Alternative splicing in parallel evolution and the evolutionary potential in sticklebacks DOI
Man Luo, Juntao Hu

Journal of Animal Ecology, Journal Year: 2024, Volume and Issue: 93(9), P. 1392 - 1405

Published: July 26, 2024

Abstract Repeatability of adaptation to similar environments provides opportunity evaluate the predictability natural selection. While many studies have investigated gene expression differences between populations adapted contrasting environments, role post‐transcriptional processes such as alternative splicing has rarely been evaluated in context parallel adaptation. To address aforementioned knowledge gap, we reanalysed transcriptomic data from three pairs threespine stickleback ( Gasterosteus aculeatus ) ecotypes marine or freshwater environment. First, identified genes with repeated divergence across ecotype pairs, and compared genetic architecture biological parallelly expressed spliced loci. Second, analysed extent which was reflected at levels. Finally, tested how two axes transcriptional variation differed their potential for evolutionary change. Although both differential showed tendency divergence, degree parallelism lower than expression. Furthermore, divergences were likely be associated distinct cis ‐regulatory variants functionally unique set genes. found that higher nucleotide diversity genes, indicating is less susceptible erosion during Our results provide novel insight into adaptation, underscore contribution wild under environmental

Language: Английский

Repeated global adaptation across plant species DOI Creative Commons
Gabriele Nocchi, James R. Whiting, Sam Yeaman

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: April 3, 2024

Abstract Global adaptation occurs when all populations of a species undergo selection toward common optimum. This can occur by hard selective sweep with the emergence new globally advantageous allele that spreads throughout species’ natural range until reaching fixation. evolutionary process leaves temporary trace in region affected, which is detectable using population genomic methods. While sweeps have been identified many species, there few comparative and systematic studies genes involved global adaptation. Building upon recent findings showing repeated genetic basis local across independent we asked whether certain play more significant role driving plant species. To address this question, scanned genomes 17 to identify signals sweeps. Despite substantial distance between analysed, several gene families strong evidence positive selection. These tend be enriched for reduced pleiotropy, consistent predictions from Fisher’s model cost complexity hypothesis. We also found exhibit elevated levels duplication. Our contrast observations increased pleiotropy adaptation, based on theory migration-selection balance. Significance undergoes optimum its range. instances are widespread literature, shortage aimed at understanding architecture how it contrasts research compares uncover attributes loci repeatedly show tends rely characterized finding reflecting opposing dynamics underlying these two processes.

Language: Английский

Citations

3
Putative climate adaptation in American pikas (Ochotona princeps) is associated with copy number variation across environmental gradients DOI Creative Commons

Bryson M. F. Sjodin,

Danielle A. Schmidt, Kurt E. Galbreath

et al.

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: April 13, 2024

Improved understanding of the genetic basis adaptation to climate change is necessary for maintaining global biodiversity moving forward. Studies date have largely focused on sequence variation, yet there growing evidence that suggests changes in genome structure may be an even more significant source adaptive potential. The American pika (Ochotona princeps) alpine specialist shows some along elevational gradients, but previous work has been limited single nucleotide polymorphism based analyses within a fraction species range. Here, we investigated role copy number variation underlying patterns local using genome-wide data previously collected across entire We identified 37-193 putative variants (CNVs) associated with environmental (temperature, precipitation, solar radiation) each six major lineages, divergence following and latitudinal gradients. Genes (n = 158) independent annotations variables, and/or CNVs had functions related mitochondrial structure/function, immune response, hypoxia, olfaction, DNA repair. Some these genes linked high elevation other species, suggesting they serve as important targets future studies.

Language: Английский

Citations

2
Integrating spatial analyses of genomic and physiological data to understand avian responses to environmental change DOI
Phred M. Benham, Elizabeth J. Beckman

Integrative and Comparative Biology, Journal Year: 2024, Volume and Issue: unknown

Published: June 3, 2024

Projected rates of climate change over the next century are expected to force species shift ranges, adapt or acclimate evade extinction. Predicting which these scenarios may be most likely is a central challenge for conserving biodiversity in immediate future. Modeling frameworks that take advantage intraspecific variation across environmental gradients can particularly important meeting this challenge. While space-for-time approaches essential climatic and genomic modeling approaches, mechanistic models incorporate ecological physiology data into assessing vulnerabilities rarely include variation. A major reason gap general lack empirical on geographic avian physiological traits. In review, we outline evidence processes shaping We use example evaporative water loss underscore research even traits cooling costs birds. demonstrate how shifting focus facilitate greater integration with emerging genomics approaches. Finally, steps an integrative approach advance understanding adaptation within species. Addressing knowledge gaps outlined review will contribute improved predictive framework synthesizes environmental, morphological, physiological, assess specific warming planet.

