plastome data, our study includes all main within section. reconstructed their based on protein‐coding genes recombinant DNA (rDNA) cistron sequences, then investigated structural evolution as well divergence time. Despite an admittedly humble cover overall, we recovered well‐supported tree found significant discordance between taxonomic treatments. Our results show that G. capitata leucomelaena diverged early section, which is further divided into two clades. The time estimation showed evolved second half of Oligocene. had smallest average size (128 KB) tribe Gentianeae (Gentianaceae), with frequent gene sequence losses such ndh complex its flanking regions. addition, detected both expansion contraction inverted repeat (IR) suggests degradation parallels group, illustrates strong treatments, now need be carefully revised.

Язык: Английский

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Complex Patterns of Diversification in the Gray Zone of Speciation: Model-Based Approaches Applied to Patagonian Liolaemid Lizards (Squamata: Liolaemus kingii clade)

Systematic Biology, Год журнала: 2023, Номер 72(4), С. 739 - 752

Опубликована: Апрель 25, 2023

In this study we detangled the evolutionary history of Patagonian lizard clade Liolaemus kingii, coupling dense geographic sampling and novel computational analytical approaches. We analyzed nuclear mitochondrial data (restriction site-associated DNA sequencing cytochrome b) to hypothesize evaluate species limits, phylogenetic relationships, demographic histories. complemented these analyses with posterior predictive simulations assess fit genomic multispecies coalescent model. also employed a approach time-calibrate network. Our results show several instances mito-nuclear discordance consistent support for reticulated history, supporting view that complex kingii is characterized by extensive gene flow rapid diversification events. discuss our findings in contexts "gray zone" speciation, phylogeographic patterns region, taxonomic outcomes. [Model adequacy; coalescent; network phylogenomics; delimitation.].

Язык: Английский

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Ecophysiological responses of Liolaemus arambarensis juveniles to experimental temperature variations

Comparative Biochemistry and Physiology Part A Molecular & Integrative Physiology, Год журнала: 2024, Номер 290, С. 111577 - 111577

Опубликована: Янв. 14, 2024

Язык: Английский

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Population Genomics of Adaptive Radiation

Molecular Ecology, Год журнала: 2024, Номер 34(2)

Опубликована: Дек. 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.

Язык: Английский

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Environmental correlates of phenotypic evolution in ecologically diverse Liolaemus lizards

Ecology and Evolution, Год журнала: 2022, Номер 12(6)

Опубликована: Июнь 1, 2022

Abstract Evolutionary correlations between phenotypic and environmental traits characterize adaptive radiations. However, the lizard genus Liolaemus , one of most ecologically diverse terrestrial vertebrate radiations on earth, has so far shown limited or mixed evidence diversification in phenotype. Restricted use comprehensive data, incomplete taxonomic representation not considering phylogenetic uncertainty may have led to contradictory evidence. We compiled a 26‐taxon dataset for gracilis species group, representing much ecological diversity represented within used data how environments occupied by species' relate evolution. Our analyses, explicitly accounting uncertainty, suggest toward present, with body shape evolution rapidly evolving this group. Body correlates occupation different structural habitats indicated vegetation axes suggesting adapted maximal locomotory performance these habitats. results also imply that effects model misspecification be more extensive univariate, relative multivariate analyses evolutionary correlations, which is an important consideration analyzing from radiating

Язык: Английский

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Decoupling in Diversification and Body Size Rates During the Radiation of Phyllodactylus: Evidence Suggests Minor Role of Ecology in Shaping Phenotypes

Evolutionary Biology, Год журнала: 2022, Номер 49(3), С. 373 - 387

Опубликована: Июль 13, 2022

Язык: Английский

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Exploring the distribution of phylogenetic networks generated under a birth-death-hybridization process

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2022, Номер unknown

Опубликована: Ноя. 14, 2022

ABSTRACT Gene-flow processes such as hybridization and introgression play important roles in shaping diversity across the tree of life. Recent studies extending birth-death models have made it possible to investigate patterns reticulation a macroevolutionary context. These allow for different gene flow events that can either add, maintain, or remove lineages—with itself possibly being dependent on relatedness between species—thus creating complex diversification scenarios. Further, many reticulate phylogenetic inference methods assume specific structures phylogenies belonging certain network classes. However, distributions networks under are poorly characterized, is unknown whether they violate common methodological assumptions. We use simulation techniques explore space birth-death-hybridization process where rate linear dependence genetic distance. Specifically, we measured number lineages through time role along with proportion belong commonly used classes (e.g., tree-child, tree-based, level-1 networks). find growth class membership largely affected by assumptions about flow. In accordance previous studies, lower belonged these based type density events. process, factors form an antagonistic relationship; cause high proportions also lead highest density, consequently lowering overall some observed distance–dependent incomplete sampling increase membership, primarily due having fewer Our results inform if their biological expectations associated evolutionary histories satisfy current methodology aid finding relevant development.

Язык: Английский

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Climatic niche evolution and desert colonization in a South American lizard radiation

Zoological Journal of the Linnean Society, Год журнала: 2024, Номер 202(4)

Опубликована: Дек. 1, 2024

Abstract Organisms in adaptive radiations are able to diversify and colonize multiple environments. Frequently, the evolution of key adaptations enables organisms confront novel environmental challenges, promoting diversification. Here, we studied desert colonization Liolaemus radiation. We assessed patterns climatic niche L. nigromaculatus section, one clade inhabiting Atacama Desert. found that toward arid conditions occurred two clades independently: colonized through warm coastal environments, other cold highland environments on Andes Mountains. The precipitation evolved fast early during this clade’s evolutionary history, following an burst (EB) model evolution, whereas thermal under Brownian motion (BM) at a lower rate. Additionally, explored some features could have facilitated colonization: higher chromosome number was associated with warmer temperatures, selected body temperatures were drier climates, larger more elongated bodies colder longer limbs tails variation. Our results highlight can challenging ways such axes may evolve faster radiated groups potential rapidly these adaptations.

Язык: Английский

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