Language: Английский

Citations

1
Distinct Genes with Similar Functions Underlie Convergent Evolution in Myotis Bat Ecomorphs DOI Creative Commons
Ariadna E. Morales, Frank T. Burbrink, Marion Segall

et al.

Molecular Biology and Evolution, Journal Year: 2024, Volume and Issue: 41(9)

Published: Aug. 7, 2024

Abstract Convergence offers an opportunity to explore what extent evolution can be predictable when genomic composition and environmental triggers are similar. Here, we present emergent model system study convergent in nature a mammalian group, the bat genus Myotis. Three foraging strategies—gleaning, trawling, aerial hawking, each characterized by different sets of phenotypic features—have evolved independently multiple times biogeographic regions isolation for millions years. To investigate basis convergence functional changes linked ecomorphological convergence, sequenced annotated 17 new genomes screened 16,426 genes positive selection associations between relative evolutionary rates strategies across 30 species representing all Myotis ecomorphs geographic as well among sister groups. We identify that describe both phylogenetic trends. infer colonization environments may have first required hearing sensory perception, followed fecundity development, metabolism carbohydrates, heme degradation. These prey acquisition digestion match Our findings also suggest repeated does not always involve same but rather with molecular functions such developmental cellular processes.

Language: Английский

Citations

1
Repeated global adaptation across plant species DOI Creative Commons
Gabriele Nocchi, James R. Whiting, Sam Yeaman

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2024, Volume and Issue: 121(52)

Published: Dec. 20, 2024

Global adaptation occurs when all populations of a species undergo selection toward common optimum. This can occur by hard selective sweep with the emergence new globally advantageous allele that spreads throughout species’ natural range until reaching fixation. evolutionary process leaves temporary trace in region affected, which is detectable using population genomic methods. While sweeps have been identified many species, there few comparative and systematic studies genes involved global adaptation. Building upon recent findings showing repeated genetic basis local across independent we asked whether certain play more significant role driving plant species. To address this question, scanned genomes 17 to identify signals sweeps. Despite substantial distance between analyzed, several gene families strong evidence positive selection. These tend be enriched for reduced pleiotropy, consistent predictions from Fisher’s model cost complexity hypothesis. We also found exhibit elevated levels duplication. Our contrast observations increased pleiotropy adaptation, based on theory migration-selection balance.

Language: Английский

Citations

1
Alternative splicing in parallel evolution and the evolutionary potential in sticklebacks DOI
Man Luo, Juntao Hu

Journal of Animal Ecology, Journal Year: 2024, Volume and Issue: 93(9), P. 1392 - 1405

Published: July 26, 2024

Abstract Repeatability of adaptation to similar environments provides opportunity evaluate the predictability natural selection. While many studies have investigated gene expression differences between populations adapted contrasting environments, role post‐transcriptional processes such as alternative splicing has rarely been evaluated in context parallel adaptation. To address aforementioned knowledge gap, we reanalysed transcriptomic data from three pairs threespine stickleback ( Gasterosteus aculeatus ) ecotypes marine or freshwater environment. First, identified genes with repeated divergence across ecotype pairs, and compared genetic architecture biological parallelly expressed spliced loci. Second, analysed extent which was reflected at levels. Finally, tested how two axes transcriptional variation differed their potential for evolutionary change. Although both differential showed tendency divergence, degree parallelism lower than expression. Furthermore, divergences were likely be associated distinct cis ‐regulatory variants functionally unique set genes. found that higher nucleotide diversity genes, indicating is less susceptible erosion during Our results provide novel insight into adaptation, underscore contribution wild under environmental

Language: Английский

Citations

0